Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘s3_check_for_file.R’ ‘s3_file_size.R’ ‘s3_get.Rd’ ‘s3_get_files.R’
    ‘s3_parse_uri.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘fit_density_ratio.R’ ‘fit_plug_and_play.R’
Maintainer: ‘Zhongyang Zhang <zhongyang.zhang@mssm.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Zhongyang",
                      family = "Zhang",
                      role = c("aut", "cre"),
                      email = "zhongyang.zhang@mssm.edu"),
               person(given = "Ke",
                      family = "Hao",
                      role = "aut"),
               person(given = c("Nancy", "R."),
                      family = "Zhang",
                      role = "ctb"))
as necessary.
Maintainer: ‘Jakub Nowosad <nowosad.jakub@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Zhong Guan <zguan@iusb.edu>’

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  Authors@R: person(given = "Zhong",
                    family = "Guan",
                    role = c("aut", "cre"),
                    email = "zguan@iusb.edu")
as necessary.
checkRd: (-1) BootsChapt.Rd:38: Escaped LaTeX specials: \&
checkRd: (-1) SemiparChangePoint.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) schapt.Rd:44: Escaped LaTeX specials: \&
Maintainer: ‘Rampal S. Etienne <r.s.etienne@rug.nl>’

No Authors@R field in DESCRIPTION.
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  Authors@R: c(person(given = c("Rampal", "S.", "Etienne", "&", "Bart"),
                      family = "Haegeman",
                      role = "aut"),
               person(given = c("Rampal", "S."),
                      family = "Etienne",
                      role = "cre",
                      email = "r.s.etienne@rug.nl"))
as necessary.
Maintainer: ‘Sheerin Dahwan Aziz <sheerindahwan@gmail.com>’

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  Authors@R: c(person(given = "Azka",
                      family = "Ubaidillah",
                      role = "aut"),
               person(given = c("Sheerin", "Dahwan"),
                      family = "Aziz",
                      role = c("aut", "cre"),
                      email = "sheerindahwan@gmail.com"))
as necessary.
Maintainer: ‘Rizki Ananda Fauziah <rizkiananda133@gmail.com>’

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  Authors@R: c(person(given = c("Rizki", "Ananda"),
                      family = "Fauziah",
                      role = c("aut", "cre"),
                      email = "rizkiananda133@gmail.com"),
               person(given = c("Ika", "Yuni"),
                      family = "Wulansari",
                      role = "aut"))
as necessary.
Maintainer: ‘Velia Tri Marliana <221810642@stis.ac.id>’

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  Authors@R: c(person(given = c("Velia", "Tri"),
                      family = "Marliana",
                      role = c("aut", "cre"),
                      email = "221810642@stis.ac.id"),
               person(given = "Azka",
                      family = "Ubaidillah",
                      role = "aut"))
as necessary.
Maintainer: ‘Rizqina Rahmati <221810583@stis.ac.id>’

No Authors@R field in DESCRIPTION.
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  Authors@R: c(person(given = "Rizqina",
                      family = "Rahmati",
                      role = c("aut", "cre"),
                      email = "221810583@stis.ac.id"),
               person(given = "Azka",
                      family = "Ubaidillah",
                      role = "aut"))
as necessary.
Maintainer: ‘Wicak Surya Hasani <221710052@stis.ac.id>’

No Authors@R field in DESCRIPTION.
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  Authors@R: c(person(given = c("Wicak", "Surya"),
                      family = "Hasani",
                      role = c("aut", "cre"),
                      email = "221710052@stis.ac.id"),
               person(given = "Azka",
                      family = "Ubaidillah",
                      role = "aut"))
as necessary.
Maintainer: ‘Yolanda Marhuenda <y.marhuenda@umh.es>’

No Authors@R field in DESCRIPTION.
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  Authors@R: c(person(given = "Isabel",
                      family = "Molina",
                      role = "aut"),
               person(given = "Yolanda",
                      family = "Marhuenda",
                      role = c("aut", "cre"),
                      email = "y.marhuenda@umh.es"))
as necessary.
Maintainer: ‘Sebastian Warnholz <wahani@gmail.com>’

No Authors@R field in DESCRIPTION.
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  Authors@R: person(given = "Sebastian",
                    family = "Warnholz",
                    role = c("aut", "cre"),
                    email = "wahani@gmail.com")
as necessary.
Maintainer: ‘Asun Lubiano <lubiano@uniovi.es>’

No Authors@R field in DESCRIPTION.
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  Authors@R: c(person(given = "Wolfgang",
                      family = "Trutschnig",
                      role = "aut",
                      email = "wolfgang@trutschnig.net"),
               person(given = "Asun",
                      family = "Lubiano",
                      role = c("aut", "cre"),
                      email = "lubiano@uniovi.es"))
as necessary.
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Alexander Ly <a.ly@jasp-stats.org>’

The Description field contains
  (2019) "Safe Testing" <arXiv:1906.07801>, for details on safe logrank
  Horizon" <arXiv:2011.06931v3> and Turner, Ly and Grunwald (2021) "Safe
  beyond" <arXiv:2106.02693> for details on safe contingency table tests.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Santos J. González-Rojí <santosjose.gonzalez@ehu.eus>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘Dragonera.Rd’:
    https://doi.org/10.1016/j.apenergy.2017.09.030
  File ‘EstacaDeBares.Rd’:
    https://doi.org/10.1016/j.oceaneng.2015.05.038
    https://doi.org/10.1109/JOE.2016.2529400
  File ‘SailoR-package.Rd’:
    https://doi.org/10.5194/gmd-13-3221-2020
  File ‘WRF.Rd’:
    https://doi.org/10.1002/2017JD027511
    https://doi.org/10.1007/s00382-019-04673-9
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘class-2-differential.r’ ‘dual-apply.r’ ‘dual-math.r’
    ‘dual-summary.r’ ‘dual-test-near-equality.r’ ‘dual.r’ ‘dualFun1.Rd’
Maintainer: ‘Yuwen Gu <yuwen.gu@uconn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yuwen",
                      family = "Gu",
                      role = c("aut", "cre"),
                      email = "yuwen.gu@uconn.edu"),
               person(given = "Hui",
                      family = "Zou",
                      role = "aut",
                      email = "zouxx019@umn.edu"))
as necessary.
Maintainer: ‘Scott Vander Wiel <scottv@lanl.gov>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hannah",
                      family = "Director",
                      role = "aut"),
               person(given = c("Scott", "Vander"),
                      family = "Wiel",
                      role = c("aut", "cre"),
                      email = "scottv@lanl.gov"),
               person(given = "James",
                      family = "Gattiker",
                      role = "aut"))
as necessary.
Maintainer: ‘Alexander Rix <alexrix@umich.edu>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘approxdist.Rd’:
    https://doi.org/10.1101/2019.12.26.19015859
  File ‘nonlogistic.Rd’:
    https://doi.org/10.1101/2019.12.26.19015859
  File ‘obsloglik.Rd’:
    https://doi.org/10.1101/2019.12.26.19015859
  File ‘obsloglikEM.Rd’:
    https://doi.org/10.1101/2019.12.26.19015859
  File ‘sensitivity.Rd’:
    https://doi.org/10.1101/2019.12.26.19015859
Maintainer: ‘Norbert Krautenbacher <norbert.krautenbacher@tum.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Norbert",
                      family = "Krautenbacher",
                      role = c("aut", "cre"),
                      email = "norbert.krautenbacher@tum.de"),
               person(given = "Kevin",
                      family = "Strauss",
                      role = "aut"),
               person(given = "Maximilian",
                      family = "Mandl",
                      role = "aut"),
               person(given = "Christiane",
                      family = "Fuchs",
                      role = "aut"))
as necessary.
Found the following (possibly) invalid URLs:
  URL: ../doc/performance.html
    From: man/absorption.Rd
  URL: ../doc/performance.html
    From: man/cond_passage.Rd
  URL: ../doc/performance.html
    From: man/dispersal.Rd
  URL: ../doc/performance.html
    From: man/distribution.Rd
  URL: ../doc/performance.html
    From: man/mortality.Rd
  URL: ../doc/performance.html
    From: man/survival.Rd
  URL: ../doc/performance.html
    From: man/visitation.Rd
  URL: ../doc/performance.html
    From: man/visitation_net.Rd
Maintainer: ‘Michael Baldassaro <mbaldassaro@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Michael",
                    family = "Baldassaro",
                    role = c("aut", "cre"),
                    email = "mbaldassaro@gmail.com")
as necessary.
Maintainer: ‘Arne Henningsen <arne.henningsen@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) binaryChoice.Rd:105: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) binaryChoice.Rd:106: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) binaryChoice.Rd:111: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) binaryChoice.Rd:112: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) binaryChoice.Rd:113: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) binaryChoice.Rd:114: Lost braces in \itemize; \value handles \item{}{} directly
Running ‘Mroz87SelectionTest.R’ [3s/4s]
  Comparing ‘Mroz87SelectionTest.Rout’ to ‘Mroz87SelectionTest.Rout.save’ ... OK
  Running ‘binarySelectionOutcome.R’ [8s/9s]
  Comparing ‘binarySelectionOutcome.Rout’ to ‘binarySelectionOutcome.Rout.save’ ... OK
  Running ‘fail.R’ [2s/2s]
  Comparing ‘fail.Rout’ to ‘fail.Rout.save’ ... OK
  Running ‘heckitIvTest.R’ [2s/2s]
  Comparing ‘heckitIvTest.Rout’ to ‘heckitIvTest.Rout.save’ ... OK
  Running ‘intervalTest.R’ [10s/12s]
  Comparing ‘intervalTest.Rout’ to ‘intervalTest.Rout.save’ ... OK
  Running ‘invMillsRatioTest.R’ [9s/12s]
  Comparing ‘invMillsRatioTest.Rout’ to ‘invMillsRatioTest.Rout.save’ ...30a31,37
> 
> Attaching package: 'VGAM'
> 
> The following object is masked from 'package:sampleSelection':
> 
>     probit
> 
75a83,84
> 
> No Hauck-Donner effect found in any of the estimates
  Running ‘probit.R’ [3s/3s]
  Comparing ‘probit.Rout’ to ‘probit.Rout.save’ ... OK
  Running ‘selection.R’ [10s/13s]
  Comparing ‘selection.Rout’ to ‘selection.Rout.save’ ... OK
Maintainer: ‘Hongchao Qi <hcqi1992@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hongchao",
                      family = "Qi",
                      role = c("aut", "cre"),
                      email = "hcqi1992@gmail.com"),
               person(given = "Fang",
                      family = "Zhu",
                      role = "aut"))
as necessary.
Maintainer: ‘Hugo Andres Gutierrez Rojas <hagutierrezro@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Hugo", "Andres", "Gutierrez"),
                    family = "Rojas",
                    role = c("aut", "cre"),
                    email = "hagutierrezro@gmail.com")
as necessary.
Maintainer: ‘William Wheeler <WheelerB@imsweb.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Mitchell", "H."),
                      family = "Gail",
                      role = "aut"),
               person(given = "William",
                      family = "Wheeler",
                      role = "cre",
                      email = "WheelerB@imsweb.com"))
as necessary.
Maintainer: ‘Ralph Scherer <shearer.ra76@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ralph",
                    family = "Scherer",
                    role = c("aut", "cre"),
                    email = "shearer.ra76@gmail.com")
as necessary.
Maintainer: ‘Jonathan Lisic <jlisic@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jonathan",
                      family = "Lisic",
                      role = c("aut", "cre"),
                      email = "jlisic@gmail.com"),
               person(given = "Anton",
                      family = "Grafström",
                      role = "aut"))
as necessary.
Maintainer: ‘Juliane Manitz <r@manitz.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Juliane",
                      family = "Manitz",
                      role = c("aut", "cre"),
                      email = "r@manitz.org"),
               person(given = "Mark",
                      family = "Hempelmann",
                      role = "ctb"),
               person(given = "Goeran",
                      family = "Kauermann",
                      role = "ctb"),
               person(given = "Helmut",
                      family = "Kuechenhoff",
                      role = "aut"),
               person(given = "Shuai",
                      family = "Shao",
                      role = "ctb"),
               person(given = "Cornelia",
                      family = "Oberhauser",
                      role = "ctb"),
               person(given = "Nina",
                      family = "Westerheide",
                      role = "ctb"),
               person(given = "Manuel",
                      family = "Wiesenfarth",
                      role = "ctb"))
as necessary.
Maintainer: ‘Diana Trutschel <Diana.Trutschel@dzne.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Diana",
                      family = "Trutschel",
                      role = c("aut", "cre"),
                      email = "diana.trutschel@dzne.de"),
               person(given = "Hendrik",
                      family = "Treutler",
                      role = "aut"))
as necessary.
Maintainer: ‘Emilio Lopez Escobar <emilio@quantos.mx>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Emilio", "Lopez"),
                      family = "Escobar",
                      role = c("aut", "cre", "cph"),
                      email = "emilio@quantos.mx"),
               person(given = c("Ernesto", "Barrios"),
                      family = "Zamudio",
                      role = "ctb",
                      email = "ebarrios@itam.mx"),
               person(given = c("Juan", "Francisco", "Munoz"),
                      family = "Rosas",
                      role = "ctb",
                      email = "jfmunoz@go.ugr.es"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Found the following (possibly) invalid URL:
  URL: ../reference/index.html
    From: inst/doc/samplr.html
Maintainer: ‘Haoming Jiang <jianghm.ustc@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Haoming",
                      family = "Jiang",
                      role = c("aut", "cre"),
                      email = "jianghm.ustc@gmail.com"),
               person(given = "Yukun",
                      family = "Ma",
                      role = "aut"),
               person(given = "Han",
                      family = "Liu",
                      role = "aut"),
               person(given = "Kathryn",
                      family = "Roeder",
                      role = "aut"),
               person(given = "Xingguo",
                      family = "Li",
                      role = "aut"),
               person(given = "Tuo",
                      family = "Zhao",
                      role = "aut"))
as necessary.
Obsolete C++11 standard request will be ignored
Maintainer: ‘Rob Tibshirani <tibs@stanford.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "R.",
                      family = "Tibshirani",
                      role = "aut"),
               person(given = c("Michael", "J."),
                      family = "Seo",
                      role = "aut"),
               person(given = "G.",
                      family = "Chu",
                      role = "aut"),
               person(given = "Balasubramanian",
                      family = "Narasimhan",
                      role = "aut"),
               person(given = "Jun",
                      family = "Li",
                      role = "aut"),
               person(given = "Rob",
                      family = "Tibshirani",
                      role = "cre",
                      email = "tibs@stanford.edu"))
as necessary.
checkRd: (-1) SAM.Rd:67: Escaped LaTeX specials: \$
checkRd: (-1) samr.Rd:59: Escaped LaTeX specials: \$
checkRd: (-1) samr.Rd:84: Escaped LaTeX specials: \# \$
checkRd: (-1) samr.Rd:88: Escaped LaTeX specials: \$
checkRd: (-1) samr.Rd:92: Escaped LaTeX specials: \$
checkRd: (-1) samr.Rd:97: Escaped LaTeX specials: \#
checkRd: (-1) samr.assess.samplesize.plot.Rd:12: Escaped LaTeX specials: \#
Maintainer: ‘Jiayi Ji <Jiayi.Ji@mountsinai.org>’

The Description field contains
  cancer data <arXiv:2012.06093>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Alireza S. Mahani <alireza.s.mahani@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Mansour", "T.A."),
                      family = "Sharabiani",
                      role = "aut"),
               person(given = c("Alireza", "S."),
                      family = "Mahani",
                      role = c("aut", "cre"),
                      email = "alireza.s.mahani@gmail.com"))
as necessary.
Maintainer: ‘Robert Myles McDonnell <robertmylesmcdonnell@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Robert", "Myles"),
                    family = "McDonnell",
                    role = c("aut", "cre"),
                    email = "robertmylesmcdonnell@gmail.com")
as necessary.
Maintainer: ‘Dirk Eddelbuettel <edd@debian.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Dirk",
                    family = "Eddelbuettel",
                    role = c("aut", "cre"),
                    email = "edd@debian.org")
as necessary.
Maintainer: ‘Gábor Csárdi <csardi.gabor@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Gábor",
                      family = "Csárdi",
                      role = c("aut", "cre"),
                      email = "csardi.gabor@gmail.com"),
               person(given = "January",
                      family = "Weiner",
                      role = "aut"))
as necessary.
Maintainer: ‘Atsushi Kawaguchi <kawa_a24@yahoo.co.jp>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Atsushi",
                    family = "Kawaguchi",
                    role = c("aut", "cre"),
                    email = "kawa_a24@yahoo.co.jp")
as necessary.
Maintainer: ‘Murtaza Nasir <mail@murtaza.cc>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘cmc_psat.Rd’ ‘h-fun.R’ ‘mc-test.R’ ‘tshift.R’
Maintainer: ‘Masami Saga <msaga@mtb.biglobe.ne.jp>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("The", "Institute", "of", "Statistical"),
                      family = "Mathematics",
                      role = "aut"),
               person(given = "Masami",
                      family = "Saga",
                      role = "cre",
                      email = "msaga@mtb.biglobe.ne.jp"))
as necessary.
Maintainer: ‘Stuart K. Grange <stuart.grange@york.ac.uk>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Found the following (possibly) invalid URL:
  URL: ../For_kapittelforfattare/99_Feilmeldinger.qmd
    From: inst/doc/for_chapter_author.html
Running examples in ‘sarp.snowprofile.alignment-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: dtwSP
> ### Title: Calculate DTW alignment of two snow profiles
> ### Aliases: dtwSP
> 
> ### ** Examples
> 
> 
> ## Align a modeled and a manual snow profile, primarily based on default settings:
> dtwAlignment <- dtwSP(SPpairs$A_modeled, SPpairs$A_manual, open.end = FALSE)
Error in r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0] : 
  non-numeric argument to binary operator
Calls: dtwSP ... format_snowprofileLayers -> snowprofileLayers -> diff -> diff.default
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘sarp.snowprofile.Rmd’ using rmarkdown

Quitting from sarp.snowprofile.Rmd:45-47 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `r[i1] - r[if (lag < (len <- length(r))) -len:-(len - lag + 1L) else i0]`:
! non-numeric argument to binary operator
---
Backtrace:
    ▆
 1. └─sarp.snowprofile::snowprofile(dropNAs = FALSE)
 2.   ├─base::colnames(layers)
 3.   │ └─base::is.data.frame(x)
 4.   └─sarp.snowprofile::snowprofileLayers(dropNAs = FALSE, validate = FALSE)
 5.     ├─base::diff(sapply(entries[!is.na(entries)], length))
 6.     └─base::diff.default(sapply(entries[!is.na(entries)], length))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'sarp.snowprofile.Rmd' failed with diagnostics:
non-numeric argument to binary operator
--- failed re-building ‘sarp.snowprofile.Rmd’

SUMMARY: processing the following file failed:
  ‘sarp.snowprofile.Rmd’

Error: Vignette re-building failed.
Execution halted
Maintainer: ‘Steven Walker <steve.walker@utoronto.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Original", "by"),
                      family = "Littell",
                      role = "aut"),
               person(family = "Milliken",
                      role = "aut"),
               person(family = "Stroup",
                      role = "aut"),
               person(family = "Wolfinger",
                      role = "aut"),
               person(given = c("modifications", "by", "Douglas"),
                      family = "Bates",
                      role = "aut",
                      email = "bates@stat.wisc.edu"),
               person(given = "Martin",
                      family = "Maechler",
                      role = "aut"),
               person(given = "Ben",
                      family = "Bolker",
                      role = "aut"),
               person(given = "Steven",
                      family = "Walker",
                      role = c("aut", "cre"),
                      email = "steve.walker@utoronto.ca"))
as necessary.
checkRd: (-1) gen.ds.Rd:43-48: Lost braces in \itemize; meant \describe ?
checkRd: (-1) gen.ds.Rd:50-53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) gen.ds.Rd:64-65: Lost braces
    64 |    \item{the dependence parameter \code{dep} or the vector of dependence parameters \code{dep}. When missing, these coefficients are obtained from independent standard uniform sampling.
       |         ^
checkRd: (-1) gen.ds.Rd:66: Lost braces
    66 |    \item{the list \code{asy} of asymmetric weights \eqn{\beta_{i,b}} for \eqn{b \in B}  and \eqn{i \in b}. When missing, these coefficients are obtained from independent standard uniform sampling followed by renormalization in order to satisfy the sum-to-one constraints.}
       |         ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘as_SpatRaster.Rd’ ‘clip_bands.Rd’ ‘get_band_names.Rd’
    ‘get_spatial_resolution.Rd’ ‘get_spectral_band_names.Rd’
    ‘merge_tiles.Rd’ ‘save_by_resolution.Rd’ ‘select_bands.Rd’
Maintainer: ‘Bill Wheeler <wheelerb@imsweb.com>’

Strong dependencies not in the CRAN or BioC software repositories:
  BSgenome.Hsapiens.UCSC.hg19, BSgenome.Hsapiens.UCSC.hg38
Maintainer: ‘Mo Huang <mohuangx@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘SAVER-package.Rd’:
    https://doi.org/10.1038/s41592-018-0033-z
Maintainer: ‘Michael P. Fay <mfay@niaid.nih.gov>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Michael", "P."),
                    family = "Fay",
                    role = c("aut", "cre"),
                    email = "mfay@niaid.nih.gov")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Tiago Santos <teixeiradossantos@tugraz.at>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Layla Parast <parast@austin.utexas.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Layla",
                    family = "Parast",
                    role = c("aut", "cre"),
                    email = "parast@austin.utexas.edu")
as necessary.
Maintainer: ‘Viktoriya Krakovna <vkrakovna@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Viktoriya",
                    family = "Krakovna",
                    role = c("aut", "cre"),
                    email = "vkrakovna@gmail.com")
as necessary.

The Description field contains
  (2015), <arXiv:1506.02371>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) setData.ReducedRankRegressions.Rd:14-16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setData.ReducedRankRegressions.Rd:17-18: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Meiyue Wang <mwang024@ucr.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Meiyue",
                      family = "Wang",
                      role = c("aut", "cre"),
                      email = "mwang024@ucr.edu"),
               person(given = "Shizhong",
                      family = "Xu",
                      role = "aut"))
as necessary.
Maintainer: ‘Arash A. Amini <amini.aa@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Arash", "A."),
                    family = "Amini",
                    role = c("aut", "cre"),
                    email = "amini.aa@gmail.com")
as necessary.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘sbmSDP-package.Rd’:
    \keyword{ 
      community detection
      stochastic block mo [TRUNCATED]
Maintainer: ‘Matthew Ludkin <m.ludkin1@lancaster.ac.uk>’

The Description field contains
  <doi:10.1080/10618600.2000.10474879>; Ludkin (2019) <arXiv:1909.09421>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘drawblock.dp.Rd’:
    http://doi.org/10.17635/lancaster/thesis/296
  File ‘sampler.dp.Rd’:
    http://doi.org/10.17635/lancaster/thesis/296
  File ‘sampler.rj.Rd’:
    http://doi.org/10.17635/lancaster/thesis/296
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Updated help pages with examples
    Updated conjugate model sampler
Maintainer: ‘Frank D. Mann <frankdmann@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Frank", "D."),
                    family = "Mann",
                    role = c("aut", "cre"),
                    email = "frankdmann@gmail.com")
as necessary.
Maintainer: ‘Simon Urbanek <simon.urbanek@r-project.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Lee",
                      family = "Wilkinson",
                      role = "aut",
                      email = "leland.wilkinson@gmail.com"),
               person(given = "Anushka",
                      family = "Anand",
                      role = "aut"),
               person(given = "Simon",
                      family = "Urbanek",
                      role = "cre",
                      email = "simon.urbanek@r-project.org"))
as necessary.
License stub is invalid DCF.
Maintainer: ‘Niloy Biswas <niloy_biswas@g.harvard.edu>’

The Description field contains
  <arXiv:2204.01668>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Author field differs from that derived from Authors@R
  Author:    ‘Hadley Wickham [aut], Thomas Lin Pedersen [cre, aut] (<https://orcid.org/0000-0002-5147-4711>), Dana Seidel [aut], Posit Software, PBC [cph, fnd] (03wc8by49)’
  Authors@R: ‘Hadley Wickham [aut], Thomas Lin Pedersen [cre, aut] (ORCID: <https://orcid.org/0000-0002-5147-4711>), Dana Seidel [aut], Posit Software, PBC [cph, fnd] (ROR: <https://ror.org/03wc8by49>)’
Maintainer: ‘Tingni Sun <tingni@wharton.upenn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tingni",
                    family = "Sun",
                    role = c("aut", "cre"),
                    email = "tingni@wharton.upenn.edu")
as necessary.
Maintainer: ‘Xudong Han <hanxd1217@163.com>’

The Description field contains
  Thomas N. Kipf (2017) <arXiv:1609.02907v4>) to construct the gene-cell
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) get.events.Rd:51: Lost braces
    51 |   code{\link[deSolve]{events}}
       |       ^
Found the following (possibly) invalid URLs:
  URL: ../inst/images/scaRabee_network_1.svg
    From: inst/doc/manual.html
  URL: ../inst/images/scaRabee_network_2.svg
    From: inst/doc/manual.html
Maintainer: ‘Martin Maechler <maechler@stat.math.ethz.ch>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Valentin",
                      family = "Rousson",
                      role = "aut",
                      email = "rousson@ifspm.unizh.ch"),
               person(given = "Martin",
                      family = "Maechler",
                      role = c("aut", "cre"),
                      email = "maechler@stat.math.ethz.ch"))
as necessary.
Maintainer: ‘Yining Chen <y.chen101@lse.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yining",
                      family = "Chen",
                      role = c("aut", "cre"),
                      email = "y.chen101@lse.ac.uk"),
               person(given = "Richard",
                      family = "Samworth",
                      role = "aut"))
as necessary.
Maintainer: ‘Ravi Selker <selker.ravi@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ravi",
                    family = "Selker",
                    role = c("aut", "cre"),
                    email = "selker.ravi@gmail.com")
as necessary.
checkRd: (-1) scatterD3.Rd:209: Lost braces; missing escapes or markup?
   209 | {https://github.com/skokenes/D3-Lasso-Plugin}{d3-lasso-plugin} feature}
       | ^
checkRd: (-1) scatterD3.Rd:209: Lost braces
   209 | {https://github.com/skokenes/D3-Lasso-Plugin}{d3-lasso-plugin} feature}
       |                                              ^
Maintainer: ‘Uwe Ligges <ligges@statistik.tu-dortmund.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Uwe",
                      family = "Ligges",
                      role = c("aut", "cre"),
                      email = "ligges@statistik.tu-dortmund.de"),
               person(given = "Martin",
                      family = "Maechler",
                      role = "aut"),
               person(given = "Sarah",
                      family = "Schnackenberg",
                      role = "aut"))
as necessary.
Maintainer: ‘Amit Frishberg <amfrishberg@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Amit",
                      family = "Frishberg",
                      role = c("aut", "cre"),
                      email = "amfrishberg@gmail.com"),
               person(given = "Naama",
                      family = "Peshes-Yaloz",
                      role = "aut"),
               person(given = "Irit",
                      family = "Gat-Viks",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Blair Drummond <blair.robert.drummond@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Blair",
                      family = "Drummomd",
                      role = "aut"),
               person(given = "Mathieu",
                      family = "Dextraze",
                      role = "ctb"),
               person(given = "Blair",
                      family = "Drummond",
                      role = "cre",
                      email = "blair.robert.drummond@gmail.com"))
as necessary.

Found the following (possibly) invalid URLs:
  URL: ihttps://qub.mandelics.com/
    From: inst/doc/scbursts.pdf
    Message: Invalid URI scheme

Found the following (possibly) invalid file URI:
  URI: :https://github.com/DCPROGS.pdf
    From: inst/doc/scbursts.pdf
Maintainer: ‘Xin Shao<xin_shao@zju.edu.cn>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Xin",
                    family = "Shao",
                    role = c("aut", "cre"),
                    email = "xin_shao@zju.edu.cn")
as necessary.
Maintainer: ‘Alexander Marx <amarx@mpi-inf.mpg.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Alexander",
                    family = "Marx",
                    role = c("aut", "cre"),
                    email = "amarx@mpi-inf.mpg.de")
as necessary.
Maintainer: ‘Alicja Wolny-Dominiak<woali@ue.katowice.pl>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Peter",
                      family = "Adamic",
                      role = "aut"),
               person(given = "Alicja",
                      family = "Wolny-Dominiak",
                      role = c("aut", "cre"),
                      email = "woali@ue.katowice.pl"))
as necessary.
Maintainer: ‘"Yonas Ghebremichael Weldeselassie" <yonas.weldeselassie@open.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Yonas", "Ghebremichael"),
                      family = "Weldeselassie",
                      role = "aut"),
               person(given = "Heather",
                      family = "Whitaker",
                      role = "aut"),
               person(given = "Paddy",
                      family = "Farrington",
                      role = "aut"),
               person(given = c("\"Yonas", "Ghebremichael"),
                      family = "Weldeselassie\"",
                      role = "cre",
                      email = "yonas.weldeselassie@open.ac.uk"))
as necessary.
'library' or 'require' calls not declared from:
  ‘doSNOW’ ‘foreach’ ‘iterators’ ‘reshape’ ‘rlecuyer’ ‘snow’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘nap.R’ ‘randomization_test.R’ ‘scdtb.R’
Maintainer: ‘Daisuke Murakami <dmuraka@ism.ac.jp>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Daisuke",
                      family = "Murakami",
                      role = c("cre", "aut"),
                      email = "dmuraka@ism.ac.jp"),
               person(given = "Narumasa",
                      family = "Tsutsumida",
                      role = "ctb"),
               person(given = "Takahiro",
                      family = "Yoshida",
                      role = "ctb"),
               person(given = "Tomoki",
                      family = "Nakaya",
                      role = "ctb"),
               person(given = "Lu",
                      family = "Binbin",
                      role = "ctb"))
as necessary.

The Description field contains
  <arXiv:1905.00266>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Jeffrey A. Dahlke <jeff.dahlke.phd@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Jeffrey", "A."),
                    family = "Dahlke",
                    role = c("aut", "cre"),
                    email = "jeff.dahlke.phd@gmail.com")
as necessary.
Maintainer: ‘Stuart Baumann <Stuart@StuartBaumann.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Stuart",
                      family = "Baumann",
                      role = c("aut", "cre"),
                      email = "stuart@stuartbaumann.com"),
               person(given = "Margaryta",
                      family = "Klymak",
                      role = "aut"))
as necessary.
Maintainer: ‘Nathan Taback <nathan.taback@utoronto.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Nathan",
                    family = "Taback",
                    role = c("aut", "cre"),
                    email = "nathan.taback@utoronto.ca")
as necessary.
Maintainer: ‘Ashraf Uddin <mdaakib18@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ashraf",
                    family = "Uddin",
                    role = c("aut", "cre"),
                    email = "mdaakib18@gmail.com")
as necessary.
Maintainer: ‘Ze Zhang <Ze.Zhang@utsouthwestern.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ze",
                    family = "Zhang",
                    role = c("aut", "cre"),
                    email = "ze.zhang@utsouthwestern.edu")
as necessary.
Maintainer: ‘Manuel Morales <Manuel.A.Morales@williams.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Manuel",
                      family = "Morales",
                      role = c("aut", "cre"),
                      email = "mmorales@williams.edu"),
               person(given = c("with", "code", "developed", "by", "the", "R", "Development", "Core"),
                      family = "Team",
                      role = "aut"),
               person(given = c("with", "general", "advice", "from", "the", "R-help", "listserv"),
                      family = "community",
                      role = "aut"),
               person(given = c("especially", "Duncan"),
                      family = "Murdoch.",
                      role = "aut"))
as necessary.
Maintainer: ‘Obinna Obianom <idonshayo@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Obinna",
                    family = "Obianom",
                    role = c("aut", "cre"),
                    email = "idonshayo@gmail.com")
as necessary.

The BugReports field in DESCRIPTION has
  https://github.com/oobianom/sciRmdTheme
which should likely be
  https://github.com/oobianom/sciRmdTheme/issues
instead.
Maintainer: ‘Duc Tran <duct@nevada.unr.edu>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Tamal Kumar De <tamalkumar.de@kuleuven.be>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Isis",
                      family = "Bulte",
                      role = "aut"),
               person(given = c("Tamal", "Kumar"),
                      family = "De",
                      role = c("aut", "cre"),
                      email = "tamalkumar.de@kuleuven.be"),
               person(given = "Patrick",
                      family = "Onghena",
                      role = "aut"))
as necessary.
Obsolete C++11 standard request will be ignored
Maintainer: ‘Gabriele Lubatti <gabriele.lubatti@helmholtz-muenchen.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Gabriele",
                    family = "Lubatti",
                    role = c("aut", "cre"),
                    email = "gabriele.lubatti@helmholtz-muenchen.de")
as necessary.
Maintainer: ‘Wenlong Ren <wenlongren@ntu.edu.cn>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Wenlong",
                    family = "Ren",
                    role = c("aut", "cre"),
                    email = "wenlongren@ntu.edu.cn")
as necessary.
Maintainer: ‘Shota Ochi <shotaochi1990@gmail.com>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘ecgca102.Rd’:
    https://doi.org/10.13026/C2X30H
Maintainer: ‘Jaejoon Song <jjsong2@mdanderson.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jaejoon",
                    family = "Song",
                    role = c("aut", "cre"),
                    email = "jjsong2@mdanderson.org")
as necessary.
Maintainer: ‘Ed Merkle <merklee@missouri.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ed",
                    family = "Merkle",
                    role = c("aut", "cre"),
                    email = "merklee@missouri.edu")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Debsurya De <debsurya001@gmail.com>’

The Description field contains
  <arXiv:1909.04024> .
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Chakkrit Tantithamthavorn <kla@chakkrit.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Chakkrit",
                    family = "Tantithamthavorn",
                    role = c("aut", "cre"),
                    email = "kla@chakkrit.com")
as necessary.
Maintainer: ‘Daniela M. Witten <dwitten@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Daniela", "M."),
                      family = "Witten",
                      role = c("aut", "cre"),
                      email = "dwitten@uw.edu"),
               person(given = "Robert",
                      family = "Tibshirani",
                      role = "aut"))
as necessary.
Maintainer: ‘Marlene Marchena <marchenamarlene@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Marlene",
                    family = "Marchena",
                    role = c("aut", "cre"),
                    email = "marchenamarlene@gmail.com")
as necessary.

The Description field contains
  <arXiv:1009.3977>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Stefan Peidli <stefanpeidli@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Stefan",
                    family = "Peidli",
                    role = c("aut", "cre"),
                    email = "stefanpeidli@gmail.com")
as necessary.
Maintainer: ‘Viswanadham Sridhara <Sridhara.Omics@gmail.com>’

Strong dependencies not in the CRAN or BioC software repositories:
  celldex
Maintainer: ‘Julien Boelaert <jubo.stats@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Julien",
                    family = "Boelaert",
                    role = c("aut", "cre"),
                    email = "jubo.stats@gmail.com")
as necessary.
Maintainer: ‘Qi Zhang <karlmzhang@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Pengsheng",
                      family = "Ji",
                      role = "aut"),
               person(given = "Jiashun",
                      family = "Jin",
                      role = "aut"),
               person(given = "Qi",
                      family = "Zhang",
                      role = c("aut", "cre"),
                      email = "karlmzhang@gmail.com"))
as necessary.
Maintainer: ‘Elad Romanov <elad.romanov@gmail.com>’

The Description field contains
  appear). <arXiv:2009.12297>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Holger Schwender <holger.schw@gmx.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Holger",
                      family = "Schwender",
                      role = c("aut", "cre"),
                      email = "holger.schw@gmx.de"),
               person(given = c("with", "a", "contribution", "of", "Arno"),
                      family = "Fritsch",
                      role = "aut"))
as necessary.
checkRd: (-1) simulateSNPs.Rd:46: Escaped LaTeX specials: \& \& \&
checkRd: (-1) simulateSNPs.Rd:80: Escaped LaTeX specials: \& \& \&
Maintainer: ‘Sagie Gur-Ari <sagiegurari@gmail.com>’

Found the following (possibly) invalid file URIs:
  URI: docs/api.md
    From: README.md
  URI: .github/CONTRIBUTING.md
    From: README.md
checkRd: (-1) scriptloc.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Get location of script in a fashion analagous to ${BASH_SOURCE[0]}}
       |                                                          ^
Maintainer: ‘Raphaël Bonnet <raphael.bonnet@univ-cotedazur.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Raphael",
                      family = "Bonnet",
                      role = c("aut", "cre")),
               person(given = "Marion",
                      family = "Guernoté",
                      role = "ctb"),
               person(given = "Terry",
                      family = "Gouin",
                      role = "ctb"),
               person(given = "Maxime",
                      family = "Laurens",
                      role = "ctb"),
               person(given = "Thibault",
                      family = "Meekel",
                      role = "ctb"),
               person(given = "Jean-François",
                      family = "Peyron",
                      role = c("aut", "ths")),
               person(given = "Raphaël",
                      family = "Bonnet",
                      role = "cre",
                      email = "raphael.bonnet@univ-cotedazur.fr"))
as necessary.
Maintainer: ‘Andrew Heiss <andrew@andrewheiss.com>’

Found the following (possibly) invalid file URI:
  URI: CONDUCT.md
    From: README.md
Maintainer: ‘Qian Yang <bioqianyang@163.com>’

Strong dependencies not in the CRAN or BioC software repositories:
  ALL

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Qian",
                    family = "Yang",
                    role = c("aut", "cre"),
                    email = "bioqianyang@163.com")
as necessary.
Found the following files/directories:
  ‘untitled_consensus_cluster’
Maintainer: ‘Conor Neilson <condwanaland@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Conor",
                    family = "Neilson",
                    role = c("aut", "cre"),
                    email = "condwanaland@gmail.com")
as necessary.
Maintainer: ‘Tamal Kumar De <tamalkumar.de@kuleuven.be>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Isis",
                      family = "Bulte",
                      role = "aut"),
               person(given = c("Tamal", "Kumar"),
                      family = "De",
                      role = c("aut", "cre"),
                      email = "tamalkumar.de@kuleuven.be"),
               person(given = "Patrick",
                      family = "Onghena",
                      role = "aut"))
as necessary.
Maintainer: ‘Daniel Osorio <dcosorioh@utexas.edu>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Tamal Kumar De <tamalkumar.de@kuleuven.be>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Isis",
                      family = "Bulte",
                      role = "aut"),
               person(given = c("Tamal", "Kumar"),
                      family = "De",
                      role = c("aut", "cre"),
                      email = "tamalkumar.de@kuleuven.be"),
               person(given = "Patrick",
                      family = "Onghena",
                      role = "aut"))
as necessary.
Maintainer: ‘Tobias Verbeke <tobias.verbeke@openanalytics.eu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tobias",
                    family = "Verbeke",
                    role = c("aut", "cre"),
                    email = "tobias.verbeke@openanalytics.eu")
as necessary.
Maintainer: ‘Lilun Du <dulilun@ust.hk>’

The Description field contains
  Aggregation", <arXiv:2002.11992>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) cln.Rd:27: Lost braces
    27 |    case for text \code{1} for 1st uppercase, code{2} for lowercase, code{3} for uppercase (optional)
       |                                                  ^
checkRd: (-1) cln.Rd:27: Lost braces
    27 |    case for text \code{1} for 1st uppercase, code{2} for lowercase, code{3} for uppercase (optional)
       |                                                                         ^
checkRd: (-1) geom_flat_violin.Rd:7: Lost braces
     7 | url{https://gist.github.com/dgrtwo/eb7750e74997891d7c20}
       |    ^
Maintainer: ‘John R. Ortiz <jrortizt@unal.edu.co>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘plot.Rd’:
    https://doi.org/10.25573/data.13118426.v2
checkRd: (-1) sdc_extabs.Rd:59: Lost braces
    59 | (including ]code{forcelist} variables) that can be used to form tables.}
       |                 ^
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Eduardo García-Portugués <edgarcia@est-econ.uc3m.es>’

The BugReports field in DESCRIPTION has
  https://github.com/egarpor/sdetorus
which should likely be
  https://github.com/egarpor/sdetorus/issues
instead.
Maintainer: ‘Takahiro Shimada <taka.shimada@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Takahiro",
                    family = "Shimada",
                    role = c("aut", "cre"),
                    email = "taka.shimada@gmail.com")
as necessary.
checkRd: (-1) hyperpar.Rd:17: Lost braces
    17 | \item{c}{denotes the expected range of eqn{f} .}
       |                                           ^
Maintainer: ‘Benjamin Baumgartner <benjamin@baumgrt.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘assign_meta_data.Rd’
Maintainer: ‘Ali Uenlue <ali.uenlue@icloud.com>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘SDT-package.Rd’:
    https://doi.org/10.1007/978-1-4899-2271-7
    https://doi.org/10.1207/S15327965PLI1104_01
    https://doi.org/10.3389/fpsyg.2016.00272
    https://doi.org/10.2466/14.PR0.117c25z1
  File ‘internalization.Rd’:
    https://doi.org/10.2466/14.PR0.117c25z1
  File ‘plot.sdi.Rd’:
    https://doi.org/10.3389/fpsyg.2016.00272
  File ‘plot.share.Rd’:
    https://doi.org/10.2466/14.PR0.117c25z1
  File ‘print.sdi.Rd’:
    https://doi.org/10.3389/fpsyg.2016.00272
  File ‘print.share.Rd’:
    https://doi.org/10.2466/14.PR0.117c25z1
  File ‘sdi.Rd’:
    https://doi.org/10.3389/fpsyg.2016.00272
  File ‘simplex.Rd’:
    https://doi.org/10.2466/14.PR0.117c25z1
  File ‘summary.sdi.Rd’:
    https://doi.org/10.3389/fpsyg.2016.00272
Maintainer: ‘Boxiang Wang <boxiang-wang@uiowa.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Boxiang",
                      family = "Wang",
                      role = c("aut", "cre"),
                      email = "boxiang-wang@uiowa.edu"),
               person(given = "Hui",
                      family = "Zou",
                      role = "aut"))
as necessary.
Maintainer: ‘Jocelyn Chi <jocetchi@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

The Description field contains
  Hsiao, Lin, Wang, Lee, Lu, and Tzeng. (2021+) <arXiv:2105.03228>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Wei Qian <weiqian@stat.umn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Wei",
                    family = "Qian",
                    role = c("aut", "cre"),
                    email = "weiqian@stat.umn.edu")
as necessary.
Maintainer: ‘Gabriel Becker <gabembecker@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Gabriel",
                    family = "Becker",
                    role = c("aut", "cre"),
                    email = "gabembecker@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘series.R’
Maintainer: ‘Isabella Bitetto <bitetto@coispa.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Isabella",
                      family = "Bitetto",
                      role = c("aut", "cre"),
                      email = "bitetto@coispa.it",
                      comment = "COISPA"),
               person(given = "Loretta",
                      family = "Malvarosa",
                      role = "aut",
                      comment = "NISEA"),
               person(given = c("Maria", "Teresa"),
                      family = "Spedicato",
                      role = "aut",
                      comment = "COISPA"),
               person(given = "Ralf",
                      family = "Doering",
                      role = "aut",
                      comment = "THUENEN"),
               person(given = "Joerg",
                      family = "Berkenhagen",
                      role = "aut",
                      comment = "THUENEN"))
as necessary.
Maintainer: ‘Pavel V. Moskalev <moskalefff@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Pavel", "V."),
                    family = "Moskalev",
                    role = c("aut", "cre"),
                    email = "moskalefff@gmail.com")
as necessary.

The Description field contains
  <arXiv:1105.2334v1>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Found the following (possibly) invalid URLs:
  URL: ../doc/secrdesign-tools.pdf
    From: man/Lambda.Rd
  URL: ../doc/expectedcounts.pdf
    From: man/Lambda.Rd
  URL: ../doc/secrdesign-tools.pdf
    From: man/costing.Rd
  URL: ../doc/secrdesign-manual.pdf
    From: man/secrdesign-package.Rd
File ‘secretbase/libs/secretbase.so’:
  Found non-API call to R: ‘ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Maintainer: ‘Danielle Quinn <danielle.quinn@mun.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Danielle",
                    family = "Quinn",
                    role = c("aut", "cre"),
                    email = "danielle.quinn@mun.ca")
as necessary.
Found the following (possibly) invalid URL:
  URL: ../doc/secrlinear-manual.pdf
    From: man/secrlinear-package.Rd
Maintainer: ‘Jae Keun Yoo <peter.yoo@ewha.ac.kr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Jae", "Keun"),
                      family = "Yoo",
                      role = c("aut", "cre"),
                      email = "peter.yoo@ewha.ac.kr"),
               person(given = "Bo-Young",
                      family = "Kim",
                      role = "aut"))
as necessary.
checkRd: (-1) seedCCA.Rd:17: Lost braces; missing escapes or markup?
    17 | \item{u}{numeric, maximum number of projections. The default is 10. This is used for \code{type="seed1"}, \code{type="seed2"} and {tyepe="pls"}.}
       |                                                                                                                                   ^
Maintainer: ‘Thomas Hoffelder <thomas.hoffelder@boehringer-ingelheim.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Thomas",
                    family = "Hoffelder",
                    role = c("aut", "cre"),
                    email = "thomas.hoffelder@boehringer-ingelheim.com")
as necessary.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘SE.EQ-package.Rd’:
    http://dx.doi.org/10.1080/10543406.2014.920344
    https://doi.org/10.1002/bimj.201700257
    http://dx.doi.org/10.1208/s12248-020-00458-9
  File ‘SE.EQ.Rd’:
    http://dx.doi.org/10.1080/10543406.2014.920344
  File ‘SE.EQ.dissolution.profiles.Rd’:
    http://dx.doi.org/10.1080/10543406.2014.920344
    https://doi.org/10.1002/bimj.201700257
    http://dx.doi.org/10.1208/s12248-020-00458-9
  File ‘ex_data_JoBS.Rd’:
    http://dx.doi.org/10.1080/10543406.2014.920344
Maintainer: ‘Jerome Sueur <sueur@mnhn.fr>’

Found the following (possibly) invalid file URIs:
  URI: Sound analysis and synthesis with R.pdf
    From: inst/doc/seewave_analysis.pdf
  URI: publisher website.pdf
    From: inst/doc/seewave_analysis.pdf
Maintainer: ‘Eleni Ioanna Delatola <eldelatola@yahoo.gr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Eleni", "Ioanna"),
                      family = "Delatola",
                      role = c("aut", "cre"),
                      email = "eldelatola@yahoo.gr"),
               person(given = "Emilie",
                      family = "Lebarbier",
                      role = "aut"),
               person(given = "Tristan",
                      family = "Mary-Huard",
                      role = "aut"),
               person(given = "Francois",
                      family = "Radvanyi",
                      role = "aut"),
               person(given = "Stephane",
                      family = "Robin",
                      role = "aut"),
               person(given = "Jennifer",
                      family = "Wong",
                      role = "aut"))
as necessary.
Maintainer: ‘Rainer Machne <raim@tbi.univie.ac.at>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Rainer",
                      family = "Machne",
                      role = c("aut", "cre"),
                      email = "raim@tbi.univie.ac.at"),
               person(given = c("Douglas", "B."),
                      family = "Murray",
                      role = "aut"),
               person(given = c("Peter", "F."),
                      family = "Stadler",
                      role = "aut"))
as necessary.
Maintainer: ‘Thales Mello <thalesmello@gmail.com>’

The Description field contains
  Leonardi (2018) <arXiv:1501.01756>. The Berlin weather sample dataset
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Michelle Picoli <mipicoli@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Danilo C Vieira <vieiradc@yahoo.com.br>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Danilo", "C"),
                      family = "Vieira",
                      role = c("aut", "cre"),
                      email = "vieiradc@yahoo.com.br"),
               person(given = "Gustavo",
                      family = "Fonseca",
                      role = "aut",
                      email = "gfonseca.unifesp@gmail.com"),
               person(given = c("Fabio", "Cop"),
                      family = "Ferreira",
                      role = "aut",
                      email = "fabiocferreira.unifesp@gmail.com"),
               person(given = c("with", "contributions", "from", "Marco", "Colossi"),
                      family = "Brustolin.",
                      role = "aut"))
as necessary.
Maintainer: ‘Sam Allen <sam.allen@stat.math.ethz.ch>’

Found the following (possibly) invalid file URIs:
  URI: CRAN.R-project.org/package=SEI
    From: inst/doc/SEI_vignette.pdf
  URI: github.com/noeliaof/SEI
    From: inst/doc/SEI_vignette.pdf
Maintainer: ‘Qingyuan Zhao <qingyzhao@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hera",
                      family = "He",
                      role = "aut"),
               person(given = "Murat",
                      family = "Erdogdu",
                      role = "aut"),
               person(given = "Qingyuan",
                      family = "Zhao",
                      role = c("aut", "cre"),
                      email = "qingyzhao@gmail.com"))
as necessary.
Maintainer: ‘Heewon Jeon <madjakarta@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Heewon",
                    family = "Jeon",
                    role = c("aut", "cre"),
                    email = "madjakarta@gmail.com")
as necessary.

The Description field contains
  Sejong(http://www.sejong.or.kr/) corpus and
  Hannanum(http://semanticweb.kaist.ac.kr/home/index.php/HanNanum)
Please enclose URLs in angle brackets (<...>).
Malformed Title field: should not end in a period.
Malformed Description field: should contain one or more complete sentences.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘selcorr.R’
Maintainer: ‘Xuefei Mi <mi_xue_fei@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Xuefei",
                      family = "Mi",
                      role = c("aut", "cre"),
                      email = "mi_xue_fei@hotmail.com"),
               person(given = "Jose",
                      family = "Marulanda",
                      role = "aut"),
               person(given = c("H.", "Friedrich"),
                      family = "Utz",
                      role = "aut"),
               person(given = c("Albrecht", "E."),
                      family = "Melchinger",
                      role = "aut",
                      comment = "Project contact person: Melchinger@uni-hohenheim.de"))
as necessary.
Maintainer: ‘Rob Tibshirani <tibs@stanford.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Ryan",
                      family = "Tibshirani",
                      role = "aut"),
               person(given = "Rob",
                      family = "Tibshirani",
                      role = c("aut", "cre"),
                      email = "tibs@stanford.edu"),
               person(given = "Jonathan",
                      family = "Taylor",
                      role = "aut"),
               person(given = "Joshua",
                      family = "Loftus",
                      role = "aut"),
               person(given = "Stephen",
                      family = "Reid",
                      role = "aut"),
               person(given = "Jelena",
                      family = "Markovic",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘as.list.selenider_elements.Rd’ ‘elem_ancestors.Rd’ ‘elem_attr.Rd’
    ‘elem_cache.Rd’ ‘elem_click.Rd’ ‘elem_css_property.Rd’
    ‘elem_equal.Rd’ ‘elem_expect.Rd’ ‘elem_expect_all.Rd’
    ‘elem_filter.Rd’ ‘elem_flatten.Rd’ ‘elem_hover.Rd’ ‘elem_name.Rd’
    ‘elem_scroll_to.Rd’ ‘elem_select.Rd’ ‘elem_size.Rd’ ‘elem_text.Rd’
    ‘find_each_element.Rd’ ‘find_element.Rd’ ‘find_elements.Rd’
    ‘get_actual_element.Rd’ ‘s.Rd’
Maintainer: ‘Jie Qiao <qiaojie2004@vip.qq.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Bjoern Bornkamp <bbnkmp@mail.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Bjoern",
                    family = "Bornkamp",
                    role = c("aut", "cre"),
                    email = "bbnkmp@mail.de")
as necessary.
Maintainer: ‘Divyansh Agarwal <divyansh@upenn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Divyansh", "Agarwal", "Nancy", "R.", "Zhang"),
                      family = "<nzh@wharton.upenn.edu>",
                      role = "aut",
                      email = "nzh@wharton.upenn.edu"),
               person(given = "Divyansh",
                      family = "Agarwal",
                      role = "cre",
                      email = "divyansh@upenn.edu"))
as necessary.
Maintainer: ‘Kartikeya Bolar <kartikeya.bolar@tapmi.edu.in>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Kartikeya",
                    family = "Bolar",
                    role = c("aut", "cre"),
                    email = "kartikeya.bolar@tapmi.edu.in")
as necessary.
Maintainer: ‘Marko Robnik-Sikonja <marko.robnik@fri.uni-lj.si>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Marko",
                    family = "Robnik-Sikonja",
                    role = c("aut", "cre"),
                    email = "marko.robnik@fri.uni-lj.si")
as necessary.
Maintainer: ‘Yiran Zhang <yiz038@health.ucsd.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Yiran",
                    family = "Zhang",
                    role = c("aut", "cre"),
                    email = "yiz038@health.ucsd.edu")
as necessary.

The Description field contains
  Zhang, Y. and Xu, R. (2022) <arXiv:2204.10426>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Kyu Ha Lee <klee15239@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Kyu", "Ha"),
                      family = "Lee",
                      role = c("aut", "cre"),
                      email = "klee15239@gmail.com"),
               person(given = "Catherine",
                      family = "Lee",
                      role = "aut"),
               person(given = "Danilo",
                      family = "Alvares",
                      role = "aut"),
               person(given = "Sebastien",
                      family = "Haneuse",
                      role = "aut"))
as necessary.
Maintainer: ‘Jinhua Su <944866518@qq.com>’

The Description field contains
  method<arXiv:2108.07928> is an improved method of two-step NR iteration
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Agnieszka Listwon-Krol <krol@lunenfeld.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Agnieszka",
                      family = "Listwon-Krol",
                      role = c("aut", "cre"),
                      email = "krol@lunenfeld.ca"),
               person(given = "Philippe",
                      family = "Saint-Pierre",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/semver.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’
Obsolete C++11 standard request will be ignored
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) sendmail_options.Rd:32-35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sendmail_options.Rd:36-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sendmail_options.Rd:38-39: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Giancarlo Vercellino <giancarlo.vercellino@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Giancarlo",
                    family = "Vercellino",
                    role = c("aut", "cre"),
                    email = "giancarlo.vercellino@gmail.com")
as necessary.
Maintainer: ‘Gustavo Paterno <paternogbc@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) match_dataphy.Rd:37-38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) match_dataphy.Rd:39-41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) match_dataphy.Rd:42-44: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Paul R. Rosenbaum <rosenbaum@wharton.upenn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Paul", "R."),
                      family = "Rosenbaum",
                      role = c("aut", "cre"),
                      email = "rosenbaum@wharton.upenn.edu"),
               person(given = c("Dylan", "S."),
                      family = "Small",
                      role = "aut"))
as necessary.
Maintainer: ‘Bo Zhang <bozhan@wharton.upenn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Bo",
                    family = "Zhang",
                    role = c("aut", "cre"),
                    email = "bozhan@wharton.upenn.edu")
as necessary.

The Description field contains
  B., Small, D. S. (2018). <arXiv:1812.00215>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Dylan Small <dsmall@wharton.upenn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Dylan",
                    family = "Small",
                    role = c("aut", "cre"),
                    email = "dsmall@wharton.upenn.edu")
as necessary.
Maintainer: ‘Paul R. Rosenbaum <rosenbaum@wharton.upenn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Paul", "R."),
                    family = "Rosenbaum",
                    role = c("aut", "cre"),
                    email = "rosenbaum@wharton.upenn.edu")
as necessary.
Maintainer: ‘Paul R. Rosenbaum <rosenbaum@wharton.upenn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Paul", "R."),
                    family = "Rosenbaum",
                    role = c("aut", "cre"),
                    email = "rosenbaum@wharton.upenn.edu")
as necessary.
Maintainer: ‘Paul R. Rosenbaum <rosenbaum@wharton.upenn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Paul", "R."),
                    family = "Rosenbaum",
                    role = c("aut", "cre"),
                    email = "rosenbaum@wharton.upenn.edu")
as necessary.
Maintainer: ‘Ibtihel Rebhi <ibtihel.rebhi@enit.utm.tn>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Ibtihel",
                      family = "Rebhi",
                      role = c("aut", "cre"),
                      email = "ibtihel.rebhi@enit.utm.tn"),
               person(given = "Dhafer",
                      family = "Malouche",
                      role = "ctb"))
as necessary.
Maintainer: ‘Brian C. Franczak <bfrancza@math.mcmaster.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Brian", "C."),
                      family = "Franczak",
                      role = c("aut", "cre"),
                      email = "bfrancza@math.mcmaster.ca"),
               person(given = c("Ryan", "P."),
                      family = "Browne",
                      role = "aut"),
               person(given = c("Paul", "D."),
                      family = "McNicholas",
                      role = "aut"))
as necessary.
Maintainer: ‘Yijian Huang <yhuang5@emory.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Yijian",
                    family = "Huang",
                    role = c("aut", "cre"),
                    email = "yhuang5@emory.edu")
as necessary.
Maintainer: ‘Kjetil B Halvorsen <kjetil1001@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Kjetil", "B"),
                    family = "Halvorsen",
                    role = c("aut", "cre"),
                    email = "kjetil1001@gmail.com")
as necessary.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘E1.19.Rd’:
    \concept{Data on Book Prices, Pages and Type of Bi [TRUNCATED]
  File ‘E2.9.Rd’:
    \concept{Data on Capital, Labour and Value Added f [TRUNCATED]
  File ‘E4.11.Rd’:
    \concept{ Data on Cost of Repairing Starters, Ring [TRUNCATED]
  File ‘E7.2.Rd’:
    \concept{Prices of Crude Oil, Natural Gas, Bitumin [TRUNCATED]
  File ‘E9.3.Rd’:
    \concept{ Areas, lengths and widths of rectangles  [TRUNCATED]
  File ‘E9.8.Rd’:
    \concept{ Data on monthly rent, annual income and  [TRUNCATED]
Maintainer: ‘Paul R. Rosenbaum <rosenbaum@wharton.upenn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Paul", "R."),
                    family = "Rosenbaum",
                    role = c("aut", "cre"),
                    email = "rosenbaum@wharton.upenn.edu")
as necessary.
Maintainer: ‘Tyler Rinker <tyler.rinker@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Brian Greenhill <bgreenhill@albany.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Brian", "D."),
                      family = "Greenhill",
                      role = "aut"),
               person(given = c("Michael", "D."),
                      family = "Ward",
                      role = "aut"),
               person(given = "Audrey",
                      family = "Sacks",
                      role = "aut"),
               person(given = "Brian",
                      family = "Greenhill",
                      role = "cre",
                      email = "bgreenhill@albany.edu"))
as necessary.
Author field differs from that derived from Authors@R
  Author:    ‘Inder Tecuapetla-Gómez [cre, aut] (0000-0001-6251-972X), Fanny Galicia-Gómez [ctb], Francisco Rosales-Marticorena [ctb]’
  Authors@R: ‘Inder Tecuapetla-Gómez [cre, aut] (ORDIC: 0000-0001-6251-972X), Fanny Galicia-Gómez [ctb], Francisco Rosales-Marticorena [ctb]’
Maintainer: ‘Lewis A. Jones <LewisA.Jones@outlook.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Xiaoshu Zhu <xiaoshuzhu@westat.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Xiaoshu",
                      family = "Zhu",
                      role = c("aut", "cre"),
                      email = "xiaoshuzhu@westat.com"),
               person(given = "Sharon",
                      family = "Lohr",
                      role = "aut"))
as necessary.
Maintainer: ‘Bettina Budeus <bettina.budeus@stud.uni-due.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Bettina",
                    family = "Budeus",
                    role = c("aut", "cre"),
                    email = "bettina.budeus@stud.uni-due.de")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Found the following files/directories:
  ‘assocpointpair_result.csv’ ‘foundereffectfinder_result.csv’
  ‘getfreqs_result.csv’ ‘getfreqs_result.png’ ‘orPlot.pdf1_1.pdf’
  ‘orPlot.pdf2_1.pdf’ ‘orPlot.pdf3_1.pdf’ ‘orPlot.pdf4_1.pdf’
  ‘orPlot.pdf5_1.pdf’ ‘orPlot.pdf6_1.pdf’ ‘orPlot.pdf7_1.pdf’
  ‘orPlot.pdf8_1.pdf’ ‘q-values_result.csv’ ‘rewritetuple_result.csv’
  ‘tartan_plot.pdf’ ‘vispair_plot.pdf’ ‘vispairfeat_plot.pdf’
  ‘volcano_plot.pdf’
Maintainer: ‘Niklas Pfister <pfister@stat.math.ethz.ch>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Niklas",
                      family = "Pfister",
                      role = c("aut", "cre"),
                      email = "pfister@stat.math.ethz.ch"),
               person(given = "Jonas",
                      family = "Peters",
                      role = "aut"))
as necessary.
Maintainer: ‘Paul C. Boutros <pboutros@mednet.ucla.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Fouad",
                      family = "Yousif",
                      role = "aut"),
               person(given = "Xihui",
                      family = "Lin",
                      role = "aut"),
               person(given = "Fan",
                      family = "Fan",
                      role = "aut"),
               person(given = "Christopher",
                      family = "Lalansingh",
                      role = "aut"),
               person(given = "John",
                      family = "Macdonald",
                      role = "aut"),
               person(given = c("Paul", "C."),
                      family = "Boutros",
                      role = "cre",
                      email = "pboutros@mednet.ucla.edu"))
as necessary.
Maintainer: ‘Mingli Lei<leimingli2013@sjtu.edu.cn>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Mingli",
                      family = "Lei",
                      role = c("aut", "cre"),
                      email = "leimingli2013@sjtu.edu.cn"),
               person(given = "Jia",
                      family = "Xu",
                      role = "aut"),
               person(given = "Li-Ching",
                      family = "Huang",
                      role = "aut"),
               person(given = "Lily",
                      family = "Wang",
                      role = "aut"),
               person(given = "Jing",
                      family = "Li",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘consensus.R’
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/seqminer.Rcheck/00install.out’ for details.
Maintainer: ‘Hui Zheng <hzheng1@mgh.harvard.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("David", "A"),
                      family = "Schoenfeld",
                      role = "aut"),
               person(given = "Hui",
                      family = "Zheng",
                      role = c("aut", "cre"),
                      email = "hzheng1@mgh.harvard.edu"))
as necessary.
Maintainer: ‘Martin Seilmayer <m.seilmayer@hzdr.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Martin",
                    family = "Seilmayer",
                    role = c("aut", "cre"),
                    email = "m.seilmayer@hzdr.de")
as necessary.
Maintainer: ‘Edward Schuberg <eschu003@ucr.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Edward",
                    family = "Schuberg",
                    role = c("aut", "cre"),
                    email = "eschu003@ucr.edu")
as necessary.
Maintainer: ‘Matt Moores <mmoores@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

The Description field contains
  <arXiv:1604.07299>. Multivariate observations of SERRS are highly
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Oisín Ryan <o.ryan@uu.nl>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Oisín",
                    family = "Ryan",
                    role = c("aut", "cre"),
                    email = "o.ryan@uu.nl")
as necessary.

The BugReports field in DESCRIPTION has
  https://github.com/ryanoisin/SEset
which should likely be
  https://github.com/ryanoisin/SEset/issues
instead.
Maintainer: ‘Rakshitha Godahewa <rakshithagw@gmail.com>’

The Description field contains
  in Godahewa et al. (2022) <arXiv:2211.08661v1>. The model uses the
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Zhi Jin <nalanchongxuan@163.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Zhi",
                      family = "Jin",
                      role = c("aut", "cre"),
                      email = "nalanchongxuan@163.com"),
               person(given = "Jing",
                      family = "Zhang",
                      role = "aut"))
as necessary.
Maintainer: ‘Paul Gilbert <pgilbert.ttv9z@ncf.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Paul",
                    family = "Gilbert",
                    role = c("aut", "cre"),
                    email = "pgilbert.ttv9z@ncf.ca")
as necessary.
Maintainer: ‘Hong Zhang <hzhang@wpi.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hong",
                      family = "Zhang",
                      role = c("aut", "cre"),
                      email = "hzhang@wpi.edu"),
               person(given = "Zheyang",
                      family = "Wu",
                      role = "aut"))
as necessary.
Maintainer: ‘Mark van der Loo <mark.vanderloo@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Mark",
                    family = "van der Loo",
                    role = c("aut", "cre"),
                    email = "mark.vanderloo@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘Joiner.Rd’ ‘Splitter.Rd’ ‘add_node.Rd’ ‘print.sewage_pipeline.Rd’
    ‘pull_output.Rd’ ‘run.Rd’
Maintainer: ‘Yann Desjeux <yann.desjeux@inra.fr>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘sfaendog.Rd’:
    https://doi.org/10.1016/0304-4076(87)90015-7
    https://doi.org/10.1093/ajae/aaw077
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘h_curve.Rd’ ‘sfc_4x4_meander.Rd’ ‘sfc_generator.Rd’
    ‘spacefilling.Rd’
Maintainer: ‘Collin Erickson <collinberickson@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Collin",
                    family = "Erickson",
                    role = c("aut", "cre"),
                    email = "collinberickson@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘st_transform_outline.R’
Maintainer: ‘Kevin Titeca <sfinxinteractomics@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘CXX’ was ignored
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/sf.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’
Maintainer: ‘Mohamed Laib <laib.med@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Mohamed",
                      family = "Laib",
                      role = c("aut", "cre"),
                      email = "laib.med@gmail.com"),
               person(given = "Mikhail",
                      family = "Kanevski",
                      role = "aut"))
as necessary.
Maintainer: ‘Monique Graf <monique.p.n.graf@bluewin.ch>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Monique",
                    family = "Graf",
                    role = c("aut", "cre"),
                    email = "monique.p.n.graf@bluewin.ch")
as necessary.
Maintainer: ‘Youngki Shin <shiny11@mcmaster.ca>’

The Description field contains
  <arXiv:2209.14502> "Fast Inference for Quantile Regression with Tens of
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Gregory Vaughan <gvaughan@bentley.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Gregory",
                      family = "Vaughan",
                      role = c("aut", "cre"),
                      email = "gvaughan@bentley.edu"),
               person(given = "Kun",
                      family = "Chen",
                      role = "ctb"),
               person(given = "Jun",
                      family = "Yan",
                      role = "ctb"))
as necessary.
checkRd: (-1) bisee.Rd:127: Lost braces
   127 | values including \code{x}, \code{y}, code{family}, \code{clusterID},
       |                                          ^
checkRd: (-1) hisee.Rd:101: Lost braces
   101 | values including \code{x}, \code{y}, code{family}, \code{clusterID},
       |                                          ^
checkRd: (-1) isee.Rd:116: Lost braces
   116 | values including \code{x}, \code{y}, code{family}, \code{clusterID},
       |                                          ^
checkRd: (-1) see.Rd:98: Lost braces
    98 | values including \code{x}, \code{y}, code{family}, \code{clusterID},
       |                                          ^
Maintainer: ‘Albrecht Gebhardt <albrecht.gebhardt@aau.at>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("S", "original", "by", "James", "J.", "Majure", "Iowa", "State"),
                      family = "University",
                      role = "aut",
                      email = "majure@iastate.edu"),
               person(given = c("R", "port", "+", "extensions", "by", "Albrecht"),
                      family = "Gebhardt",
                      role = "aut",
                      email = "albrecht.gebhardt@aau.at"),
               person(given = "Albrecht",
                      family = "Gebhardt",
                      role = "cre",
                      email = "albrecht.gebhardt@aau.at"))
as necessary.
Maintainer: ‘Luigi Augugliaro <luigi.augugliaro@unipa.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Luigi",
                    family = "Augugliaro",
                    role = c("aut", "cre"),
                    email = "luigi.augugliaro@unipa.it")
as necessary.
Maintainer: ‘Noah Simon <nrsimon@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Noah",
                      family = "Simon",
                      role = c("aut", "cre"),
                      email = "nrsimon@uw.edu"),
               person(given = "Jerome",
                      family = "Friedman",
                      role = "aut"),
               person(given = "Trevor",
                      family = "Hastie",
                      role = "aut"),
               person(given = "Rob",
                      family = "Tibshirani",
                      role = "aut"))
as necessary.
Maintainer: ‘Balasubramanian Narasimhan <naras@stat.stanford.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Balasubramanian",
                    family = "Narasimhan",
                    role = c("aut", "cre"),
                    email = "naras@stat.stanford.edu",
                    comment = "with input from Tze Lai and Mei-Chiung Shih")
as necessary.
Maintainer: ‘Thomas Vigie <vigiethomas@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Thomas",
                    family = "Vigie",
                    role = c("aut", "cre"),
                    email = "vigiethomas@gmail.com")
as necessary.
Maintainer: ‘Irene Castro Conde <irene.castro@uvigo.es>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Irene", "Castro"),
                      family = "Conde",
                      role = c("aut", "cre"),
                      email = "irene.castro@uvigo.es"),
               person(given = c("Jacobo", "de", "Una"),
                      family = "Alvarez",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘sgraph_utils.R’
Maintainer: ‘Massimiliano Pastore <massimiliano.pastore@unipd.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Massimiliano", "Pastore", "&", "Luigi"),
                      family = "Lombardi",
                      role = "aut"),
               person(given = "Massimiliano",
                      family = "Pastore",
                      role = "cre",
                      email = "massimiliano.pastore@unipd.it"))
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Carter Davis <cdavis40@chicagobooth.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Carter",
                    family = "Davis",
                    role = c("aut", "cre"),
                    email = "cdavis40@chicagobooth.edu")
as necessary.
checkRd: (-1) sgt.Rd:55: Lost braces
    55 |   \code{sigma <= 0}, \code{lambda <= -1}, \code{lambda >= 1}, \code{p <= 0}, and \code{q <= 0} are errors and return \code{NaN}. Also, if \code{mean.cent} is \code{TRUE} but code{p*q <= 1}, the result is an error and \code{NaNs} are produced. Similarly, if \code{var.adj} is \code{TRUE} but code{p*q <= 2}, the result is an error and \code{NaNs} are produced.
       |                                                                                                                                                                                   ^
checkRd: (-1) sgt.Rd:55: Lost braces
    55 |   \code{sigma <= 0}, \code{lambda <= -1}, \code{lambda >= 1}, \code{p <= 0}, and \code{q <= 0} are errors and return \code{NaN}. Also, if \code{mean.cent} is \code{TRUE} but code{p*q <= 1}, the result is an error and \code{NaNs} are produced. Similarly, if \code{var.adj} is \code{TRUE} but code{p*q <= 2}, the result is an error and \code{NaNs} are produced.
       |                                                                                                                                                                                                                                                                                                        ^
Maintainer: ‘Jon Clayden <code@clayden.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jon",
                    family = "Clayden",
                    role = c("aut", "cre"),
                    email = "code@clayden.org")
as necessary.
Maintainer: ‘Xiyue Liao <xliao@sdsu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Xiyue",
                      family = "Liao",
                      role = c("aut", "cre"),
                      email = "xliao@sdsu.edu"),
               person(given = c("Mary", "C"),
                      family = "Meyer",
                      role = "aut"))
as necessary.
checkRd: (-1) changept.Rd:17-19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) changept.Rd:20-21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) changept.Rd:22: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Ben Stabler <benstabler@yahoo.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ben",
                    family = "Stabler",
                    role = c("aut", "cre"),
                    email = "benstabler@yahoo.com")
as necessary.
checkRd: (-1) powerShape.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) powerShape.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) powerShape.Rd:32-33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) powerShapeNA.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) powerShapeNA.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) powerShapeNA.Rd:32-33: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Karline Soetaert <karline.soetaert@nioz.nl>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Karline",
                    family = "Soetaert",
                    role = c("aut", "cre"),
                    email = "karline.soetaert@nioz.nl")
as necessary.
Maintainer: ‘Jingyi Liang <jingyiliang19@163.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jingyi",
                    family = "Liang",
                    role = c("aut", "cre"),
                    email = "jingyiliang19@163.com")
as necessary.
Maintainer: ‘Szymon Maksymiuk <sz.maksymiuk@gmail.com>’

The Description field contains
  Lundberg, S., et al., (2016) <arXiv:1705.07874> The SHAP method is used
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘W.J. Braun <john.braun@ubc.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("W.", "John"),
                      family = "Braun",
                      role = "aut",
                      email = "john.braun@ubc.ca"),
               person(given = "W.J.",
                      family = "Braun",
                      role = "cre",
                      email = "john.braun@ubc.ca"))
as necessary.
Maintainer: ‘Damien Challet <damien.challet@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Damien",
                    family = "Challet",
                    role = c("aut", "cre"),
                    email = "damien.challet@gmail.com")
as necessary.

The Description field contains
  signal-to-noise ratio, for heavy-tailed data (see <arXiv:1505.01333>).
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Steven E. Pav <shabbychef@gmail.com>’

Found the following (possibly) invalid file URI:
  URI: books.google.com/books
    From: inst/doc/SharpeRatio.pdf
Maintainer: ‘Liang He <lianghe@mit.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Liang",
                    family = "He",
                    role = c("aut", "cre"),
                    email = "lianghe@mit.edu")
as necessary.
Maintainer: ‘Rodrigo F. de Mello <mellorf@gmail.com>’

The Description field contains
  Coefficient of Supervised Learning Algorithms" <arXiv:1911.05461>; de
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) age_corr.Rd:15: Lost braces
    15 | \item{plot}{Should the results be plotted? (/code{TRUE/FALSE})}
       |                                                  ^
checkRd: (-1) age_corr.Rd:17: Lost braces
    17 | \item{agecorrection}{Correct for jumps in age (/code{TRUE}) or
       |                                                     ^
checkRd: (-1) age_corr.Rd:18: Lost braces
    18 | only for starting time (/code{FALSE})}
       |                              ^
Maintainer: ‘Andrew Lee <andrewl@maths.usyd.edu.au>’

The Description field contains
  Peres, Lee and Keich (2020) <arXiv:2004.07429> where it is also shown
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) shiftrPrepare.Rd:37: Lost braces
    37 |     See code{\link{shiftrPermBinary}} function and the respective example.
       |             ^
Maintainer: ‘Swechhya Bista <swechhyabista@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Swechhya",
                    family = "Bista",
                    role = c("aut", "cre"),
                    email = "swechhyabista@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘filter_discrete.R’ ‘filter_query.R’ ‘renders.R’
Maintainer: ‘Emi Tanaka <emi.tanaka@sydney.edu.au>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Emi",
                      family = "Tanaka",
                      role = c("aut", "cre"),
                      email = "emi.tanaka@sydney.edu.au"),
               person(family = "Niichan",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘destroyModule.R’ ‘makeModule.R’
checkRd: (-1) js_calls.Rd:63: Lost braces in \itemize; meant \describe ?
checkRd: (-1) js_calls.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) js_calls.Rd:65-66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) js_calls.Rd:67: Lost braces in \itemize; meant \describe ?
checkRd: (-1) js_calls.Rd:68: Lost braces in \itemize; meant \describe ?
checkRd: (-1) js_calls.Rd:69: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pickCheckboxNamesAndLabels.Rd:14: Lost braces
    14 | \item{choices}{link{pickCheckboxInput} choices list.}
       |                    ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘continue_sequence.R’ ‘get_exchange_rates.R’
Maintainer: ‘Huseyin Yildiz <huseyinyildiz35@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Huseyin",
                    family = "Yildiz",
                    role = c("aut", "cre"),
                    email = "huseyinyildiz35@gmail.com")
as necessary.
checkRd: (-1) shinyjs-defunct.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) shinyjs-defunct.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) shinyjs-defunct.Rd:20: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Joe Wandy <joe.wandy@glasgow.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Joe",
                    family = "Wandy",
                    role = c("aut", "cre"),
                    email = "joe.wandy@glasgow.ac.uk")
as necessary.
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ShinyLink.Rcheck/00install.out’ for details.
checkRd: (-1) store_googledrive.Rd:19: Lost braces; missing escapes or markup?
    19 | See the {gargle} package to manage authentication, and especially
       |         ^
checkRd: (-1) store_googledrive.Rd:20: Lost braces; missing escapes or markup?
    20 | \href{https://gargle.r-lib.org/articles/articles/managing-tokens-securely.html}{this vignette from {gargle} package} to manage the process.
       |                                                                                                    ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘lottie_addEventListener.Rd’ ‘lottie_button.Rd’
    ‘lottie_removeEventListener.Rd’
checkRd: (-1) custom-labels.Rd:7: Lost braces; missing escapes or markup?
     7 | \title{Modify {shinymanager} labels to use custom text}
       |               ^
checkRd: (-1) use_language.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Use {shinymanager} labels}
       |            ^
Maintainer: ‘Andreas Neudecker <andreas.neudecker@inwt-statistics.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Andreas",
                    family = "Neudecker",
                    role = c("aut", "cre"),
                    email = "andreas.neudecker@inwt-statistics.de")
as necessary.
Maintainer: ‘Jean Bertin <jean.bertin@mines-paris.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jean",
                    family = "Bertin",
                    role = c("aut", "cre"),
                    email = "jean.bertin@mines-paris.org")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘fabs.Rd’
Maintainer: ‘Reneé González-Guzmán <rguzman@geociencias.unam.mx>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Alex Pickering <alexvpickering@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Alex",
                    family = "Pickering",
                    role = c("aut", "cre"),
                    email = "alexvpickering@gmail.com")
as necessary.
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) shiny_pivot_table.Rd:58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) shiny_pivot_table.Rd:59: Lost braces in \itemize; meant \describe ?
checkRd: (-1) shiny_pivot_table.Rd:60: Lost braces in \itemize; meant \describe ?
checkRd: (-1) shiny_pivot_table.Rd:61: Lost braces in \itemize; meant \describe ?
checkRd: (-1) shiny_pivot_table.Rd:62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) shiny_pivot_table.Rd:63: Lost braces in \itemize; meant \describe ?
checkRd: (-1) shiny_pivot_table.Rd:64: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Jari Haukka <jari.haukka@helsinki.fi>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jari",
                    family = "Haukka",
                    role = c("aut", "cre"),
                    email = "jari.haukka@helsinki.fi")
as necessary.
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Alberto Almuiña <albertogonzalezalmuinha@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Alberto",
                    family = "Almuiña",
                    role = c("aut", "cre"),
                    email = "albertogonzalezalmuinha@gmail.com")
as necessary.
Maintainer: ‘Jeff Allen <jeff@trestletech.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Trestle",
                      family = "Technology",
                      role = "aut"),
               person(family = "LLC.",
                      role = "aut"),
               person(given = "Jeff",
                      family = "Allen",
                      role = "cre",
                      email = "jeff@trestletech.com"))
as necessary.
Maintainer: ‘Sinead E. Morris <sinead.morris@columbia.edu>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘app_server.R’ ‘function.R’
Maintainer: ‘Amit Kohli <amit@amitkohli.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Amit",
                    family = "Kohli",
                    role = c("aut", "cre"),
                    email = "amit@amitkohli.com")
as necessary.
checkRd: (-1) run_shinytitle_example.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) run_shinytitle_example.Rd:19: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Gábor Csárdi <csardi.gabor@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "John",
                      family = "Papa",
                      role = "aut"),
               person(given = "Tim",
                      family = "Ferrell",
                      role = "aut"),
               person(given = "Hans",
                      family = "Fjällemark",
                      role = "aut"),
               person(given = "Gábor",
                      family = "Csárdi",
                      role = c("aut", "cre"),
                      email = "csardi.gabor@gmail.com"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘slimSelectInput.Rd’
Maintainer: ‘José Carlos Del Valle <jcval94@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("José", "Carlos", "Del"),
                    family = "Valle",
                    role = c("aut", "cre"),
                    email = "jcval94@gmail.com")
as necessary.
Maintainer: ‘Daniel Wollschlaeger <dwoll@kuci.org>’

Found the following (possibly) invalid file URI:
  URI: dwoll@kuci.org
    From: inst/doc/shotGroups.pdf
Maintainer: ‘Gábor Csárdi <csardi.gabor@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Gábor",
                    family = "Csárdi",
                    role = c("aut", "cre"),
                    email = "csardi.gabor@gmail.com")
as necessary.
Maintainer: ‘Yixuan Qiu <yixuan.qiu@cos.name>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yixuan",
                      family = "Qiu",
                      role = c("aut", "cre"),
                      email = "yixuan.qiu@cos.name"),
               person(given = c("authors/contributors", "of", "the", "included", "fonts.", "See", "file", "AUTHORS", "for"),
                      family = "details.",
                      role = "aut"))
as necessary.
Maintainer: ‘Yixuan Qiu <yixuan.qiu@cos.name>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yixuan",
                      family = "Qiu",
                      role = c("aut", "cre"),
                      email = "yixuan.qiu@cos.name"),
               person(given = c("authors/contributors", "of", "the", "included", "software.", "See", "file", "AUTHORS", "for"),
                      family = "details.",
                      role = "aut"))
as necessary.
Maintainer: ‘Binbin Lu <binbinlu@whu.edu.cn>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Binbin",
                    family = "Lu",
                    role = c("aut", "cre"),
                    email = "binbinlu@whu.edu.cn")
as necessary.
Maintainer: ‘Carlos Mercado <carlos.mercado@flipsidecrypto.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Carlos",
                    family = "Mercado",
                    role = c("aut", "cre"),
                    email = "carlos.mercado@flipsidecrypto.com")
as necessary.
Maintainer: ‘Kyle Caudle <kyle.caudle@sdsmt.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Kyle",
                    family = "Caudle",
                    role = c("aut", "cre"),
                    email = "kyle.caudle@sdsmt.edu")
as necessary.
Maintainer: ‘Yuval Benjamini <yuvalbenj@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Yuval",
                    family = "Benjamini",
                    role = c("aut", "cre"),
                    email = "yuvalbenj@gmail.com")
as necessary.
Maintainer: ‘Siddhanta Phuyal <siddhantaphuyal7159@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Siddhanta", "Phuyal", "Jyotirmoy", "Sarkar", "<jsarkar@iupui.edu>", "Mamunur", "Rashid"),
                      family = "<mrashid@depauw.edu>",
                      role = "aut",
                      email = "mrashid@depauw.edu"),
               person(given = "Siddhanta",
                      family = "Phuyal",
                      role = "cre",
                      email = "siddhantaphuyal7159@gmail.com"))
as necessary.
checkRd: (-1) shutterplot.Rd:59: Lost braces; missing escapes or markup?
    59 | \item{las}{numeric in {0,1,2,3}; the style of axis labels.'
       |                       ^
Maintainer: ‘Marie-Karelle Riviere <eldamjh@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Marie-Karelle",
                    family = "Riviere",
                    role = c("aut", "cre"),
                    email = "eldamjh@gmail.com")
as necessary.
Maintainer: ‘Noé Palmerin  <sie@banxico.org.mx>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("DGIE", "-", "Banco"),
                      family = "de México",
                      role = "aut"),
               person(given = "Noé",
                      family = "Palmerin",
                      role = "cre",
                      email = "sie@banxico.org.mx"))
as necessary.
Maintainer: ‘Ruiyan Luo <rluo@gsu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(family = "Ruiyan",
                      role = c("aut", "cre"),
                      email = "rluo@gsu.edu"),
               person(given = "Xin",
                      family = "Qi",
                      role = "aut"))
as necessary.
Maintainer: ‘Tianyu Zhang <tianyuz3@andrew.cmu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tianyu",
                    family = "Zhang",
                    role = c("aut", "cre"),
                    email = "tianyuz3@andrew.cmu.edu")
as necessary.

The Description field contains
  methods can be found in: <arXiv:2206.02994>
  <arXiv:2104.00846><arXiv:2310.12140>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘Sieve-package.Rd’:
    \keyword{sieve estimation; estimation using orthog [TRUNCATED]
Maintainer: ‘Petr Matousu <pmatousu@more-praha.cz>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Petr",
                    family = "Matousu",
                    role = c("aut", "cre"),
                    email = "pmatousu@more-praha.cz")
as necessary.
checkRd: (-1) drr.Rd:36: Lost braces; missing escapes or markup?
    36 |   \code{drr} {is Rosin - Rammler probability density function}\cr
       |              ^
checkRd: (-1) drr.Rd:37: Lost braces; missing escapes or markup?
    37 |   \code{urr} {is Rosin - Rammler cumulative distribution function (CDF) representing undersize mass fraction}\cr
       |              ^
checkRd: (-1) drr.Rd:38: Lost braces
    38 |   \code{orr} {is Rosin - Rammler complementary CDF representing oversize mass fraction ie. relative remainder on the sieve with the mesh size \code{x}}\cr
       |              ^
Maintainer: ‘Hanwen Huang <hanwenh.unc@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hanwen",
                      family = "Huang",
                      role = c("aut", "cre"),
                      email = "hanwenh.unc@gmail.com"),
               person(given = c("Yufeng", "Liu", "&", "J.", "S."),
                      family = "Marron",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘show_group_enrichment.R’
Maintainer: ‘Mathew Chamberlain <chamberlainphd@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Michal Burdukiewicz <michalburdukiewicz@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) add_k_mer_state.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) add_k_mer_state.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) add_k_mer_state.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) add_k_mer_state.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) duration_viterbi.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) duration_viterbi.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) duration_viterbi.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) duration_viterbi.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
Maintainer: ‘Furkan Gursoy <furkan.gursoy@boun.edu.tr>’

The Description field contains
  Networks. <arXiv:2012.05216>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Louis-Marvin Sander <louis.sander@web.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Louis-Marvin",
                      family = "Sander",
                      role = c("aut", "cre"),
                      email = "louis.sander@web.de"),
               person(given = c("master", "of", "ecology", "student", "from"),
                      family = "Bayreuth",
                      role = "aut"),
               person(family = "DE",
                      role = "aut"))
as necessary.
Maintainer: ‘Adriano Zanin Zambom <adriano.zambom@csun.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jongwook",
                      family = "Kim",
                      role = "aut"),
               person(given = c("Adriano", "Zanin"),
                      family = "Zambom",
                      role = c("aut", "cre"),
                      email = "adriano.zambom@csun.edu"))
as necessary.
Maintainer: ‘Alexandra Johnson <alexandra@sigopt.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Alexandra",
                    family = "Johnson",
                    role = c("aut", "cre"),
                    email = "alexandra@sigopt.com")
as necessary.
Maintainer: ‘Witold Wolski <wew@fgcz.ethz.ch>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) sig.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sig.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sig_report.Rd:41: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sig_report.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sig_report.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sig_report.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sig_report.Rd:45-46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sig_report.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sig_report.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sig_report.Rd:49-50: Lost braces in \itemize; \value handles \item{}{} directly
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘p_sie.R’ ‘prp.R’ ‘siie.R’
Maintainer: ‘Martin Olivier <olivier.martin@inrae.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Carpentier",
                      family = "F.",
                      role = "aut"),
               person(given = "Martin",
                      family = "O.",
                      role = "aut"),
               person(given = "Martin",
                      family = "Olivier",
                      role = "cre",
                      email = "olivier.martin@inrae.fr"))
as necessary.
checkRd: (-1) siland.Rd:64: Lost braces; missing escapes or markup?
    64 | \item x_{l,i}, local variable l,
       |         ^
checkRd: (-1) siland.Rd:70: Lost braces; missing escapes or markup?
    70 | \item d_{r,i} the distance between the center of pixel r and the observation at site i.
       |         ^
Maintainer: ‘Rong Zhang <roz16@pitt.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Rong",
                      family = "Zhang",
                      role = c("aut", "cre"),
                      email = "roz16@pitt.edu"),
               person(given = "Zhao",
                      family = "Ren",
                      role = "aut"),
               person(given = "Wei",
                      family = "Chen",
                      role = "aut"))
as necessary.
checkRd: (-1) inlandwaters.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) inlandwaters.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) inlandwaters.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) inlandwaters.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) inlandwaters.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) inlandwaters.Rd:19: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Xianyang Zhang <zhangxiany@stat.tamu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Xianyang",
                      family = "Zhang",
                      role = c("aut", "cre"),
                      email = "zhangxiany@stat.tamu.edu"),
               person(given = "Guang",
                      family = "Cheng",
                      role = "aut"),
               person(given = "Jincheng",
                      family = "Bai",
                      role = "aut"))
as necessary.
Maintainer: ‘Justin Leach <jleach@uab.edu>’

The BugReports field in DESCRIPTION has
  https://github.com/jmleach-bst/sim2Dpredictr
which should likely be
  https://github.com/jmleach-bst/sim2Dpredictr/issues
instead.
checkRd: (-1) sim_Y_Binary_X.Rd:51: Lost braces
    51 |     \item \code{dist = "binomial"} is drawn from eqn{Bin(XB, XB(1-XB))}
       |                                                     ^
Maintainer: ‘Allison Cynthia Fialkowski <allijazz@uab.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Allison", "Cynthia"),
                    family = "Fialkowski",
                    role = c("aut", "cre"),
                    email = "allijazz@uab.edu")
as necessary.

Found the following (possibly) invalid file URIs:
  URI: corr_bounds.html
    From: inst/doc/method_comp.html
  URI: variable_types
    From: inst/doc/workflow.html
  URI: errorloop.html
    From: inst/doc/workflow.html

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘intercorr_cont.Rd’:
    \keyword{Fleishman,}
    \keyword{continuous,}
    \keyword{correlation,}
Maintainer: ‘Axel Gandy <a.gandy@imperial.ac.uk>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Kathrin Moellenhoff <kathrin.moellenhoff@rub.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Kathrin",
                    family = "Moellenhoff",
                    role = c("aut", "cre"),
                    email = "kathrin.moellenhoff@rub.de")
as necessary.
checkRd: (-1) create_modelDF.Rd:25-38: Lost braces
    25 | convert_xlsx_to_csv<-function(xlsx_file){
       |                                         ^
checkRd: (-1) create_modelDF.Rd:33-36: Lost braces
    33 |   for (i in Sheetnames) {
       |                         ^
Maintainer: ‘Waldir Leoncio <waldir.leoncio@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Waldir",
                    family = "Leoncio",
                    role = c("aut", "cre"),
                    email = "waldir.leoncio@gmail.com")
as necessary.
Maintainer: ‘Andreas Alfons <alfons@ese.eur.nl>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Wolfgang Rolke <wolfgang.rolke@upr.edu>’

The Description field contains
  value.  Details can be found in <arXiv:2007.04727>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Nusrat Rabbee <rabbee@berkeley.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Danyi",
                      family = "Xiong",
                      role = "aut"),
               person(given = "Teeranan",
                      family = "Pokaprakarn",
                      role = "aut"),
               person(given = "Hiroto",
                      family = "Udagawa",
                      role = "aut"),
               person(given = "Nusrat",
                      family = "Rabbee",
                      role = c("aut", "cre"),
                      email = "rabbee@berkeley.edu"))
as necessary.
Found the following files/directories:
  ‘database.csv’ ‘output.csv’ ‘output_clst.csv’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘bootstrap-projection.R’ ‘bootstrap_CIs.Rd’ ‘bundle_sim.R’
    ‘calc_coverage.R’ ‘calc_rejection.R’ ‘extrapolate_coverage.Rd’
    ‘utilities.R’
Maintainer: ‘Kevin Toohey <kevintoohey@live.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Kevin",
                    family = "Toohey",
                    role = c("aut", "cre"),
                    email = "kevintoohey@live.com")
as necessary.
checkRd: (-1) internal.statistics.one.lm.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) internal.statistics.one.lm.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.logistic.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.logistic.Rd:65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.logistic.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.logistic.Rd:67: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.prop.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.prop.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.prop.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.prop2.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.prop2.Rd:67: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.prop2.Rd:68: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.t.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.t.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.t.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.t2.Rd:72: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.t2.Rd:73: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simstudy.t2.Rd:74: Lost braces in \itemize; \value handles \item{}{} directly
Maintainer: ‘Luke Miratrix <lmiratrix@g.harvard.edu>’

The Description field contains
  <arXiv:2002.05746>. This package provides methods for fitting ITS
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Charlie Wusuo Liu <liuwusuo@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Charlie", "Wusuo"),
                    family = "Liu",
                    role = c("aut", "cre"),
                    email = "liuwusuo@gmail.com")
as necessary.
Maintainer: ‘Rex Parsons <Rex.Parsons94@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Hyung Park <parkh15@nyu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hyung",
                      family = "Park",
                      role = c("aut", "cre"),
                      email = "parkh15@nyu.edu"),
               person(given = "Eva",
                      family = "Petkova",
                      role = "aut"),
               person(given = "Thaddeus",
                      family = "Tarpey",
                      role = "aut"),
               person(given = c("R.", "Todd"),
                      family = "Ogden",
                      role = "aut"))
as necessary.
Maintainer: ‘Holger Reulen <hreulen@uni-goettingen.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Holger",
                    family = "Reulen",
                    role = c("aut", "cre"),
                    email = "hreulen@uni-goettingen.de")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘si_calculate.Rd’
Maintainer: ‘Rami Yaari <ramiyaari@gmail.com>’

The Description field contains
  & Yaari (2018) <arXiv:1807.04202>.  Dattner et al. (2017)
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘anon.R’ ‘anonymise.Rd’
Maintainer: ‘Roger D. Peng <roger.peng@austin.utexas.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Roger", "D."),
                    family = "Peng",
                    role = c("aut", "cre"),
                    email = "roger.peng@austin.utexas.edu")
as necessary.
Maintainer: ‘Nathan Sheffield <nathan@code.databio.org>’

The BugReports field in DESCRIPTION has
  https://github.com/databio/simpleCache
which should likely be
  https://github.com/databio/simpleCache/issues
instead.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    simpleCache [0.0.1]
Maintainer: ‘Stephen Wisser <swisser98@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Stephen", "C"),
                      family = "Wisser",
                      role = "aut"),
               person(given = "Stephen",
                      family = "Wisser",
                      role = "cre",
                      email = "swisser98@gmail.com"))
as necessary.
Maintainer: ‘Gabor Csardi <csardi.gabor@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Gabor",
                    family = "Csardi",
                    role = c("aut", "cre"),
                    email = "csardi.gabor@gmail.com")
as necessary.
Maintainer: ‘Samuel Fernandes <samuelf@illinois.edu>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Augustin Luna <lunaa@cbio.mskcc.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Augustin",
                      family = "Luna",
                      role = c("aut", "cre"),
                      email = "lunaa@cbio.mskcc.org"),
               person(given = "Vinodh",
                      family = "Rajapakse",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘markdown_block.R’
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/simplextree.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’
Obsolete C++11 standard request will be ignored
checkRd: (-1) simplex_tree.Rd:24: height/width attributes should be in pixels
Maintainer: ‘Abbas Parchami <parchami@uk.ac.ir>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Abbas",
                    family = "Parchami",
                    role = c("aut", "cre"),
                    email = "parchami@uk.ac.ir",
                    comment = "Department of Statistics, Faculty of Mathematics and Computer, Shahid Bahonar University of Kerman, Kerman, Iran")
as necessary.
Maintainer: ‘John P. Nolan  <jpnolan@american.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("John", "P."),
                      family = "Nolan",
                      role = c("aut", "cre"),
                      email = "jpnolan@american.edu"),
               person(given = c("with", "parts", "adapted", "from"),
                      family = "Fortran",
                      role = "aut"),
               person(given = c("matlab", "code", "by", "Alan"),
                      family = "Genz",
                      role = "aut"))
as necessary.
Maintainer: ‘Alexander Mercier <amercier@g.harvard.edu>’

The Description field contains
  (2009)<arXiv:0803.0929>.  Koutis I., Levin, A., Peng, R.
  (2013)<arXiv:1209.5821>. Toivonen, H., Mahler, S., Zhou, F.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘glimpse_na.Rd’
Maintainer: ‘Daniel Greene <dg333@cam.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Daniel",
                    family = "Greene",
                    role = c("aut", "cre"),
                    email = "dg333@cam.ac.uk")
as necessary.
Maintainer: ‘Samuel Benidt <sgbenidt@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Samuel",
                    family = "Benidt",
                    role = c("aut", "cre"),
                    email = "sgbenidt@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Hyung Park <parkh15@nyu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hyung",
                      family = "Park",
                      role = c("aut", "cre"),
                      email = "parkh15@nyu.edu"),
               person(given = "Eva",
                      family = "Petkova",
                      role = "aut"),
               person(given = "Thaddeus",
                      family = "Tarpey",
                      role = "aut"),
               person(given = c("R.", "Todd"),
                      family = "Ogden",
                      role = "aut"))
as necessary.

The Description field contains
  dose rules" <arXiv:2006.00267v2> for detail of the method. The model
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Found the following notes/warnings:
  SystemRequirements specified C++14: support has been removed
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/SimSurvNMarker.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’
Obsolete C++14 standard request will be ignored
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Version (Date)
Maintainer: ‘Anthony Christidis <anthony.christidis@stat.ubc.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Anthony",
                      family = "Christidis",
                      role = c("aut", "cre"),
                      email = "anthony.christidis@stat.ubc.ca"),
               person(given = "Stefan",
                      family = "Van Aelst",
                      role = "aut",
                      email = "stefan.vanaelst@kuleuven.be"),
               person(given = "Ruben",
                      family = "Zamar",
                      role = "aut",
                      email = "ruben@stat.ubc.ca"))
as necessary.

The Description field contains
  Van Aelst and Zamar (2019) <arXiv:1812.05678>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Adrian Staempfli <adrian.staempfli@fhsg.ch>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Adrian",
                      family = "Staempfli",
                      role = c("aut", "cre"),
                      email = "adrian.staempfli@fhsg.ch"),
               person(given = "Christoph",
                      family = "Strauss",
                      role = "aut"),
               person(given = "Michael",
                      family = "Schmid",
                      role = "aut"))
as necessary.
Maintainer: ‘Maya B. Mathur <mmathur@stanford.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Maya", "B."),
                      family = "Mathur",
                      role = c("aut", "cre"),
                      email = "mmathur@stanford.edu"),
               person(given = "Kristopher",
                      family = "Kapphahn",
                      role = "aut"),
               person(given = "Ariadna",
                      family = "Garcia",
                      role = "aut"),
               person(given = "Manisha",
                      family = "Desai",
                      role = "aut"),
               person(given = c("Maria", "E."),
                      family = "Montez-Rath",
                      role = "aut"))
as necessary.

The Description field contains
  the main wrapper function. See Montez-Rath et al. <arXiv:1709.10074>
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) make_one_dataset.Rd:67: Lost braces; missing escapes or markup?
    67 |  \code{within.SD} to be extremely small (e.g., $1 * 10^{-7}$) and all corresponding correlations in matrix
       |                                                        ^
Maintainer: ‘Jacob Bien <jbien@usc.edu>’

The Description field contains
  <arXiv:1607.00021>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) add_bold.Rd:15: Lost braces; missing escapes or markup?
    15 | For example, in latex it would take "2" and output "{\\bf 2}"; in html
       |                                                     ^
Maintainer: ‘Beilun Wang <bw4mw@virginia.edu>’

The BugReports field in DESCRIPTION has
  https://github.com/QData/SIMULE
which should likely be
  https://github.com/QData/SIMULE/issues
instead.
Maintainer: ‘Martin Nahuel Garcia <garcia.martin@inta.gob.ar>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Martin", "Nahuel"),
                    family = "Garcia",
                    role = c("aut", "cre"),
                    email = "garcia.martin@inta.gob.ar")
as necessary.
Maintainer: ‘Nikos Sidiropoulos <nikos.sidiro@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Rick Dale <racdale@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Rick",
                      family = "Dale",
                      role = c("aut", "cre"),
                      email = "racdale@gmail.com"),
               person(given = c("Harish", "S."),
                      family = "Bhat",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘calculate-effect-sizes.R’
Maintainer: ‘Boxiang Liu <jollier.liu@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Boxiang",
                    family = "Liu",
                    role = c("aut", "cre"),
                    email = "jollier.liu@gmail.com")
as necessary.
Maintainer: ‘Federico Vivaldi <federico-vivaldi@virgilio.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Federico", "Vivaldi;", "Tommaso"),
                      family = "Lomonaco",
                      role = "aut"),
               person(given = "Federico",
                      family = "Vivaldi",
                      role = "cre",
                      email = "federico-vivaldi@virgilio.it"))
as necessary.
checkRd: (-1) sim.bdh.age.Rd:66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.age.Rd:67: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.age.Rd:68: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.age.Rd:69: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.age.Rd:70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.taxa.gsa.Rd:69: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.taxa.gsa.Rd:70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.taxa.gsa.Rd:71: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.taxa.gsa.Rd:72: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.taxa.gsa.Rd:73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.taxa.ssa.Rd:66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.taxa.ssa.Rd:67: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.taxa.ssa.Rd:68: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.taxa.ssa.Rd:69: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sim.bdh.taxa.ssa.Rd:70: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Oscar Garcia <garcia@dasometrics.net>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Oscar",
                    family = "Garcia",
                    role = c("aut", "cre"),
                    email = "https://orcid.org/0000-0002-8995-1341")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Jedrzej S. Bojanowski <jedrzej.bojanowski@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Jedrzej", "S."),
                    family = "Bojanowski",
                    role = c("aut", "cre"),
                    email = "jedrzej.bojanowski@gmail.com")
as necessary.
Maintainer: ‘F Scott Dahlgren <fdahlgr@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("F", "Scott"),
                      family = "Dahlgren",
                      role = c("aut", "cre"),
                      email = "fdahlgr@gmail.com"),
               person(given = c("Ivo", "M"),
                      family = "Foppa",
                      role = "aut"))
as necessary.
Maintainer: ‘Clement Benard <clement.benard5@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Clement",
                      family = "Benard",
                      role = c("aut", "cre"),
                      email = "clement.benard5@gmail.com"),
               person(given = c("Marvin", "N."),
                      family = "Wright",
                      role = c("ctb", "cph")))
as necessary.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/sirus.Rcheck/00install.out’ for details.
Maintainer: ‘Mélanie Huchon <melanie.huchon@u-bordeaux.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Boris",
                      family = "Hejblum",
                      role = "aut"),
               person(given = "Mélanie",
                      family = "Huchon",
                      role = c("aut", "cre"),
                      email = "melanie.huchon@u-bordeaux.fr"))
as necessary.
Maintainer: ‘Hyunseung Kang <hyunseung@stat.wisc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Hyunseung",
                    family = "Kang",
                    role = c("aut", "cre"),
                    email = "hyunseung@stat.wisc.edu")
as necessary.
checkRd: (-1) rawCCD.Rd:20: Lost braces; missing escapes or markup?
    20 |   \item{distr.type}{school district type (constructed for illustration purposes; (values={"A", "B", "C", "D"})).}
       |                                                                                          ^
checkRd: (-1) selectMatch.Rd:61: Lost braces; missing escapes or markup?
    61 | \item{replacementUnitsFilename}{character; csv filename for saving {unit:replacement} directory when writeOut == TRUE; default = "replacementUnits.csv"}
       |                                                                    ^
checkRd: (-1) selectMatch.Rd:63: Lost braces; missing escapes or markup?
    63 | \item{subUnitTableFilename}{character; csv filename for saving {unit:replacement} directory when writeOut == TRUE; default = "subUnitTable.csv"}
       |                                                                ^
checkRd: (-1) selectMatch.Rd:66: Lost braces; missing escapes or markup?
    66 | list with: 1) table of the form: {selected unit i: (unit i replacements)}, 2) table of the form: {potential unit i:(unit i sub-units)}, 3) balance diagnostics.
       |                                  ^
checkRd: (-1) selectMatch.Rd:66: Lost braces; missing escapes or markup?
    66 | list with: 1) table of the form: {selected unit i: (unit i replacements)}, 2) table of the form: {potential unit i:(unit i sub-units)}, 3) balance diagnostics.
       |                                                                                                  ^
Maintainer: ‘Phillip B. Nicol <philnicol740@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Phillip", "B."),
                    family = "Nicol",
                    role = c("aut", "cre"),
                    email = "philnicol740@gmail.com")
as necessary.
Maintainer: ‘Jonas Stein <news@jonasstein.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jonas",
                      family = "Stein",
                      role = c("aut", "cre"),
                      email = "news@jonasstein.de"),
               person(given = "Ben",
                      family = "Tupper",
                      role = "aut"))
as necessary.
Malformed Description field: should contain one or more complete sentences.
checkRd: (-1) ss.cc.Rd:44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ss.ci.Rd:26: Lost braces
    26 | \item{alpha}{The eqn{\\alpha} error used to compute the \eqn{100*(1-\\alpha)\%} confidence interval}
       |                     ^
checkRd: (-1) ss.rr.Rd:84: Lost braces; missing escapes or markup?
    84 | $MS_{factor}/MS_{interaction}$, e.g. in appendix A of AIAG MSA manual, 
       |     ^
checkRd: (-1) ss.rr.Rd:84: Lost braces; missing escapes or markup?
    84 | $MS_{factor}/MS_{interaction}$, e.g. in appendix A of AIAG MSA manual, 
       |                 ^
checkRd: (-1) ss.rr.Rd:87: Lost braces; missing escapes or markup?
    87 | F test is performed as $MS_{factor}/MS_{equipment}$, i.e., repeatability.
       |                            ^
checkRd: (-1) ss.rr.Rd:87: Lost braces; missing escapes or markup?
    87 | F test is performed as $MS_{factor}/MS_{equipment}$, i.e., repeatability.
       |                                        ^
Author field differs from that derived from Authors@R
  Author:    ‘Sean Kross [aut], Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>), Fred Hutchinson Cancer Center [fnd] (007ps6h72)’
  Authors@R: ‘Sean Kross [aut], Scott Chamberlain [aut, cre] (ORCID: <https://orcid.org/0000-0003-1444-9135>), Fred Hutchinson Cancer Center [fnd] (ROR: <https://ror.org/007ps6h72>)’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘SiZer.R’
Maintainer: ‘Joe Roberts <jorobert@tibco.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("TIBCO", "Software"),
                      family = "Inc.",
                      role = "aut"),
               person(given = "Joe",
                      family = "Roberts",
                      role = "cre",
                      email = "jorobert@tibco.com"))
as necessary.
Maintainer: ‘Seunggeun (Shawn) Lee <lee7801@snu.ac.kr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Seunggeun",
                      family = "Lee",
                      role = "aut",
                      comment = "Shawn"),
               person(given = "Zhangchen",
                      family = "Zhao",
                      role = "aut"),
               person(given = c("with", "contributions", "from", "Larisa"),
                      family = "Miropolsky",
                      role = "aut"),
               person(given = "Michael",
                      family = "Wu",
                      role = "aut"),
               person(given = "Seunggeun",
                      family = "Lee",
                      role = "cre",
                      email = "lee7801@snu.ac.kr",
                      comment = "Shawn"))
as necessary.
Maintainer: ‘Chun Fung Kwok <jkwok@svi.edu.au>’

The BugReports field in DESCRIPTION has
  https://github.com/kcf-jackson/sketch
which should likely be
  https://github.com/kcf-jackson/sketch/issues
instead.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘ext-annotate_expr.R’
Maintainer: ‘David Scott <d.scott@auckland.ac.nz>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "David",
                      family = "Scott",
                      role = c("aut", "cre"),
                      email = "d.scott@auckland.ac.nz"),
               person(given = "Fiona",
                      family = "Grimson",
                      role = "aut"))
as necessary.
Maintainer: ‘Hanmo Li <hanmo@pstat.ucsb.edu>’

The Description field contains
  Mengyang Gu (2023), <arXiv:2310.18611>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Patchanok Srisuradetchai <s.patchanok@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Patchanok",
                    family = "Srisuradetchai",
                    role = c("aut", "cre"),
                    email = "s.patchanok@gmail.com")
as necessary.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘Ski.Mack.Rd’:
    \keyword{block designs, missing values}
Maintainer: ‘Matt Kaye <mrkaye97@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Bob",
                      family = "Rudis",
                      role = c("aut", "cre")),
               person(given = "Jay",
                      family = "Jacobs",
                      role = "ctb"),
               person(given = "David",
                      family = "Severski",
                      role = "ctb"),
               person(given = "Quinn",
                      family = "Weber",
                      role = "ctb"),
               person(given = "Konrad",
                      family = "Karczewski",
                      role = "ctb"),
               person(given = "Shinya",
                      family = "Uryu",
                      role = "ctb"),
               person(given = "Gregory",
                      family = "Jefferis",
                      role = "ctb"),
               person(given = "Ed",
                      family = "Niles",
                      role = "ctb"),
               person(given = "Rick",
                      family = "Saporta",
                      role = "ctb"),
               person(given = "Jonathan",
                      family = "Sidi",
                      role = c("aut", "ctb")),
               person(given = "Matt",
                      family = "Kaye",
                      role = c("aut", "ctb", "cre"),
                      email = "mrkaye97@gmail.com"),
               person(given = "Xinye",
                      family = "Li",
                      role = "ctb"),
               person(given = "Andrie",
                      family = "de Vries",
                      role = c("aut", "ctb")))
as necessary.
checkRd: (-1) outliers.hdts.Rd:44: Lost braces; missing escapes or markup?
    44 |   \item I.cov.rob - The matrix (V'GnV)^{-1} used to compute the statistics to detect the idiosyncratic outliers.
       |                                        ^
Maintainer: ‘Ilana Trumble <itrumble@unc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Michael",
                      family = "Hudgens",
                      role = "aut"),
               person(given = "Ilana",
                      family = "Trumble",
                      role = c("aut", "cre"),
                      email = "itrumble@unc.edu"),
               person(given = "Andrew",
                      family = "Allmon",
                      role = "aut"))
as necessary.
Maintainer: ‘Muntashir-Al-Arefin <sheen4783@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(family = "Muntashir-Al-Arefin",
                      role = c("aut", "cre"),
                      email = "sheen4783@gmail.com"),
               person(given = c("Prof.", "Md.", "Ayub"),
                      family = "Al.",
                      role = "aut"))
as necessary.
Maintainer: ‘Christine Blume <christine.blume@sbg.ac.at>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Found the following (possibly) invalid URLs:
  URL: ../reference/index.html#section-population-dynamics
    From: inst/doc/vignette-03-interactions.html
  URL: ../reference/index.html
    From: inst/doc/vignette-05-tree-sequences.html
  URL: ../reference/index.html#section-tree-sequence-statistics
    From: inst/doc/vignette-05-tree-sequences.html
  URL: ../index.html
    From: inst/doc/vignette-06-locations.html
  URL: ../reference/index.html#tree-sequence-loading-and-processing
    From: inst/doc/vignette-08-nonslendr-tskit.html
Maintainer: ‘Berwin A Turlach <Berwin.Turlach@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Original", "by", "F.L."),
                      family = "Ramsey",
                      role = "aut"),
               person(given = c("D.W.", "Schafer;", "modifications", "by", "Daniel", "W."),
                      family = "Schafer",
                      role = "aut"),
               person(given = "Jeannie",
                      family = "Sifneos",
                      role = "aut"),
               person(given = c("Berwin", "A.", "Turlach;", "vignettes", "contributed", "by", "Nicholas"),
                      family = "Horton",
                      role = "aut"),
               person(given = "Kate",
                      family = "Aloisio",
                      role = "aut"),
               person(given = "Ruobing",
                      family = "Zhang",
                      role = "aut"),
               person(given = c("with", "corrections", "by", "Randall"),
                      family = "Pruim",
                      role = "aut"),
               person(given = c("Berwin", "A"),
                      family = "Turlach",
                      role = "cre",
                      email = "Berwin.Turlach@gmail.com"))
as necessary.
Maintainer: ‘Berwin A Turlach <Berwin.Turlach@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Original", "by", "F.L."),
                      family = "Ramsey",
                      role = "aut"),
               person(given = c("D.W.", "Schafer;", "modifications", "by", "Daniel", "W."),
                      family = "Schafer",
                      role = "aut"),
               person(given = "Jeannie",
                      family = "Sifneos",
                      role = "aut"),
               person(given = c("Berwin", "A.", "Turlach;", "vignettes", "contributed", "by", "Nicholas"),
                      family = "Horton",
                      role = "aut"),
               person(given = "Linda",
                      family = "Loi",
                      role = "aut"),
               person(given = "Kate",
                      family = "Aloisio",
                      role = "aut"),
               person(given = "Ruobing",
                      family = "Zhang",
                      role = "aut"),
               person(given = c("with", "corrections", "by", "Randall"),
                      family = "Pruim",
                      role = "aut"),
               person(given = c("Berwin", "A"),
                      family = "Turlach",
                      role = "cre",
                      email = "Berwin.Turlach@gmail.com"))
as necessary.
Maintainer: ‘Shan Ba <shanbatr@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Shan",
                    family = "Ba",
                    role = c("aut", "cre"),
                    email = "shanbatr@gmail.com")
as necessary.
Maintainer: ‘Everaldo Freitas Guedes <efgestatistico@gmail.com>’

The BugReports field in DESCRIPTION has
  https://github.com/efguedes/SlidingWindows
which should likely be
  https://github.com/efguedes/SlidingWindows/issues
instead.
checkRd: (-1) fit_slim.Rd:24: Lost braces; missing escapes or markup?
    24 | sum(x' V^{-1} (y - x beta)) = 0 as the covariance V tends from V[, , 1] +
       |          ^
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Emmanuel Caron <emmanuelcaron3@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Emmanuel",
                      family = "Caron",
                      role = c("aut", "cre"),
                      email = "emmanuelcaron3@gmail.com"),
               person(given = "Jérôme",
                      family = "Dedecker",
                      role = "aut"),
               person(given = "Bertrand",
                      family = "Michel",
                      role = "aut"))
as necessary.

The Description field contains
  <arXiv:1906.06583>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Wesley Burr <wesley.burr@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Wesley",
                      family = "Burr",
                      role = c("aut", "cre"),
                      email = "wesley.burr@gmail.com"),
               person(given = c("with", "contributions", "from", "Karim"),
                      family = "Rahim",
                      role = "aut"))
as necessary.
checkRd: (-1) slp-package.Rd:38: Escaped LaTeX specials: \&
Author field differs from that derived from Authors@R
  Author:    ‘George Vega Yon [aut, cre] (<https://orcid.org/0000-0002-3171-0844>), Paul Marjoram [ctb, ths] (<https://orcid.org/0000-0003-0824-7449>), National Cancer Institute (NCI) [fnd] (Grant Number 5P01CA196569-02), Michael Schubert [rev] (JOSS reviewer, <https://orcid.org/0000-0002-6862-5221>), Michel Lang [rev] (JOSS reviewer, <https://orcid.org/0000-0001-9754-0393>)’
  Authors@R: ‘George Vega Yon [aut, cre] (ORCID: <https://orcid.org/0000-0002-3171-0844>), Paul Marjoram [ctb, ths] (ORCID: <https://orcid.org/0000-0003-0824-7449>), National Cancer Institute (NCI) [fnd] (Grant Number 5P01CA196569-02), Michael Schubert [rev] (what: JOSS reviewer, ORCID: <https://orcid.org/0000-0002-6862-5221>), Michel Lang [rev] (what: JOSS reviewer, ORCID: <https://orcid.org/0000-0001-9754-0393>)’
Maintainer: ‘Abhishek Nandy <nandy006@umn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Abhishek",
                    family = "Nandy",
                    role = c("aut", "cre"),
                    email = "nandy006@umn.edu")
as necessary.
Maintainer: ‘William Artman <William_Artman@URMC.Rochester.edu>’

The Description field contains
  outcomes. Please see Artman (2020) <arXiv:2008.02341>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Przemyslaw Biecek <przemyslaw.biecek@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Przemyslaw",
                    family = "Biecek",
                    role = c("aut", "cre"),
                    email = "przemyslaw.biecek@gmail.com")
as necessary.
checkRd: (-1) cities_lon_lat.Rd:6: Lost braces
     6 | A subset of world.cities{maps}. Extracted in order to shink number of dependencies. 
       |                         ^
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Dipankar Bandyopadhyay <bandyopd@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jing",
                      family = "Xu",
                      role = "aut"),
               person(given = "Dipankar",
                      family = "Bandyopadhyay",
                      role = c("aut", "cre"),
                      email = "bandyopd@gmail.com"),
               person(given = "Douglas",
                      family = "Azevedo",
                      role = "aut"),
               person(given = "Bibhas",
                      family = "Chakraborty",
                      role = "aut"))
as necessary.

The Description field contains
  <arXiv:1902.09386>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Jun Chen <Chen.Jun2@mayo.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jun",
                      family = "Chen",
                      role = c("aut", "cre"),
                      email = "Chen.Jun2@mayo.edu"),
               person(given = "Ehsan",
                      family = "Behnam",
                      role = "aut",
                      email = "behnamgh@usc.edu"))
as necessary.
Maintainer: ‘Remko Duursma <remkoduursma@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "David",
                      family = "Warton",
                      role = "aut",
                      email = "David.Warton@unsw.edu.au"),
               person(given = "Remko",
                      family = "Duursma",
                      role = c("aut", "cre"),
                      email = "remkoduursma@gmail.com"),
               person(given = "Daniel",
                      family = "Falster",
                      role = "aut"),
               person(given = "Sara",
                      family = "Taskinen.",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Herman Jopia <hjopia@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Herman",
                    family = "Jopia",
                    role = c("aut", "cre"),
                    email = "hjopia@gmail.com")
as necessary.
Maintainer: ‘Tobias Verbeke <tobias.verbeke@openanalytics.eu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Tobias",
                      family = "Verbeke",
                      role = c("aut", "cre"),
                      email = "tobias.verbeke@openanalytics.eu"),
               person(given = c("based", "on", "datasets", "provided", "on", "the", "book's"),
                      family = "website",
                      role = "aut"))
as necessary.
Malformed Title field: should not end in a period.
checkRd: (-1) customerRetentionDemographics.Rd:10: Escaped LaTeX specials: \$
checkRd: (-1) customerRetentionDemographics.Rd:11: Escaped LaTeX specials: \$ \$
checkRd: (-1) customerRetentionDemographics.Rd:12: Escaped LaTeX specials: \$ \$
checkRd: (-1) customerRetentionDemographics.Rd:13: Escaped LaTeX specials: \$ \$
checkRd: (-1) customerRetentionDemographics.Rd:14: Escaped LaTeX specials: \$ \$
checkRd: (-1) customerRetentionDemographics.Rd:15: Escaped LaTeX specials: \$
Maintainer: ‘Ed Merkle <merklee@missouri.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Ed",
                      family = "Merkle",
                      role = c("aut", "cre"),
                      email = "merklee@missouri.edu"),
               person(given = "Michael",
                      family = "Smithson",
                      role = "aut"))
as necessary.
checkRd: (-1) trlong.Rd:17: Lost braces
    17 |     \item{\code{resp}}{a factor indicating the transport mode choice, and \code{B} denotes taking the bus, code{D} denotes driving one's own vehicle, \code{F} denotes getting a ride with a friend, \code{O} denotes other, and \code{W} denotes walking}
       |                                                                                                                ^
checkRd: (-1) smdocker_log.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) smdocker_log.Rd:35-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) smdocker_log.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) smdocker_log.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) smdocker_log.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) smdocker_log.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) smdocker_log.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) SimModel1.Rd:21: Lost braces; missing escapes or markup?
    21 | \item{beta}{the \eqn{\beta} matrix, iqx+ip*ik, y_{1,t-1},y_{1,t-2},...,y_{2,t-1},y_{2,t-2},...}
       |                                                  ^
checkRd: (-1) SimModel1.Rd:21: Lost braces; missing escapes or markup?
    21 | \item{beta}{the \eqn{\beta} matrix, iqx+ip*ik, y_{1,t-1},y_{1,t-2},...,y_{2,t-1},y_{2,t-2},...}
       |                                                            ^
checkRd: (-1) SimModel1.Rd:21: Lost braces; missing escapes or markup?
    21 | \item{beta}{the \eqn{\beta} matrix, iqx+ip*ik, y_{1,t-1},y_{1,t-2},...,y_{2,t-1},y_{2,t-2},...}
       |                                                                          ^
checkRd: (-1) SimModel1.Rd:21: Lost braces; missing escapes or markup?
    21 | \item{beta}{the \eqn{\beta} matrix, iqx+ip*ik, y_{1,t-1},y_{1,t-2},...,y_{2,t-1},y_{2,t-2},...}
       |                                                                                    ^
checkRd: (-1) SimModel2.Rd:19: Lost braces; missing escapes or markup?
    19 | \item{beta_0}{the initial beta, iqx+ip*ik, y_{1,t-1},y_{1,t-2},...,y_{2,t-1},y_{2,t-2},....}
       |                                              ^
checkRd: (-1) SimModel2.Rd:19: Lost braces; missing escapes or markup?
    19 | \item{beta_0}{the initial beta, iqx+ip*ik, y_{1,t-1},y_{1,t-2},...,y_{2,t-1},y_{2,t-2},....}
       |                                                        ^
checkRd: (-1) SimModel2.Rd:19: Lost braces; missing escapes or markup?
    19 | \item{beta_0}{the initial beta, iqx+ip*ik, y_{1,t-1},y_{1,t-2},...,y_{2,t-1},y_{2,t-2},....}
       |                                                                      ^
checkRd: (-1) SimModel2.Rd:19: Lost braces; missing escapes or markup?
    19 | \item{beta_0}{the initial beta, iqx+ip*ik, y_{1,t-1},y_{1,t-2},...,y_{2,t-1},y_{2,t-2},....}
       |                                                                                ^
Maintainer: ‘Qian Zhu <zqian@jimmy.harvard.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Qian",
                      family = "Zhu",
                      role = c("aut", "cre"),
                      email = "zqian@jimmy.harvard.edu"),
               person(given = "Guo-Cheng",
                      family = "Yuan",
                      role = "aut"))
as necessary.
Maintainer: ‘Darren Wilkinson <darrenjwilkinson@btinternet.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Darren",
                    family = "Wilkinson",
                    role = c("aut", "cre"),
                    email = "darrenjwilkinson@btinternet.com")
as necessary.
Maintainer: ‘Paul Walter <paul.w@gmx.net>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Paul",
                    family = "Walter",
                    role = c("aut", "cre"),
                    email = "paul.w@gmx.net")
as necessary.
Maintainer: ‘Alexey Shipunov <dactylorhiza@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Alexey",
                    family = "Shipunov",
                    role = c("aut", "cre"),
                    email = "dactylorhiza@gmail.com",
                    comment = "with help of Eugenij Altshuler")
as necessary.
Maintainer: ‘Siddharth Jain <siddharthjain242@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Siddharth",
                      family = "Jain",
                      role = c("aut", "cre"),
                      email = "siddharthjain242@gmail.com"),
               person(given = "Prabhanjan",
                      family = "Tattar",
                      role = "aut"))
as necessary.
Maintainer: ‘Nicolas Vergne <nicolas.vergne@univ-rouen.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Vlad", "Stefan"),
                      family = "Barbu",
                      role = "aut"),
               person(given = "Caroline",
                      family = "Berard",
                      role = "aut"),
               person(given = "Dominique",
                      family = "Cellier",
                      role = "aut"),
               person(given = "Mathilde",
                      family = "Sautreuil",
                      role = "aut"),
               person(given = "Nicolas",
                      family = "Vergne",
                      role = c("aut", "cre"),
                      email = "nicolas.vergne@univ-rouen.fr"))
as necessary.
checkRd: (-1) estimMk.Rd:44: Lost braces; missing escapes or markup?
    44 | estimMk returns the transition probability matrix of size (S^{k})xS (with S = length(E)) 
       |                                                              ^
Maintainer: ‘Aldo M. Garay <medina_garay@yahoo.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Aldo", "M."),
                      family = "Garay",
                      role = c("aut", "cre"),
                      email = "medina_garay@yahoo.com"),
               person(given = c("Monique", "Bettio"),
                      family = "Massuia",
                      role = "aut",
                      email = "moniquemassuia@gmail.com"),
               person(given = "Victor",
                      family = "Lachos",
                      role = "aut",
                      email = "hlachos@ime.unicamp.br"))
as necessary.
Maintainer: ‘Qingan Sun <quinsun@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Qingan",
                      family = "Sun",
                      role = c("aut", "cre"),
                      email = "quinsun@gmail.com"),
               person(given = "Xiaojun",
                      family = "Li",
                      role = "aut"),
               person(given = c("James", "C"),
                      family = "Sacchettini",
                      role = "aut"))
as necessary.
checkRd: (-1) getGlobalOptimum.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) getGlobalOptimum.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) getGlobalOptimum.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) getLocalOptimum.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) getLocalOptimum.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) getLocalOptimum.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) smoof_function.Rd:10: Lost braces
    10 | or code{smoof_multi_objective_function}. Both single- and multi-objective functions share the following attributes.
       |        ^
Maintainer: ‘Georg Hahn <ghahn@hsph.harvard.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Georg",
                      family = "Hahn",
                      role = c("aut", "cre"),
                      email = "ghahn@hsph.harvard.edu"),
               person(given = c("Sharon", "M."),
                      family = "Lutz",
                      role = "ctb"),
               person(given = "Nilanjana",
                      family = "Laha",
                      role = "ctb"),
               person(given = "Christoph",
                      family = "Lange",
                      role = "ctb"))
as necessary.
Maintainer: ‘Christian Hennig <christian.hennig@unibo.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Christian",
                    family = "Hennig",
                    role = c("aut", "cre"),
                    email = "christian.hennig@unibo.it")
as necessary.
Maintainer: ‘Chanwoo Lee <chanwoo.lee@wisc.edu>’

The Description field contains
  estimation with unknown permutations" <arXiv:2111.04681>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Mikkel Freltoft Krogsholm <mikkel@56n.dk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Mikkel", "Freltoft"),
                    family = "Krogsholm",
                    role = c("aut", "cre"),
                    email = "mikkel@56n.dk")
as necessary.
Found the following files/directories:
  ‘my_new_social_media_plot.png’
Maintainer: ‘Adrian Bowman <adrian.bowman@glasgow.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Adrian",
                      family = "Bowman",
                      role = c("aut", "cre"),
                      email = "adrian.bowman@glasgow.ac.uk"),
               person(given = c("Adelchi", "Azzalini.", "Ported", "to", "R", "by", "B.", "D.", "Ripley", "up", "to", "version"),
                      family = "2.0",
                      role = "aut",
                      email = "ripley@stats.ox.ac.uk"),
               person(given = c("version", "2.1", "by", "Adrian"),
                      family = "Bowman",
                      role = "aut"),
               person(given = "Adelchi",
                      family = "Azzalini",
                      role = "aut"),
               person(given = c("version", "2.2", "by", "Adrian"),
                      family = "Bowman.",
                      role = "aut"))
as necessary.
Maintainer: ‘Dimitris Kavroudakis <dimitris123@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Dimitris",
                    family = "Kavroudakis",
                    role = c("aut", "cre"),
                    email = "dimitris123@gmail.com")
as necessary.
Maintainer: ‘Gabriel Loewinger <gloewinger@gmail.com>’

The Description field contains
  Loewinger et al., (2022) <arXiv:2212.08697>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Wujuan Zhong <zhongwujuan@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Wujuan",
                    family = "Zhong",
                    role = c("aut", "cre"),
                    email = "zhongwujuan@gmail.com")
as necessary.
Maintainer: ‘Samuel Blanck <samuel.blanck@univ-lille.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Guillemette",
                      family = "Marot",
                      role = c("aut", "cre")),
               person(given = "Samuel",
                      family = "Blanck",
                      role = "cre",
                      email = "samuel.blanck@univ-lille.fr"))
as necessary.
Maintainer: ‘Hector Haffenden <haffendenh@cardiff.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Hector",
                    family = "haffenden",
                    role = c("aut", "cre"),
                    email = "haffendenh@cardiff.ac.uk")
as necessary.
checkRd: (-1) SnakesAndLaddersGame.Rd:25: Lost braces; missing escapes or markup?
    25 | {Hector Haffenden} {haffendenh@cardiff.ac.uk}
       |                    ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘sk.R’ ‘sk_export.R’ ‘sk_index.R’ ‘sk_pars.R’ ‘sk_plot.R’
    ‘sk_plot.Rd’ ‘sk_sub.Rd’ ‘sk_var.Rd’ ‘sk_var_mult.Rd’
checkRd: (-1) sk_GLS.Rd:34: Lost braces; missing escapes or markup?
    34 | The GLS solution is: b = ( X^T V^{-1} X )^{-1} X^T V^{-1} z,
       |                                  ^
checkRd: (-1) sk_GLS.Rd:34: Lost braces; missing escapes or markup?
    34 | The GLS solution is: b = ( X^T V^{-1} X )^{-1} X^T V^{-1} z,
       |                                           ^
checkRd: (-1) sk_GLS.Rd:34: Lost braces; missing escapes or markup?
    34 | The GLS solution is: b = ( X^T V^{-1} X )^{-1} X^T V^{-1} z,
       |                                                      ^
checkRd: (-1) sk_GLS.Rd:40: Lost braces; missing escapes or markup?
    40 | Operations with V^{-1} are computed using the factorization \code{fac} (see \code{sk_var}), or
       |                   ^
checkRd: (-1) sk_LL.Rd:37: Lost braces; missing escapes or markup?
    37 | \code{quad_form} is z^T V^{-1} z, for the observed response vector z, which is constructed
       |                           ^
checkRd: (-1) sk_var.Rd:41: Lost braces; missing escapes or markup?
    41 | returns the quadratic form X^T V^{-1} X.
       |                                  ^
checkRd: (-1) sk_var.Rd:33: Lost braces; missing escapes or markup?
    33 | either matrix \code{V}, or X^T V^{-1} X, or a factorization ('chol' or 'eigen')
       |                                  ^
Maintainer: ‘Giancarlo Vercellino <giancarlo.vercellino@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Giancarlo",
                    family = "Vercellino",
                    role = c("aut", "cre"),
                    email = "giancarlo.vercellino@gmail.com")
as necessary.
Maintainer: ‘Aaron Robotham <aaron.robotham@uwa.edu.au>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Aaron",
                    family = "Robotham",
                    role = c("aut", "cre"),
                    email = "aaron.robotham@uwa.edu.au")
as necessary.
Malformed Description field: should contain one or more complete sentences.
Maintainer: ‘Takayuki Kawashima <kawashima@c.titech.ac.jp>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Toshihiro",
                      family = "Abe",
                      role = "aut",
                      email = "abetosh@ss.nanzan-u.ac.jp"),
               person(given = "Hironori",
                      family = "Fujisawa",
                      role = "aut",
                      email = "fujisawa@ism.ac.jp"),
               person(given = "Takayuki",
                      family = "Kawashima",
                      role = c("aut", "cre"),
                      email = "kawashima@c.titech.ac.jp"))
as necessary.
Maintainer: ‘Benjamin Brew <goldenberglab@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Bo",
                      family = "Wang",
                      role = "aut"),
               person(given = "Aziz",
                      family = "Mezlini",
                      role = "aut"),
               person(given = "Feyyaz",
                      family = "Demir",
                      role = "aut"),
               person(given = "Marc",
                      family = "Fiume",
                      role = "aut"),
               person(given = "Zhuowen",
                      family = "Tu",
                      role = "aut"),
               person(given = "Michael",
                      family = "Brudno",
                      role = "aut"),
               person(given = "Benjamin",
                      family = "Haibe-Kains",
                      role = "aut"),
               person(given = "Anna",
                      family = "Goldenberg",
                      role = "aut"),
               person(given = "Benjamin",
                      family = "Brew",
                      role = "cre",
                      email = "goldenberglab@gmail.com"))
as necessary.
Maintainer: ‘Wei Sun <sunweisurrey8@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Wei",
                      family = "Sun",
                      role = c("aut", "cre"),
                      email = "sunweisurrey8@gmail.com"),
               person(given = "Xingye",
                      family = "Qiao",
                      role = "aut"),
               person(given = "Guang",
                      family = "Cheng",
                      role = "aut"))
as necessary.
Maintainer: ‘Jochen Knaus <jo@imbi.uni-freiburg.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jochen",
                    family = "Knaus",
                    role = c("aut", "cre"),
                    email = "jo@imbi.uni-freiburg.de")
as necessary.
Maintainer: ‘Svetlana Eden <svetlana.eden@vanderbilt.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Svetlana",
                    family = "Eden",
                    role = c("aut", "cre"),
                    email = "svetlana.eden@vanderbilt.edu")
as necessary.
Maintainer: ‘Hana Sevcikova <hanas@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hana",
                      family = "Sevcikova",
                      role = c("aut", "cre"),
                      email = "hanas@uw.edu"),
               person(given = c("A.", "J."),
                      family = "Rossini",
                      role = "aut"))
as necessary.
Maintainer: ‘Luke Tierney <luke-tierney@uiowa.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Luke",
                      family = "Tierney",
                      role = c("aut", "cre"),
                      email = "luke-tierney@uiowa.edu"),
               person(given = c("A.", "J."),
                      family = "Rossini",
                      role = "aut"),
               person(given = "Na",
                      family = "Li",
                      role = "aut"),
               person(given = "H.",
                      family = "Sevcikova",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘gtable_ld_associations_combine.Rd’ ‘gtable_ld_grobs.Rd’
Maintainer: ‘David Hervas <ddhervas@yahoo.es>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "David",
                    family = "Hervas",
                    role = c("aut", "cre"),
                    email = "ddhervas@yahoo.es")
as necessary.
checkRd: (-1) plot.selm.Rd:101: Lost braces
   101 | data. Default value for code{which} is \code{2:4} if \code{p>1}, otherwise
       |                             ^
Maintainer: ‘Luis Benavides <luisbv@tec.mx>’

The Description field contains
  (2019) <arXiv:1901.04443>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Alireza Mahani <alireza.s.mahani@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Alireza", "S."),
                      family = "Mahani",
                      role = "aut"),
               person(given = "Asad",
                      family = "Hasan",
                      role = "aut"),
               person(given = "Marshall",
                      family = "Jiang",
                      role = "aut"),
               person(given = c("Mansour", "T.A."),
                      family = "Sharabiani",
                      role = "aut"),
               person(given = "Alireza",
                      family = "Mahani",
                      role = "cre",
                      email = "alireza.s.mahani@gmail.com"))
as necessary.
Maintainer: ‘Bill Venables <Bill.Venables@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Bill",
                      family = "Venables",
                      role = c("aut", "cre"),
                      email = "bill.venables@gmail.com"),
               person(given = c("based", "on", "original", "code", "by", "David"),
                      family = "Brahm",
                      role = "aut"))
as necessary.

Found the following (possibly) invalid file URI:
  URI: cran.r-project.org
    From: inst/doc/SOAR.pdf
Found the following calls to attach():
File ‘SOAR/R/SOAR.R’:
  attach(NULL, pos, basename(directory))
See section ‘Good practice’ in ‘?attach’.
Found the following files/directories:
  ‘.R_Test’
Maintainer: ‘Maikol Solís <maikol.solis@ucr.ac.cr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Maikol",
                    family = "Solís",
                    role = c("aut", "cre"),
                    email = "maikol.solis@ucr.ac.cr")
as necessary.

The Description field contains
  M. (2018) <arXiv:1803.03333>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer field differs from that derived from Authors@R
  Maintainer: ‘ORPHANED’
  Authors@R:  ‘Mutsuo Saito <sai10@hiroshima-u.ac.jp>’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘PowerRelation.R’ ‘SocialRanking.R’ ‘copeland.R’ ‘doRanking.Rd’
    ‘elementLookup.Rd’ ‘generator.R’ ‘makePowerRelationMonotonic.R’
Maintainer: ‘Tom Pike <tpike@lincoln.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tom",
                    family = "Pike",
                    role = c("aut", "cre"),
                    email = "tpike@lincoln.ac.uk")
as necessary.
Maintainer: ‘Kieran Healy <kjhealy@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) preg2.Rd:8: Lost braces
     8 | An object of class \\code{tbl_df} (inherits from \\code{tbl}, \\code{data.frame}) with 2 rows and 4 columns.
       |                          ^
checkRd: (-1) preg2.Rd:8: Lost braces
     8 | An object of class \\code{tbl_df} (inherits from \\code{tbl}, \\code{data.frame}) with 2 rows and 4 columns.
       |                                                        ^
checkRd: (-1) preg2.Rd:8: Lost braces
     8 | An object of class \\code{tbl_df} (inherits from \\code{tbl}, \\code{data.frame}) with 2 rows and 4 columns.
       |                                                                     ^
Maintainer: ‘Yang Li <yangli.stat@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yang",
                      family = "Li",
                      role = c("aut", "cre"),
                      email = "yangli.stat@gmail.com"),
               person(given = c("Jun", "S."),
                      family = "Liu",
                      role = "aut"))
as necessary.
checkRd: (-1) s_soda_pred.Rd:8: Lost braces; missing escapes or markup?
     8 | S-SODA assumes within each slice the X vector follow multivariate normal distribution. This function predicts the response y by reverting the P(X | slice(y)) to P(slice(y) | X), and estimates the E(y|X) as sum_{h} E(y | slice(y)=h, X) P (slice(y)=h | X)
       |                                                                                                                                                                                                                   ^
checkRd: (-1) db_compact.Rd:41: Lost braces; missing escapes or markup?
    41 | database structure will be set to true. See GET /{db}. You can also obtain a list of
       |                                                  ^
Maintainer: ‘Luis Diaz-Garcia <diazgarcia@wisc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Luis",
                    family = "Diaz-Garcia",
                    role = c("aut", "cre"),
                    email = "diazgarcia@wisc.edu")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Jose D. Loera <jose.loera@inegi.org.mx>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Jose", "D."),
                    family = "Loera",
                    role = c("aut", "cre"),
                    email = "jose.loera@inegi.org.mx")
as necessary.
Maintainer: ‘G. Peters <peters.activities@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "G.",
                    family = "Peters",
                    role = c("aut", "cre"),
                    email = "peters.activities@gmail.com",
                    comment = "Ed.")
as necessary.
Maintainer: ‘Seungjun Ahn <seungjun.ahn@mountsinai.org>’

The Description field contains
  <arXiv:2303.13702v1>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Dione Pereira Cardoso <cardoso.dione@gmail.com>’

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘KFactor.Rd’:
    \keyword{Nomograph; Particle-size; Organic matter; [TRUNCATED]
  File ‘RFactor_calc.Rd’:
    \keyword{Erosivity index; R-Factor; Universal Soil [TRUNCATED]
  File ‘RFactor_est.Rd’:
    \keyword{Erosivity index; R-Factor; Universal Soil [TRUNCATED]
  File ‘SoilConservation.Rd’:
    \keyword{Soil Conservation; Erosivity index; R-Fac [TRUNCATED]
  File ‘SoilLoss.Rd’:
    \keyword{Soil Loss; Water Erosion; R Factor; K Fac [TRUNCATED]
Maintainer: ‘Anderson Rodrigo da Silva <anderson.agro@hotmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) llwrPTF.Rd:7: Escaped LaTeX specials: \&
Maintainer: ‘Yi Yang <yi.yang6@mcgill.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Chenglong",
                      family = "Ye",
                      role = "aut",
                      email = "yexxx323@umn.edu"),
               person(given = "Yi",
                      family = "Yang",
                      role = c("aut", "cre"),
                      email = "yi.yang6@mcgill.ca"),
               person(given = "Yuhong",
                      family = "Yang",
                      role = "aut",
                      email = "yyang@stat.umn.edu"))
as necessary.
Maintainer: ‘Carlos A. Sierra <csierra@bgc-jena.mpg.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Carlos", "A."),
                      family = "Sierra",
                      role = c("aut", "cre"),
                      email = "csierra@bgc-jena.mpg.de"),
               person(given = "Markus",
                      family = "Mueller",
                      role = "aut"))
as necessary.
Maintainer: ‘Emanuele Cordano <emanuele.cordano@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Emanuele",
                      family = "Cordano",
                      role = c("aut", "cre"),
                      email = "emanuele.cordano@gmail.com"),
               person(given = "Daniele",
                      family = "Andreis",
                      role = "aut"),
               person(given = "Fabio",
                      family = "Zottele",
                      role = "aut"))
as necessary.
Maintainer: ‘Zhaoliang He <1024299329@qq.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Zhaoliang",
                      family = "He",
                      role = c("aut", "cre"),
                      email = "1024299329@qq.com"),
               person(given = "Linsui",
                      family = "Deng",
                      role = "aut",
                      email = "1175520015@qq.com"),
               person(given = "Kaiwen",
                      family = "Tan",
                      role = "aut",
                      email = "913596401@qq.com"))
as necessary.
Maintainer: ‘Jasper Van doninck <vandoninck.jasper@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jasper",
                    family = "Van doninck",
                    role = c("aut", "cre"),
                    email = "vandoninck.jasper@gmail.com")
as necessary.
Maintainer: ‘Bijan Seyednasrollah <bijan.s.nasr@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Bijan",
                    family = "Seyednasrollah",
                    role = c("aut", "cre"),
                    email = "bijan.s.nasr@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘DayOfYear.Rd’:
    \keyword{DOY,}
checkRd: (-1) solr_mlt.Rd:70: Lost braces; missing escapes or markup?
    70 | TermVector DEFAULT_FIELD_NAMES = new String[] {"contents"}
       |                                               ^
checkRd: (-1) solve_pH_from_AT.Rd:83: Lost braces in \itemize; meant \describe ?
checkRd: (-1) solve_pH_from_AT.Rd:84: Lost braces in \itemize; meant \describe ?
checkRd: (-1) solve_pH_from_AT.Rd:85: Lost braces in \itemize; meant \describe ?
checkRd: (-1) solve_pH_from_AT.Rd:86: Lost braces in \itemize; meant \describe ?
checkRd: (-1) solve_pH_from_AT.Rd:87: Lost braces in \itemize; meant \describe ?
checkRd: (-1) solve_pH_from_AT.Rd:88: Lost braces in \itemize; meant \describe ?
checkRd: (-1) solve_pH_from_AT.Rd:89: Lost braces in \itemize; meant \describe ?
checkRd: (-1) solve_pH_from_AT.Rd:90: Lost braces in \itemize; meant \describe ?
checkRd: (-1) solve_pH_from_AT.Rd:91: Lost braces in \itemize; meant \describe ?
checkRd: (-1) solve_pH_from_AT.Rd:92: Lost braces in \itemize; meant \describe ?
checkRd: (-1) solve_pH_from_AT.Rd:93: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Jon Clayden <code@clayden.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jon",
                    family = "Clayden",
                    role = c("aut", "cre"),
                    email = "code@clayden.org")
as necessary.
Maintainer: ‘livio finos <livio@stat.unipd.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "livio",
                    family = "finos",
                    role = c("aut", "cre"),
                    email = "livio@stat.unipd.it")
as necessary.
Maintainer: ‘Andreas Dominik <andreas.dominik@mni.thm.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Andreas",
                    family = "Dominik",
                    role = c("aut", "cre"),
                    email = "andreas.dominik@mni.thm.de")
as necessary.
Maintainer: ‘Charles Berry <ccberry@ucsd.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Charles",
                    family = "Berry",
                    role = c("aut", "cre"),
                    email = "ccberry@ucsd.edu")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘soundSpeed.Rd’
Maintainer: ‘Willem Daniel Schutte <wd.schutte@nwu.ac.za>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Willem", "Daniel"),
                    family = "Schutte",
                    role = c("aut", "cre"),
                    email = "wd.schutte@nwu.ac.za")
as necessary.
Maintainer: ‘"Zeb Burke-Conte" <zmbc@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Zeb",
                      family = "Burke-Conte",
                      role = "aut"),
               person(given = "\"Zeb",
                      family = "Burke-Conte\"",
                      role = "cre",
                      email = "zmbc@uw.edu"))
as necessary.
Found the following HTML validation problems:
sorcering.html:638:1 (sorcering.Rd:26): Warning: <script> anchor "MathJax-script" already defined
Maintainer: ‘Weimin Zhang <zhangwm@hotmail.com>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘asrm.Rd’:
    https://doi.org/10.1111/biom.12997
  File ‘sorocs.Rd’:
    https://doi.org/10.1111/biom.12997
Maintainer: ‘Aurnov Chattopadhyay <aurnovcy@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Aurnov",
                    family = "Chattopadhyay",
                    role = c("aut", "cre"),
                    email = "aurnovcy@gmail.com")
as necessary.
checkRd: (-1) load_sorvi_data.Rd:23: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Spencer Graves <spencer.graves@prodsyse.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Spencer",
                      family = "Graves",
                      role = c("cre", "aut", "cph"),
                      email = "spencer.graves@prodsyse.com"),
               person(given = "Sundar",
                      family = "Dorai-Raj",
                      role = "aut"),
               person(given = "Romain",
                      family = "Francois",
                      role = "ctb"))
as necessary.
Maintainer: ‘Bruno Silva <bmsasilva@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Bruno",
                    family = "Silva",
                    role = c("aut", "cre"),
                    email = "bmsasilva@gmail.com")
as necessary.
Maintainer: ‘Luis J. Villanueva-Rivera <ljvillanueva@coquipr.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Luis", "J."),
                      family = "Villanueva-Rivera",
                      role = c("aut", "cre"),
                      email = "ljvillanueva@coquipr.com"),
               person(given = c("Bryan", "C."),
                      family = "Pijanowski",
                      role = "aut"))
as necessary.
Maintainer: ‘Daniel Marcelino <dmarcelino@live.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Daniel",
                    family = "Marcelino",
                    role = c("aut", "cre"),
                    email = "dmarcelino@live.com")
as necessary.

The BugReports field in DESCRIPTION has
  http://github.com/danielmarcelino/soundexBR
which should likely be
  http://github.com/danielmarcelino/soundexBR/issues
instead.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘soundexBR.Rd’:
    http://dx.doi.org/10.2139/ssrn.2320547
Maintainer: ‘Matthew Daniel Young <my4@sanger.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Matthew", "Daniel"),
                    family = "Young",
                    role = c("aut", "cre"),
                    email = "my4@sanger.ac.uk")
as necessary.
Maintainer: ‘Kevin Ushey <kevinushey@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Kevin",
                    family = "Ushey",
                    role = c("aut", "cre"),
                    email = "kevinushey@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘SouthPark_Script_Data.Rd’ ‘app_server.R’
Maintainer: ‘Matheus Dalsente Krause <krause.d.matheus@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Silvia D'Angelo <silvia.dangelo@ucd.ie>’

The Description field contains
  MCMC algorithm. See D Angelo et al. (2018) <arXiv:1803.07166> and D
  Angelo et al. (2018) <arXiv:1807.03874>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Glenn Davis <gdavis@gluonics.com>’

Found the following (possibly) invalid file URI:
  URI: <gdavis@gluonics.com>
    From: inst/doc/isotherms.pdf
Maintainer: ‘Alberto Krone-Martins <algol@sim.ul.pt>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Alberto",
                    family = "Krone-Martins",
                    role = c("aut", "cre"),
                    email = "algol@sim.ul.pt")
as necessary.
Maintainer: ‘Vilmantas Gegzna <GegznaV@gmail.com>’

Found the following (possibly) invalid file URI:
  URI: /commits/master
    From: README.md
Maintainer: ‘Anne Chao <chao@stat.nthu.edu.tw>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Anne",
                      family = "Chao",
                      role = c("aut", "cre"),
                      email = "chao@stat.nthu.edu.tw"),
               person(given = c("K.", "H."),
                      family = "Ma",
                      role = "aut"),
               person(given = c("T.", "C."),
                      family = "Hsieh",
                      role = "aut"),
               person(given = "Chun-Huo",
                      family = "Chiu",
                      role = "aut"))
as necessary.
Maintainer: ‘Jose Manuel Vera Oteo <vera.josemanuel@gmail.com>’

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘geocode_cadastral.Rd’:
    \keyword{cadastre,}
    \keyword{geocoding,}
    \keyword{latitude,}
    \keyword{longitude,}
  File ‘to_number.Rd’:
    \keyword{currency,}
    \keyword{euros,}
    \keyword{money,}
  File ‘to_words.Rd’:
    \keyword{integers,}
    \keyword{money,}
    \keyword{spanish,}
Maintainer: ‘Daniela Witten <dwitten@u.washington.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Daniela", "M."),
                      family = "Witten",
                      role = "aut"),
               person(given = "Robert",
                      family = "Tibshirani",
                      role = "aut"),
               person(given = "Daniela",
                      family = "Witten",
                      role = "cre",
                      email = "dwitten@u.washington.edu"))
as necessary.
Maintainer: ‘Aki Ariga <chezou@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Aki",
                    family = "Ariga",
                    role = c("aut", "cre"),
                    email = "chezou@gmail.com")
as necessary.

The BugReports field in DESCRIPTION has
  https://github.com/chezou/sparkavro
which should likely be
  https://github.com/chezou/sparkavro/issues
instead.
Maintainer: ‘Ramnath Vaidyanathan <ramnath.vaidya@gmail.com>’

Found the following (possibly) invalid file URI:
  URI: CONDUCT.md
    From: README.md
checkRd: (-1) sdf_unnest.Rd:20: Lost braces
    20 | \code{a1, a2, a3}, then code{sdf_explode(df, a)} will produce output with each record replicated
       |                             ^
Maintainer: ‘Thomas Leeper <thosjleeper@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Alex Gibberd <a.gibberd@lancaster.ac.uk>’

The Description field contains
  <arXiv:2303.11892>. Options to use classic multivariate Kalman filter
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Max Kuhn <mxkuhn@gmail.com>’

The Description field contains
  classifier from Ramey et al. (2017) <arXiv:1602.01182>. Other
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Daniel P. Palomar <daniel.p.palomar@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Jelmer Ypma <uctpjyy@ucl.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jelmer",
                    family = "Ypma",
                    role = c("aut", "cre"),
                    email = "uctpjyy@ucl.ac.uk")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Malformed Description field: should contain one or more complete sentences.
Maintainer: ‘Daniel P. Palomar <daniel.p.palomar@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Andrew Zammit-Mangion <andrewzm@gmail.com>’

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘Takahashi_Davis.Rd’:
    \keyword{factor,}
  File ‘cholsolve.Rd’:
    \keyword{factor,}
  File ‘cholsolveAQinvAT.Rd’:
    \keyword{factor,}
checkRd: (-1) cholsolveAQinvAT.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Solve the equation X = AQ^{-1}t(A) under permutations}
       |                                  ^
Maintainer: ‘Max Kuhn <mxkuhn@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Line",
                      family = "Clemmensen",
                      role = "aut",
                      email = "lhc@imm.dtu.dk"),
               person(given = c("contributions", "by", "Max"),
                      family = "Kuhn",
                      role = "aut"),
               person(given = "Max",
                      family = "Kuhn",
                      role = "cre",
                      email = "mxkuhn@gmail.com"))
as necessary.
Maintainer: ‘Riccardo Rastelli <riccardoras@gmail.com>’

The Description field contains
  <arXiv:1808.09262>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Adam B Kashlak <kashlak@ualberta.ca>’

The Description field contains
  search method outlined in Kashlak and Kong (2019) <arXiv:1705.02679>
  and in Kashlak (2019) <arXiv:1903.10988>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) mu_calc.Rd:32: Lost braces; missing escapes or markup?
    32 | mu_{d} | mu_{d} < mu_{d-1} and mu_{d} | mu_{d} > mu_{d-1} respecitively.
       |    ^
checkRd: (-1) mu_calc.Rd:32: Lost braces; missing escapes or markup?
    32 | mu_{d} | mu_{d} < mu_{d-1} and mu_{d} | mu_{d} > mu_{d-1} respecitively.
       |             ^
checkRd: (-1) mu_calc.Rd:32: Lost braces; missing escapes or markup?
    32 | mu_{d} | mu_{d} < mu_{d-1} and mu_{d} | mu_{d} > mu_{d-1} respecitively.
       |                      ^
checkRd: (-1) mu_calc.Rd:32: Lost braces; missing escapes or markup?
    32 | mu_{d} | mu_{d} < mu_{d-1} and mu_{d} | mu_{d} > mu_{d-1} respecitively.
       |                                   ^
checkRd: (-1) mu_calc.Rd:32: Lost braces; missing escapes or markup?
    32 | mu_{d} | mu_{d} < mu_{d-1} and mu_{d} | mu_{d} > mu_{d-1} respecitively.
       |                                            ^
checkRd: (-1) mu_calc.Rd:32: Lost braces; missing escapes or markup?
    32 | mu_{d} | mu_{d} < mu_{d-1} and mu_{d} | mu_{d} > mu_{d-1} respecitively.
       |                                                     ^
Maintainer: ‘Lax Chan <laxchan77@gmail.com>’

The Description field contains
  W., Vincent, K (2019) <arXiv:1902.05156>. This package explicitly
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘N. Benjamin Erichson <erichson@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("N.", "Benjamin"),
                      family = "Erichson",
                      role = c("aut", "cre"),
                      email = "erichson@uw.edu"),
               person(given = "Peng",
                      family = "Zheng",
                      role = "aut"),
               person(given = "Sasha",
                      family = "Aravkin",
                      role = "aut"))
as necessary.

The Description field contains
  Erichson et al. (2018) <arXiv:1804.00341>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Marc Ratkovic <ratkovic@princeton.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Marc",
                      family = "Ratkovic",
                      role = c("aut", "cre"),
                      email = "ratkovic@princeton.edu"),
               person(given = "Dustin",
                      family = "Tingley",
                      role = "aut"))
as necessary.
checkRd: (-1) plot.sparsereg.Rd:22-23: Lost braces
    22 | \env{main1, main2, main3}{
       |                          ^
checkRd: (-1) plot.sparsereg.Rd:25-27: Lost braces
    25 | \env{xlabel}{
       |             ^
checkRd: (-1) plot.sparsereg.Rd:29-31: Lost braces
    29 | \env{plot.one}{
       |               ^
checkRd: (-1) summary.sparsereg.Rd:27-29: Lost braces
    27 | \env{interval}{
       |               ^
checkRd: (-1) summary.sparsereg.Rd:31-33: Lost braces
    31 | \env{ci}{
       |         ^
checkRd: (-1) summary.sparsereg.Rd:35-37: Lost braces
    35 | \env{order}{
       |            ^
checkRd: (-1) summary.sparsereg.Rd:39-41: Lost braces
    39 | \env{normal}{
       |             ^
checkRd: (-1) summary.sparsereg.Rd:43-45: Lost braces
    43 | \env{select}{
       |             ^
checkRd: (-1) summary.sparsereg.Rd:47-48: Lost braces
    47 | \env{printit}{
       |              ^
checkRd: (-1) summary.sparsereg.Rd:50-52: Lost braces
    50 | \env{stage}{
       |            ^
Maintainer: ‘Gertjan van den Burg <gertjanvandenburg@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.

The Description field contains
  <arXiv:1701.06967>. In the model, a regularization term is added to the
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.

The BugReports field in DESCRIPTION has
  https://github.com/GjjvdBurg/SparseStep
which should likely be
  https://github.com/GjjvdBurg/SparseStep/issues
instead.
File ‘sparsevctrs/libs/sparsevctrs.so’:
  Found non-API call to R: ‘ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Maintainer: ‘Marius Placzek <marius.placzek@med.uni-goettingen.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "T.",
                      family = "Asendorf",
                      role = "aut"),
               person(given = "R.",
                      family = "Gera",
                      role = "aut"),
               person(given = "S.",
                      family = "Islam",
                      role = "aut"),
               person(given = "M.",
                      family = "Harden",
                      role = "aut"),
               person(given = "M.",
                      family = "Placzek",
                      role = "aut"),
               person(given = "Marius",
                      family = "Placzek",
                      role = "cre",
                      email = "marius.placzek@med.uni-goettingen.de"))
as necessary.
Maintainer: ‘Altieri Linda <linda.altieri@unibo.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "L.",
                      family = "Altieri",
                      role = "aut"),
               person(given = "D.",
                      family = "Cocchi",
                      role = "aut"),
               person(given = "G.",
                      family = "Roli",
                      role = "aut"),
               person(given = "Altieri",
                      family = "Linda",
                      role = "cre",
                      email = "linda.altieri@unibo.it"))
as necessary.
Maintainer: ‘Fabio Sigrist <fabiosigrist@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Fabio",
                      family = "Sigrist",
                      role = c("aut", "cre"),
                      email = "fabiosigrist@gmail.com"),
               person(given = c("Hans", "R."),
                      family = "Kuensch",
                      role = "aut"),
               person(given = c("Werner", "A."),
                      family = "Stahel",
                      role = "aut"))
as necessary.
Maintainer: ‘Rounak Dey <deyrnk@umich.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Rounak",
                      family = "Dey",
                      role = c("aut", "cre"),
                      email = "deyrnk@umich.edu"),
               person(given = "Seunggeun",
                      family = "Lee",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘sim_functional_process.R’
Maintainer: ‘Tuomas Rajala <tuomas.rajala@iki.fi>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tuomas",
                    family = "Rajala",
                    role = c("aut", "cre"),
                    email = "tuomas.rajala@iki.fi")
as necessary.
Maintainer: ‘David Clifford <david.clifford+CRAN@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "David",
                    family = "Clifford",
                    role = c("aut", "cre"),
                    email = "david.clifford+CRAN@gmail.com")
as necessary.
Maintainer: ‘Javier Garcia-Pintado <jgarciapintado@marum.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Javier",
                    family = "Garcia-Pintado",
                    role = c("aut", "cre"),
                    email = "jgarciapintado@marum.de")
as necessary.
checkRd: (-1) distSG.Rd:40: Lost braces; missing escapes or markup?
    40 |   matrix and weight matrix (plus a matrix with {eID} identifiers
       |                                                ^
Maintainer: ‘Nobin Chandra Paul<ncp375@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Nobin", "Chandra"),
                    family = "Paul",
                    role = c("aut", "cre"),
                    email = "ncp375@gmail.com")
as necessary.
Maintainer: ‘Brian Ripley <Brian.Ripley@R-project.org>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Joshua French <joshua.french@ucdenver.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Joshua",
                    family = "French",
                    role = c("aut", "cre"),
                    email = "joshua.french@ucdenver.edu")
as necessary.
Maintainer: ‘Yili Hong <yilihong@vt.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yili",
                      family = "Hong",
                      role = c("aut", "cre"),
                      email = "yilihong@vt.edu"),
               person(given = "Li",
                      family = "Xu",
                      role = "aut"),
               person(given = "Yimeng",
                      family = "Xie",
                      role = "aut"),
               person(given = "Zhongnan",
                      family = "Jin",
                      role = "aut"))
as necessary.

The Description field contains
  al. (2018, <arXiv:1809.06418>). The package also contains the Lyme
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Benjamin M. Taylor <benjamin.taylor.software@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Benjamin", "M."),
                      family = "Taylor",
                      role = c("aut", "cre"),
                      email = "benjamin.taylor.software@gmail.com"),
               person(given = c("Barry", "S.", "Rowlingson", "Additional", "contributions", "Ziyu"),
                      family = "Zheng",
                      role = "aut"))
as necessary.
Maintainer: ‘Francesco Pantalone <pantalone.fra@gmail.com>’

The Description field contains
  <arXiv:1710.09116>. The implementation has been done in C++ through the
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Axel Gandy <a.gandy@imperial.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Axel",
                      family = "Gandy",
                      role = c("aut", "cre"),
                      email = "a.gandy@imperial.ac.uk"),
               person(given = c("Jan", "Terje"),
                      family = "Kvaloy.",
                      role = "aut",
                      email = "jan.t.kvaloy@uis.no"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Ning Hao <nhao@math.arizona.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Yue", "S."),
                      family = "Niu",
                      role = "aut"),
               person(given = "Ning",
                      family = "Hao",
                      role = c("aut", "cre"),
                      email = "nhao@math.arizona.edu"),
               person(given = "Bin",
                      family = "Dong",
                      role = "aut"))
as necessary.
Maintainer: ‘Milana Gataric <m.gataric@statslab.cam.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Milana",
                      family = "Gataric",
                      role = c("aut", "cre"),
                      email = "m.gataric@statslab.cam.ac.uk"),
               person(given = "Tengyao",
                      family = "Wang",
                      role = "aut"),
               person(given = c("Richard", "J."),
                      family = "Samworth",
                      role = "aut"))
as necessary.

The Description field contains
  T. and Samworth, R. J. (2018) <arXiv:1712.05630>. The algorithm is
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘David A. Schoenfeld <dschoenfeld@mgh.harvard.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("David", "A."),
                    family = "Schoenfeld",
                    role = c("aut", "cre"),
                    email = "dschoenfeld@mgh.harvard.edu")
as necessary.
Maintainer: ‘Ziang Zhang <aguero.zhang@mail.utoronto.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Ziang",
                      family = "Zhang",
                      role = c("aut", "cre"),
                      email = "aguero.zhang@mail.utoronto.ca"),
               person(given = "Lei",
                      family = "Sun",
                      role = "aut"))
as necessary.

The Description field contains
  Accounting for Covariate Effects" <arXiv:2203.15641>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Jacob Bien <jbien@usc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jacob",
                      family = "Bien",
                      role = c("aut", "cre"),
                      email = "jbien@usc.edu"),
               person(given = "Rob",
                      family = "Tibshirani",
                      role = "aut"))
as necessary.
Maintainer: ‘Shuichi Kawano <skawano@math.kyushu-u.ac.jp>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Shuichi",
                    family = "Kawano",
                    role = c("aut", "cre"),
                    email = "skawano@math.kyushu-u.ac.jp")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘federov.R’
Maintainer: ‘Rasheed AM <a.rasheed@qut.edu.au>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Rasheed",
                      family = "AM",
                      role = c("aut", "cre"),
                      email = "a.rasheed@qut.edu.au"),
               person(given = "Egodawatta",
                      family = "P",
                      role = "aut"),
               person(given = "Goonetilleke",
                      family = "A",
                      role = "aut"),
               person(given = "McGree",
                      family = "J",
                      role = "aut"))
as necessary.
Maintainer: ‘Alexios Ghalanos <alexios@4dscape.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Alexios",
                    family = "Ghalanos",
                    role = c("aut", "cre"),
                    email = "alexios@4dscape.com")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Javier Martinez-Lopez <javi.martinez.lopez@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Javier",
                      family = "Martinez-Lopez",
                      role = c("aut", "cre"),
                      email = "javi.martinez.lopez@gmail.com"),
               person(given = "Babak",
                      family = "Naimi",
                      role = "aut",
                      email = "naimi.b@gmail.com"),
               person(given = "Julia",
                      family = "Martinez-Fernandez",
                      role = "aut",
                      email = "juliamf@um.es"))
as necessary.
Maintainer: ‘Charlie Beirnaert <charlie_beirnaert@icloud.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Charlie",
                      family = "Beirnaert",
                      role = c("aut", "cre"),
                      email = "charlie_beirnaert@icloud.com"),
               person(given = c("Trung", "Nghia"),
                      family = "Vu",
                      role = "aut"),
               person(given = "Pieter",
                      family = "Meysman",
                      role = "aut"),
               person(given = "Kris",
                      family = "Laukens",
                      role = "aut"),
               person(given = "Dirk",
                      family = "Valkenborg",
                      role = "aut"))
as necessary.
checkRd: (-1) findRef.Rd:39: Lost braces
    39 | Vu TN, Valkenborg D, Smets K, Verwaest KA, Dommisse R, Lemi\`{e}re F, Verschoren A, Goethals B, Laukens K. (2011) An integrated workflow for robust alignment and simplified quantitative analysis of NMR spectrometry data. BMC Bioinformatics. 2011 Oct 20;12:405.
       |                                                              ^
checkRd: (-1) hClustAlign.Rd:70: Lost braces
    70 | Vu TN, Valkenborg D, Smets K, Verwaest KA, Dommisse R, Lemi\`{e}re F, Verschoren A, Goethals B, Laukens K. (2011) An integrated workflow for robust alignment and simplified quantitative analysis of NMR spectrometry data. BMC Bioinformatics. 2011 Oct 20;12:405.
       |                                                              ^
Maintainer: ‘Denis Rastegaev <drastega@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Denis",
                    family = "Rastegaev",
                    role = c("aut", "cre"),
                    email = "drastega@gmail.com")
as necessary.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Roadmap of specklestar package
Maintainer: ‘Tim Bergsma <bergsmat@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tim",
                    family = "Bergsma",
                    role = c("aut", "cre"),
                    email = "bergsmat@gmail.com")
as necessary.
checkRd: (-1) FitAkdParameters.Rd:23: Lost braces; missing escapes or markup?
    23 |       p(y|ens) = 1 / K * sum {dnorm(y, z.i, s)} \cr
       |                              ^
Maintainer: ‘Chris Paciorek <paciorek@alumni.cmu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Chris",
                    family = "Paciorek",
                    role = c("aut", "cre"),
                    email = "paciorek@alumni.cmu.edu")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) image.plot.Rd:78: Escaped LaTeX specials: \$
Maintainer: ‘Martin Seilmayer <martin.seilmayer@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Martin",
                    family = "Seilmayer",
                    role = c("aut", "cre"),
                    email = "martin.seilmayer@gmail.com")
as necessary.
Author field differs from that derived from Authors@R
  Author:    ‘Johannes Zauner [aut, cre, cph] (<https://orcid.org/0000-0003-2171-4566>), LiTG [fnd, cph] (www.litg.de)’
  Authors@R: ‘Johannes Zauner [aut, cre, cph] (ORCID: <https://orcid.org/0000-0003-2171-4566>), LiTG [fnd, cph] (URL: www.litg.de)’

  Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘analysis_age.R’ ‘analysis_alpha.R’ ‘analysis_helpers.R’
    ‘analysis_helpers_table.R’ ‘analysis_photo.R’ ‘analysis_radio.R’
    ‘analysis_setup.R’ ‘export_Output_Settings.R’ ‘export_download.R’
    ‘export_helpers.R’ ‘export_helpers_plot.R’ ‘export_helpers_table.R’
    ‘import_examples.R’ ‘import_examples_box.R’
Maintainer: ‘Christopher R John <chris.r.john86@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Christopher", "R"),
                      family = "John",
                      role = c("aut", "cre"),
                      email = "chris.r.john86@gmail.com"),
               person(given = "David",
                      family = "Watson",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘innprod.R’ ‘utils.R’
Maintainer: ‘Castor Guisande Gonzalez <castor@uvigo.es>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Castor", "Guisande"),
                    family = "Gonzalez",
                    role = c("aut", "cre"),
                    email = "castor@uvigo.es")
as necessary.
Maintainer: ‘Charles J. Geyer <charlie@stat.umn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Charles", "J."),
                      family = "Geyer",
                      role = c("aut", "cre"),
                      email = "charlie@stat.umn.edu"),
               person(given = c("Elizabeth", "A."),
                      family = "Thompson",
                      role = "aut",
                      email = "eathomp@u.washington.edu"))
as necessary.
checkRd: (-1) speech_recompiler.Rd:25: Lost braces; missing escapes or markup?
    25 | The default compilation is that of \ code {speech_build (., compiler = TRUE}).
       |                                           ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘import_qiime2_tax_table.R’ ‘import_sintax_tax_table.R’
Maintainer: ‘Michal Juraska <mjuraska@fredhutch.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Michal",
                      family = "Juraska",
                      role = c("aut", "cre"),
                      email = "mjuraska@fredhutch.org"),
               person(given = c("with", "contributions", "from", "Peter", "B."),
                      family = "Gilbert",
                      role = "aut",
                      email = "pgilbert@scharp.org"),
               person(given = "Xiaomin",
                      family = "Lu",
                      role = "aut",
                      email = "xlu2@phhp.ufl.edu"),
               person(given = "Min",
                      family = "Zhang",
                      role = "aut",
                      email = "mzhangst@umich.edu"),
               person(given = "Marie",
                      family = "Davidian",
                      role = "aut",
                      email = "davidian@stat.ncsu.edu"),
               person(given = c("Anastasios", "A."),
                      family = "Tsiatis",
                      role = "aut",
                      email = "tsiatis@stat.ncsu.edu"))
as necessary.
Maintainer: ‘Selva Prabhakaran <selva86@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Selva",
                    family = "Prabhakaran",
                    role = c("aut", "cre"),
                    email = "selva86@gmail.com")
as necessary.
Found the following files/directories:
  ‘.neig’
Maintainer: ‘Maximilian Lange <maximilian-lange@t-online.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Maximilian",
                      family = "Lange",
                      role = c("aut", "cre"),
                      email = "maximilian-lange@t-online.de"),
               person(given = "Sven",
                      family = "Lautenbach",
                      role = "aut"),
               person(given = "Claudia",
                      family = "Raedig",
                      role = "aut"))
as necessary.
Maintainer: ‘Alexander Brenning <alexander.brenning@uni-jena.de>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Yang Liu <yliu87@umd.edu>’

The Description field contains
  <arXiv:2303.10079>. Both the conditional densities of observed
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) cylinder.counts.Rd:61-62: Lost braces
    61 | nucleotide, so that \code{a.c} represents the set {\code{aac}, \code{acc}, 
       |                                                   ^
Maintainer: ‘Yijun Xie <yijun.xie@uwaterloo.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Yijun",
                    family = "Xie",
                    role = c("aut", "cre"),
                    email = "yijun.xie@uwaterloo.ca")
as necessary.
Maintainer: ‘Jongmin Lee <jongminlee9218@gmail.com>’

The Description field contains
  H.-S. (2020) <arXiv:2003.02578>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Aaron Robotham <aaron.robotham@uwa.edu.au>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Aaron",
                    family = "Robotham",
                    role = c("aut", "cre"),
                    email = "aaron.robotham@uwa.edu.au")
as necessary.
Maintainer: ‘John P. Nolan <jpnolan@american.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("John", "P."),
                      family = "Nolan",
                      role = c("aut", "cre"),
                      email = "jpnolan@american.edu"),
               person(given = "American",
                      family = "University",
                      role = "aut"))
as necessary.
checkRd: (-1) adaptIntegrateSpherePolar.Rd:14: Lost braces
    14 | code{adaptIntegrateBallPolar()} will likely miss these abrupt changes and give
       |     ^
Maintainer: ‘Bob Rudis <bob@rud.is>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Bob",
                      family = "Rudis",
                      role = c("aut", "cre"),
                      email = "bob@rud.is",
                      comment = "bob@rud.is"),
               person(family = "SEOmoz"),
               person(family = "Inc",
                      role = "aut"))
as necessary.
Maintainer: ‘Iván Ayala-Bizarro <ivan.ayala@unh.edu.pe>’

The Description field contains
  http://drought.unl.edu/monitoringtools/downloadablespiprogram.aspx.
Please enclose URLs in angle brackets (<...>).
Found the following files/directories:
  ‘AlphaGA_3.txt’ ‘AlphaML_3.txt’ ‘BetaGA_3.txt’ ‘BetaML_3.txt’
  ‘Performance_GA_ML_ 3 .pdf’ ‘SPIGA_3Pmon.Pm_St1.pdf’
  ‘SPIGA_3Pmon.Pm_St2.pdf’ ‘SPI_AG_3.txt’ ‘SPI_ML_3.txt’
  ‘SPI_ML_3Pm_St1.pdf’ ‘SPI_ML_3Pm_St2.pdf’ ‘SPI_ML_3Pm_St3.pdf’
  ‘SPI_ML_3Pm_St4.pdf’ ‘SPI_PARAM_3.txt’ ‘SPI_PARAM_3Pm_St1.pdf’
  ‘SPI_PARAM_3Pm_St2.pdf’ ‘SPI_PARAM_3Pm_St3.pdf’
  ‘SPI_PARAM_3Pm_St4.pdf’
Maintainer: ‘Udaya B. Kogalur <ubk@kogalur.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hemant",
                      family = "Ishwaran",
                      role = "aut",
                      email = "hemant.ishwaran@gmail.com"),
               person(given = c("Udaya", "B."),
                      family = "Kogalur",
                      role = "cre",
                      email = "ubk@kogalur.com"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Arturas Rozenas <ar199@nyu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Arturas",
                    family = "Rozenas",
                    role = c("aut", "cre"),
                    email = "ar199@nyu.edu")
as necessary.
Maintainer: ‘Jilber Urbina <JilberUrbina@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jilber",
                    family = "Urbina",
                    role = c("aut", "cre"),
                    email = "jilberurbina@gmail.com")
as necessary.
Maintainer: ‘Johannes W. Dietrich <johannes.dietrich@ruhr-uni-bochum.de>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Maintainer: ‘Sam Levin <levisc8@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Gudrun",
                      family = "Carl",
                      role = c("cre", "aut")),
               person(given = "Ingolf",
                      family = "Kuehn",
                      role = "aut"),
               person(given = "Sam",
                      family = "Levin",
                      role = c("aut", "cre"),
                      email = "levisc8@gmail.com"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Julien Chiquet <julien.chiquet@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Charles",
                      family = "Bouveyron",
                      role = "aut"),
               person(given = "Julien",
                      family = "Chiquet",
                      role = c("aut", "cre"),
                      email = "julien.chiquet@gmail.com"),
               person(given = "Pierre",
                      family = "Latouche",
                      role = "aut"),
               person(given = "Pierre-Alexandre",
                      family = "Mattei",
                      role = "aut"))
as necessary.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘spinyReg.Rd’:
    \keyword{models,}
Maintainer: ‘Roberto Villegas-Diaz <r.villegas-diaz@outlook.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Melantha Wang <wang.melantha@gmail.com>’

The Description field contains
  Cost Experience Simulator" <arXiv:2109.04058>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Collin Erickson <collinberickson@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Collin",
                    family = "Erickson",
                    role = c("aut", "cre"),
                    email = "collinberickson@gmail.com")
as necessary.
Maintainer: ‘Sam Parsons <sam.parsons@radboudumc.nl>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

The BugReports field in DESCRIPTION has
  https://github.com/sdparsons/splithalf
which should likely be
  https://github.com/sdparsons/splithalf/issues
instead.
checkRd: (-1) speedtestdata.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) speedtestdata.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) speedtestdata.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) speedtestdata.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) speedtestdata.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) speedtestdata.Rd:23: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Anthony Christidis <anthony.christidis@stat.ubc.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Anthony",
                      family = "Christidis",
                      role = c("aut", "cre"),
                      email = "anthony.christidis@stat.ubc.ca"),
               person(given = "Stefan",
                      family = "Van Aelst",
                      role = "aut",
                      email = "stefan.vanaelst@kuleuven.be"),
               person(given = "Ruben",
                      family = "Zamar",
                      role = "aut",
                      email = "ruben@stat.ubc.ca"))
as necessary.

The Description field contains
  Christidis, Van Aelst and Zamar (2019) <arXiv:1812.05678>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Ananda Mahto <mrdwab@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ananda",
                    family = "Mahto",
                    role = c("aut", "cre"),
                    email = "mrdwab@gmail.com")
as necessary.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Feature Changes
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘addlearn_local.R’
Maintainer: ‘Vincent Guyader <vincent@thinkr.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Vincent",
                    family = "Guyader",
                    role = c("aut", "cre"),
                    email = "vincent@thinkr.fr")
as necessary.
Maintainer: ‘Giancarlo Vercellino <giancarlo.vercellino@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Giancarlo",
                    family = "Vercellino",
                    role = c("aut", "cre"),
                    email = "giancarlo.vercellino@gmail.com")
as necessary.
Maintainer: ‘Feiyu Yue <yuefyopals@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Zihao",
                      family = "Zheng",
                      role = "aut"),
               person(given = "Feiyu",
                      family = "Yue",
                      role = c("aut", "cre"),
                      email = "yuefyopals@gmail.com"))
as necessary.
Maintainer: ‘Lennard van Wanrooij <lennardvanwanrooij@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Lennard",
                    family = "van Wanrooij",
                    role = c("aut", "cre"),
                    email = "lennardvanwanrooij@gmail.com")
as necessary.
Maintainer: ‘Ming Wang <willnju@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Ming",
                      family = "Wang",
                      role = c("aut", "cre"),
                      email = "willnju@gmail.com"),
               person(given = "Yongtao",
                      family = "Guan",
                      role = "aut"),
               person(given = "Kun",
                      family = "Xu",
                      role = "aut"))
as necessary.
Maintainer: ‘Nobin Chandra Paul<nobin.niasm@outlook.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Nobin", "Chandra"),
                      family = "Paul",
                      role = c("aut", "cre"),
                      email = "nobin.niasm@outlook.com"),
               person(given = "Anil",
                      family = "Rai",
                      role = "aut"),
               person(given = "Ankur",
                      family = "Biswas",
                      role = "aut"),
               person(given = "Tauqueer",
                      family = "Ahmad",
                      role = "aut"),
               person(given = c("Prachi", "Misra"),
                      family = "Sahoo",
                      role = "aut"))
as necessary.
Maintainer: ‘DongHyuk Lee <leedhyuk@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "DongHyuk",
                      family = "Lee",
                      role = c("aut", "cre"),
                      email = "leedhyuk@gmail.com"),
               person(given = "Samiran",
                      family = "Sinha",
                      role = "aut"))
as necessary.
Maintainer: ‘Fei Zhou <fei.zhou@outlook.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Fei",
                      family = "Zhou",
                      role = c("aut", "cre"),
                      email = "fei.zhou@outlook.com"),
               person(given = "Yuwen",
                      family = "Liu",
                      role = "aut"),
               person(given = "Xi",
                      family = "Lu",
                      role = "aut"),
               person(given = "Jie",
                      family = "Ren",
                      role = "aut"),
               person(given = "Cen",
                      family = "Wu",
                      role = "aut"))
as necessary.
Maintainer: ‘Adrienne M. Wootten <amwootte@ou.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Adrienne", "M."),
                    family = "Wootten",
                    role = c("aut", "cre"),
                    email = "amwootte@ou.edu",
                    comment = "University of Oklahoma")
as necessary.
Maintainer: ‘Lauren Grant <pacele@vcu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Lauren",
                      family = "Grant",
                      role = c("aut", "cre"),
                      email = "pacele@vcu.edu"),
               person(given = "David",
                      family = "Wheeler",
                      role = "aut"))
as necessary.
Maintainer: ‘Pavel V. Moskalev <moskalefff@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Pavel", "V."),
                    family = "Moskalev",
                    role = c("aut", "cre"),
                    email = "moskalefff@gmail.com")
as necessary.
Maintainer: ‘Renato Panaro <renatovp@ime.usp.br>’

The Description field contains
  right-censored data. RV Panaro (2020) <arXiv:2003.10548>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Author field differs from that derived from Authors@R
  Author:    ‘Renato Panaro [aut, cre] (<https://orcid.org/0000-0002-1903-2091>, https://rvpanaro.github.io/), Fábio Demarqui [aut] (<https://orcid.org/0000-0001-9236-1986>), Vinícius Mayrink [aut] (<https://orcid.org/0000-0002-5683-8326>)’
  Authors@R: ‘Renato Panaro [aut, cre] (ORCID: <https://orcid.org/0000-0002-1903-2091>, URL: https://rvpanaro.github.io/), Fábio Demarqui [aut] (ORCID: <https://orcid.org/0000-0001-9236-1986>), Vinícius Mayrink [aut] (ORCID: <https://orcid.org/0000-0002-5683-8326>)’
Maintainer: ‘Matthew E. Aiello-Lammens <matt.lammens@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
'library' or 'require' calls not declared from:
  ‘MBA’ ‘akima’ ‘colorspace’ ‘fields’ ‘maps’
Maintainer: ‘G. Grothendieck <ggrothendieck@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "G.",
                    family = "Grothendieck",
                    role = c("aut", "cre"),
                    email = "ggrothendieck@gmail.com")
as necessary.
checkRd: (-1) sqldf.Rd:248: Lost braces
   248 | and code{port} arguments of sqldf.
       |         ^
Maintainer: ‘Wilson Freitas <wilson.freitas@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Wilson",
                    family = "Freitas",
                    role = c("aut", "cre"),
                    email = "wilson.freitas@gmail.com")
as necessary.
Maintainer: ‘Fernando Puente-Sánchez <fernando.puente.sanchez@slu.se>’

Found the following (possibly) invalid URLs:
  URL: http://eggnogdb.embl.de/#/app/results?seqid=P0A7G6&target_nogs=COG0468#COG0468_datamenu
    From: man/RecA.Rd
    Message: Invalid URL: '#' not allowed in fragment
Maintainer: ‘Martin Aryee <martin.aryee@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Zhijin",
                      family = "Wu",
                      role = "aut",
                      comment = "Jean"),
               person(given = "Martin",
                      family = "Aryee",
                      role = c("aut", "cre"),
                      email = "martin.aryee@gmail.com"))
as necessary.
Maintainer: ‘Mike Lee <random.deviate@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Mike",
                    family = "Lee",
                    role = c("aut", "cre"),
                    email = "random.deviate@gmail.com")
as necessary.
Maintainer: ‘Ravi Varadhan <ravi.varadhan@jhu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ravi",
                    family = "Varadhan",
                    role = c("aut", "cre"),
                    email = "ravi.varadhan@jhu.edu")
as necessary.
checkRd: (-1) fpiter.Rd:55-58: Lost braces
    55 |     \code{tol}{ - a small, positive scalar that determines when iterations 
       |               ^
checkRd: (-1) fpiter.Rd:60-61: Lost braces
    60 |     \code{maxiter}{ - an integer denoting the maximum limit on the number of 
       |                   ^
checkRd: (-1) fpiter.Rd:63-65: Lost braces
    63 |     \code{trace}{ - a logical variable denoting whether some of the intermediate 
       |                 ^
checkRd: (-1) fpiter.Rd:67-70: Lost braces
    67 |     \code{intermed}}{ - a logical variable denoting whether the intermediate 
       |                     ^
checkRd: (-1) squarem.Rd:134: Lost braces
   134 |       along with the corresponding log-likelihood value.  When the code{objfn} is not specified it will return the fixed-point residual instead of the objective function values. 
       |                                                                        ^
'library' or 'require' call not declared from: ‘interval’
Maintainer: ‘Aron C. Eklund <aroneklund@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Aron", "C."),
                    family = "Eklund",
                    role = c("aut", "cre"),
                    email = "aroneklund@gmail.com")
as necessary.
checkRd: (-1) squidR.Rd:83: Lost braces; missing escapes or markup?
    83 |   \item \code{X1_sto_shared} (default \code{TRUE}): {logical}; if \code{TRUE}, the stochastic environmental effect included in the environmental effect x1 will be shared between individuals. If \code{FALSE}, each individual will experience a different stochastic environmental effect x1 (i.e. a new stochastic environmental effect is generated for each individual).
       |                                                     ^
Maintainer: ‘Arnaud Le Rouzic <arnaud.le-rouzic@universite-paris-saclay.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Arnaud",
                    family = "Le Rouzic",
                    role = c("aut", "cre"),
                    email = "arnaud.le-rouzic@universite-paris-saclay.fr")
as necessary.
Maintainer: ‘Pablo J. Villacorta <pjvi@decsai.ugr.es>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Pablo", "J."),
                    family = "Villacorta",
                    role = c("aut", "cre"),
                    email = "pjvi@decsai.ugr.es")
as necessary.
checkRd: (-1) plot.SRCS.Rd:48-50: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:52-53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:56-58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:59-60: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:61-62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:63-64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:65-66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:74-75: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:76: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:77-79: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:80-81: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:82: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:87-88: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:89: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:143-144: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:145: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:146-148: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.SRCS.Rd:149: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Attila Csala <a@csala.me>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘sRDA.Rd’:
    https://doi.org/10.1093/bioinformatics/btx374
Maintainer: ‘Harriet Jane Goers <hgoers@umd.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Harriet", "Jane"),
                    family = "Goers",
                    role = c("aut", "cre"),
                    email = "hgoers@umd.edu")
as necessary.
Maintainer: ‘Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Steffen",
                      family = "Nestler",
                      role = "aut"),
               person(given = "Alexander",
                      family = "Robitzsch",
                      role = c("aut", "cre"),
                      email = "robitzsch@ipn.uni-kiel.de"),
               person(given = "Oliver",
                      family = "Luedtke",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Lukas Beule <lukas.beule@julius-kuehn.de>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Kelli F. Johnson <kelli.johnson@noaa.gov>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) ssaBSS-package.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ssaBSS-package.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ssaBSS-package.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ssaBSS-package.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ssaBSS-package.Rd:26: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Michael P. Fay <mfay@niaid.nih.gov>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Michael", "P."),
                    family = "Fay",
                    role = c("aut", "cre"),
                    email = "mfay@niaid.nih.gov")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Xingpeng Li <xingpeng.li@pfizer.com>’

Strong dependencies not in the CRAN or BioC software repositories:
  org.Hs.eg.db
Maintainer: ‘Yang Liu <zjubioly@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yang",
                      family = "Liu",
                      role = c("aut", "cre"),
                      email = "zjubioly@gmail.com"),
               person(given = "Francesca",
                      family = "Chiaromonte",
                      role = "aut"),
               person(given = "Bing",
                      family = "Li",
                      role = "aut"))
as necessary.
Maintainer: ‘Christiana Kartsonaki <christiana.kartsonaki@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Christiana",
                    family = "Kartsonaki",
                    role = c("aut", "cre"),
                    email = "christiana.kartsonaki@gmail.com")
as necessary.
Maintainer: ‘Sebastien Thonnard <sebastien.thonnard@icloud.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Sebastien",
                    family = "Thonnard",
                    role = c("aut", "cre"),
                    email = "sebastien.thonnard@icloud.com")
as necessary.
Maintainer: ‘Megan Orr <megan.orr@ndsu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Megan",
                      family = "Orr",
                      role = c("aut", "cre"),
                      email = "megan.orr@ndsu.edu"),
               person(given = "Peng",
                      family = "Liu",
                      role = "aut"))
as necessary.
Maintainer: ‘Luis Benites Sanchez <lbenitesanchez@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Luis", "Benites"),
                      family = "Sanchez",
                      role = c("aut", "cre"),
                      email = "lbenitesanchez@gmail.com"),
               person(given = c("Clecio", "da", "Silva"),
                      family = "Ferreira",
                      role = "aut"))
as necessary.
Maintainer: ‘Peter Curtis <peterrobertcurtis@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) new.distance.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) new.distance.Rd:31-32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) new.distance.Rd:33-34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) new.distance.Rd:35-36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) new.distance.Rd:37-38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) new.distance.Rd:39-40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sensitivity.plot.Rd:30-33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sensitivity.plot.Rd:34-35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sensitivity.plot.Rd:36-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sensitivity.plot.Rd:38-40: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Mikhail Zhelonkin <Mikhail.Zhelonkin@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Mikhail",
                      family = "Zhelonkin",
                      role = c("aut", "cre"),
                      email = "mikhail.zhelonkin@gmail.com"),
               person(given = c("Marc", "G."),
                      family = "Genton",
                      role = "aut"),
               person(given = "Elvezio",
                      family = "Ronchetti",
                      role = "aut"))
as necessary.
Maintainer: ‘Luis Benites <lbenitesanchez@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Rocio",
                      family = "Maehara",
                      role = "aut"),
               person(given = "Luis",
                      family = "Benites",
                      role = c("aut", "cre"),
                      email = "lbenitesanchez@gmail.com"))
as necessary.
Maintainer: ‘Edgar Santos-Fernandez <santosfe@qut.edu.au>’

The Description field contains
  <arXiv:2103.03538>. In these models, spatial dependence is captured
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Miki Horiguchi <horiguchimiki@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Miki",
                      family = "Horiguchi",
                      role = c("aut", "cre"),
                      email = "horiguchimiki@gmail.com"),
               person(given = "Hajime",
                      family = "Uno",
                      role = "aut"))
as necessary.
Maintainer: ‘Dave Zes <zesdave@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Dave",
                    family = "Zes",
                    role = c("aut", "cre"),
                    email = "zesdave@gmail.com")
as necessary.
Maintainer: ‘Kevin Matlock <kevin.matlock@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Kevin",
                      family = "Matlock",
                      role = c("aut", "cre"),
                      email = "kevin.matlock@gmail.com"),
               person(given = "Raziur",
                      family = "Rahman",
                      role = "aut"))
as necessary.
Maintainer: ‘Luis Hernando Vanegas <hvanegasp@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Luis", "Hernando"),
                      family = "Vanegas",
                      role = c("aut", "cre"),
                      email = "hvanegasp@gmail.com"),
               person(given = c("Gilberto", "A."),
                      family = "Paula",
                      role = "aut"))
as necessary.
Maintainer: ‘Niklas Pfister <np@math.ku.dk>’

The Description field contains
  <arXiv:1911.01850>. The procedure uses averaging to estimate a
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) SRanalysis.Rd:100: Lost braces
   100 |   P. B{\"u}hlmann (2019). Stabilizing Variable Selection and
       |       ^
checkRd: (-1) StabilizedRegression.Rd:109: Lost braces
   109 |   P. B{\"u}hlmann (2019). Stabilizing Variable Selection and
       |       ^
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Benjamin Hofner <benjamin.hofner@pei.de>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) stabsel_parameters.Rd:42: Lost braces
    42 |     always use code{"none"}.}
       |                    ^
checkRd: (-1) stabsel_stabsel.Rd:25: Lost braces
    25 |     always use code{"none"}.}
       |                    ^
Maintainer: ‘Mike Kleinsasser <mkleinsa@umich.edu>’

The Description field contains
  stacking” <arXiv:2101.07954>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) stackExample.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) stackExample.Rd:11: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Gherardo Varando <gherardo.varando@gmail.com>’

The Description field contains
  Smith J. Q. (2018) <arXiv:1705.09457>.  Thwaites P. A., Smith, J. Q.
  (2017) <arXiv:1510.00186>.  Barclay L. M., Hutton J. L. and Smith J. Q.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘David Nutter <david.nutter@bioss.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Helen",
                      family = "Kettle",
                      role = "aut"),
               person(given = "David",
                      family = "Nutter",
                      role = "cre",
                      email = "david.nutter@bioss.ac.uk"))
as necessary.
Maintainer: ‘LW Pembleton <lwpembleton@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "LW",
                    family = "Pembleton",
                    role = c("aut", "cre"),
                    email = "lwpembleton@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) stamppFst.Rd:20: Lost braces
    20 | \code{Fsts}{a matrix of pairwise Fst values between populations}
       |            ^
checkRd: (-1) stamppFst.Rd:21: Lost braces
    21 | \code{Pvalues}{a matrix of p-values for each of the pairwise Fst values containined in the 'Fsts' matrix}
       |               ^
checkRd: (-1) stamppFst.Rd:22: Lost braces
    22 | \code{Bootstraps}{a dataframe of each Fst value generated during Bootstrapping and the associated confidence intervals}
       |                  ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘stamp.direction.r’
Maintainer: ‘Christopher D. Eager <eager.stats@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) standardize.Rd:94: Lost braces; missing escapes or markup?
    94 | take on values {-0.5, 0, 0.5} rather than {-1, 0, 1}, the standard deviation
       |                ^
checkRd: (-1) standardize.Rd:94: Lost braces; missing escapes or markup?
    94 | take on values {-0.5, 0, 0.5} rather than {-1, 0, 1}, the standard deviation
       |                                           ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘utils.R’
Maintainer: ‘E. P. Adams <eric.adams@orau.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("E.", "L."),
                      family = "Frome",
                      role = "aut",
                      email = "fromeEL@ornl.gov"),
               person(given = c("D.", "P."),
                      family = "Frome",
                      role = "aut"),
               person(given = c("E.", "P."),
                      family = "Adams",
                      role = "cre",
                      email = "eric.adams@orau.org"))
as necessary.
checkRd: (-1) get_fields.Rd:27: Lost braces
    27 | codes, the function will return a warning by default, suggesting setting \code{convert_field_names} to code{TRUE}.
       |                                                                                                            ^
checkRd: (-1) identify_form_fields.Rd:34: Lost braces
    34 | codes, the function will return a warning by default, suggesting setting \code{convert_field_names} to code{TRUE}.
       |                                                                                                            ^
Maintainer: ‘Marek Hlavac <marek.hlavac@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Marek",
                    family = "Hlavac",
                    role = c("aut", "cre"),
                    email = "marek.hlavac@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) stargazer.Rd:229: Lost braces
   229 |   \item{report}{a character string containing only elements of {\code{"v"}, \code{"c"}, \code{"s"},\code{"t"}, \code{"p"}, \code{"*"}} that determines whether, and in which order, variable names (\code{"v"}), coefficients (\code{"c"}), standard errors/confidence intervals (\code{"s"}), test statistics (\code{"t"}) and p-values (\code{"p"}) should be reported in regression tables. If one of the aforementioned letters is followed by an asterisk (\code{"*"}), significance stars will be reported next to the corresponding statistic.}
       |                                                                ^
checkRd: (-1) stargazer.Rd:246: Lost braces
   246 |   \item{table.placement}{a character string containing only elements of {\code{"h"}, \code{"t"},\code{"b"}, \code{"p"}, \code{"!"}, \code{"H"}} that determines the table placement in its LaTeX floating environment.}
       |                                                                         ^
Maintainer: ‘Felix Cheysson <felix@cheysson.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Felix",
                    family = "Cheysson",
                    role = c("aut", "cre"),
                    email = "felix@cheysson.fr")
as necessary.
Maintainer: ‘Yannis Barboni <yannis.barboni1@gmail.com>’

The Description field contains
  to local spread of plant diseases." 2019. <arXiv:1811.06782>, using a
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘stat_frequency.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘character_dimensions.Rd’ ‘constellation_as_multistar.Rd’
    ‘constellation_as_tibble_list.Rd’ ‘define_dimension.Rd’
    ‘define_fact.Rd’ ‘dm_mrs_age.Rd’ ‘dm_mrs_cause.Rd’
    ‘filter_dimension.Rd’ ‘filter_fact_rows.Rd’
    ‘get_conformed_dimension.Rd’ ‘get_conformed_dimension_names.Rd’
    ‘get_dimension.Rd’ ‘get_dimension_attribute_names.Rd’
    ‘get_dimension_names.Rd’ ‘get_measure_names.Rd’ ‘get_star_schema.Rd’
    ‘get_star_schema_names.Rd’ ‘incremental_refresh_constellation.Rd’
    ‘incremental_refresh_star_schema.Rd’ ‘match_records.Rd’
    ‘modify_conformed_dimension_records.Rd’ ‘modify_dimension_records.Rd’
    ‘ms_mrs.Rd’ ‘ms_mrs_test.Rd’ ‘multistar_as_flat_table.Rd’
    ‘purge_dimensions_constellation.Rd’ ‘purge_dimensions_star_schema.Rd’
    ‘rename_dimension.Rd’ ‘rename_dimension_attributes.Rd’
    ‘rename_fact.Rd’ ‘rename_measures.Rd’ ‘role_playing_dimension.Rd’
    ‘run_query.Rd’ ‘select_dimension.Rd’ ‘select_fact.Rd’ ‘snake_case.Rd’
    ‘st_mrs_age.Rd’ ‘st_mrs_age_test.Rd’ ‘st_mrs_age_w10.Rd’
    ‘st_mrs_age_w11.Rd’ ‘st_mrs_age_w_test.Rd’ ‘st_mrs_cause.Rd’
    ‘st_mrs_cause_test.Rd’ ‘st_mrs_cause_w10.Rd’ ‘st_mrs_cause_w11.Rd’
    ‘st_mrs_cause_w_test.Rd’ ‘star_schema_as_flat_table.Rd’
    ‘star_schema_as_multistar.Rd’ ‘star_schema_as_tibble_list.Rd’
    ‘update_record.Rd’ ‘update_selection.Rd’
    ‘update_selection_general.Rd’ ‘updates_st_mrs_age.Rd’
    ‘updates_st_mrs_age_test.Rd’
Maintainer: ‘Haolun Shi <shl2003@connect.hku.hk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Haolun",
                      family = "Shi",
                      role = c("aut", "cre"),
                      email = "shl2003@connect.hku.hk"),
               person(given = "Guosheng",
                      family = "Yin",
                      role = "aut"))
as necessary.
Maintainer: ‘Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Alexander",
                      family = "Robitzsch",
                      role = c("aut", "cre"),
                      email = "robitzsch@ipn.uni-kiel.de",
                      comment = c(ORCID = "0000-0002-8226-3132")),
               person(given = "Oliver",
                      family = "Luedtke",
                      role = "aut",
                      comment = c(ORCID = "0000-0001-9744-3059")))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) multiCUMSUM.Rd:33: Escaped LaTeX specials: \&
Found the following significant warnings:
  Warning: SystemRequirements: invalid C++ specification ‘C++’
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/starvz.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’
Maintainer: ‘Robin Lock <rlock@stlawu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Ann",
                      family = "Cannon",
                      role = "aut"),
               person(given = "George",
                      family = "Cobb",
                      role = "aut"),
               person(given = "Bradley",
                      family = "Hartlaub",
                      role = "aut"),
               person(given = "Julie",
                      family = "Legler",
                      role = "aut"),
               person(given = "Robin",
                      family = "Lock",
                      role = c("aut", "cre"),
                      email = "rlock@stlawu.edu"),
               person(given = "Thomas",
                      family = "Moore",
                      role = "aut"),
               person(given = "Allan",
                      family = "Rossman",
                      role = "aut"),
               person(given = "Jeffrey",
                      family = "Witmer",
                      role = "aut"))
as necessary.

The BugReports field in DESCRIPTION has
  https://github.com/statmanrobin/Stat2Data
which should likely be
  https://github.com/statmanrobin/Stat2Data/issues
instead.
checkRd: (-1) AutoPollution.Rd:16: Lost braces
    16 |     \code{Side} \tab {Side of vehicle: code{1}=right or \code{2}=left}\cr
       |                                            ^
Maintainer: ‘Kartikeya Bolar <kartikeya.bolar@tapmi.edu.in>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Kartikeya",
                    family = "Bolar",
                    role = c("aut", "cre"),
                    email = "kartikeya.bolar@tapmi.edu.in")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘od_list.R’ ‘od_resource.R’ ‘od_utils.R’ ‘other_endpoints.R’
    ‘sc_data.R’ ‘schema.R’ ‘schema_uri.R’ ‘sdmx_table.R’ ‘table.R’
    ‘table_as_data_frame.R’ ‘table_json.R’ ‘table_meta.R’ ‘table_saved.R’
Maintainer: ‘Dylan Beijers <dylanbeijers@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Found the following possibly unsafe calls:
File ‘statnet.common/R/control.utilities.R’:
  unlockBinding("snctrl", environment(snctrl))
  unlockBinding("snctrl", environment(update_my_snctrl))
Maintainer: ‘Martina Morris <morrism@uw.edu>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Maintainer: ‘Carlos Trucios <ctrucios@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Carlos",
                    family = "Trucios",
                    role = c("aut", "cre"),
                    email = "ctrucios@gmail.com")
as necessary.
Maintainer: ‘Hossein Azari Soufiani <azari.hossein@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Hossein", "Azari"),
                      family = "Soufiani",
                      role = c("aut", "cre"),
                      email = "azari.hossein@gmail.com"),
               person(given = "William",
                      family = "Chen",
                      role = "aut"))
as necessary.
Maintainer: ‘Kartikeya Bolar <kartikeya.bolar@tapmi.edu.in>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Kartikeya",
                    family = "Bolar",
                    role = c("aut", "cre"),
                    email = "kartikeya.bolar@tapmi.edu.in")
as necessary.
checkRd: (-1) sample2indp.pow.Rd:48: Lost braces
    48 | Pooled standard deviation= \code{sp} = sqrt{((n1 - 1) sigma1^2 +(n2 - 1) sigma2^2) / (n1 + n2 - 2)}
       |                                            ^
Maintainer: ‘Brett Naul <brettnaul@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Brett",
                    family = "Naul",
                    role = c("aut", "cre"),
                    email = "brettnaul@gmail.com")
as necessary.
Maintainer: ‘Zhicheng Du<dgdzc@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Zhicheng",
                      family = "Du",
                      role = c("aut", "cre"),
                      email = "dgdzc@hotmail.com"),
               person(given = "Yuantao",
                      family = "Hao",
                      role = "aut"))
as necessary.
Maintainer: ‘Marco Giuliano <mgiuliano.mail@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Marco",
                    family = "Giuliano",
                    role = c("aut", "cre"),
                    email = "mgiuliano.mail@gmail.com")
as necessary.
Maintainer: ‘Benjamin Risk <bbr28@cornell.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Benjamin", "B."),
                      family = "Risk",
                      role = "aut"),
               person(given = c("Nicholas", "A."),
                      family = "James",
                      role = "aut"),
               person(given = c("David", "S."),
                      family = "Matteson",
                      role = "aut"),
               person(given = "Benjamin",
                      family = "Risk",
                      role = "cre",
                      email = "bbr28@cornell.edu"))
as necessary.
Maintainer: ‘David Leiva <dleivaur@ub.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("David", "Leiva", "&", "Han", "de", "Vries"),
                      family = "<J.deVries1@uu.nl>.",
                      role = "aut",
                      email = "J.deVries1@uu.nl"),
               person(given = "David",
                      family = "Leiva",
                      role = "cre",
                      email = "dleivaur@ub.edu"))
as necessary.
Maintainer: ‘Cedric E Ginestet <cedric.ginestet@kcl.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Cedric", "E"),
                    family = "Ginestet",
                    role = c("aut", "cre"),
                    email = "cedric.ginestet@kcl.ac.uk")
as necessary.
Maintainer: ‘Jean-Baptiste Camps <jbcamps@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Jean-Baptiste", "Camps", ";", "Florian"),
                      family = "Cafiero",
                      role = "aut"),
               person(given = "Jean-Baptiste",
                      family = "Camps",
                      role = "cre",
                      email = "jbcamps@hotmail.com"))
as necessary.

Found the following (possibly) invalid file URIs:
  URI: jbcamps@hotmail.com
    From: inst/doc/A0_Stemmatology_Poster.pdf
  URI: stemmatology-utils
    From: README.md
  URI: 10.1484/M.LECTIO-EB.5.102565
    From: README.md

Found the following URLs which should use \doi (with the DOI name only):
  File ‘PCC.Exploratory.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘PCC.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘PCC.Stemma.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘PCC.buildGroup.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘PCC.conflicts.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘PCC.disagreement.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘PCC.elimination.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘PCC.equipollent.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘PCC.overconflicting.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘PCC.reconstructModel.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘fournival.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘heinrichi.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘notreBesoin.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘parzival.Rd’:
    https://doi.org/10.1016/j.jtbi.2003.11.022
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
  File ‘stemmatology-package.Rd’:
    http://dx.doi.org/10.1484/M.LECTIO-EB.5.102565
Maintainer: ‘Sergio Garofalo <sergio.garofalo96@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Sergio",
                    family = "Garofalo",
                    role = c("aut", "cre"),
                    email = "sergio.garofalo96@gmail.com")
as necessary.
Maintainer: ‘Arya Ebadi <aeba3842@uni.sydney.edu.au>’

The Description field contains
  (2020) <arXiv:2011.11939>. Such setups include target-decoy competition
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Leandro A. Pereira <leandro.ap@ufu.br>’

The Description field contains
  hypothesis test. Pinto & Pereira (2021) <arXiv:2109.07978>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Eleni Vradi <vradi.eleni@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Eleni",
                    family = "Vradi",
                    role = c("aut", "cre"),
                    email = "vradi.eleni@gmail.com")
as necessary.
checkRd: (-1) tuneParam.Rd:28: Lost braces; missing escapes or markup?
    28 | It supports the BFGS optimization method ('QN') from the optim {stats} function, the Hooke-Jeeves derivative-free
       |                                                                ^
checkRd: (-1) tuneParamCL2.Rd:28: Lost braces; missing escapes or markup?
    28 | It supports the BFGS optimization method ('QN') from the optim {stats} function, the Hooke-Jeeves derivative-free
       |                                                                ^
Maintainer: ‘Mee Young Park <meeyoung@google.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Mee", "Young"),
                      family = "Park",
                      role = c("aut", "cre"),
                      email = "meeyoung@google.com"),
               person(given = "Trevor",
                      family = "Hastie",
                      role = "aut"))
as necessary.
Maintainer: ‘Wai-ki Yip <yuser86@yahoo.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Wai-ki",
                      family = "Yip",
                      role = c("aut", "cre"),
                      email = "yuser86@yahoo.com"),
               person(given = "Ann",
                      family = "Lazar",
                      role = "ctb"),
               person(given = "David",
                      family = "Zahrieh",
                      role = "ctb"),
               person(given = "Chip",
                      family = "Cole",
                      role = "ctb"),
               person(given = "Ann",
                      family = "Lazar",
                      role = "ctb"),
               person(given = "Marco",
                      family = "Bonetti",
                      role = "ctb"),
               person(given = "Victoria",
                      family = "Wang",
                      role = "ctb"),
               person(given = "William",
                      family = "Barcella",
                      role = "ctb"),
               person(given = "Sergio",
                      family = "Venturini",
                      role = "ctb"))
as necessary.
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘C++11’ was ignored
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/steps.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’
Maintainer: ‘Kendro Vincent <vincent.kendro@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yu-Chin",
                      family = "Hsu",
                      role = "aut"),
               person(given = "Kendro",
                      family = "Vincent",
                      role = c("aut", "cre"),
                      email = "vincent.kendro@gmail.com"))
as necessary.
Maintainer: ‘Aaron Olsen <aarolsen@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Aaron",
                      family = "Olsen",
                      role = c("aut", "cre"),
                      email = "aarolsen@gmail.com"),
               person(given = "Annat",
                      family = "Haber",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) landmarkMatrixToList.Rd:10: Lost braces
    10 |   \item{semilandmark.pattern}{a regular expression pattern passed to \code{sub()} for identifying and grouping curve points. The default is landmark names ending in one or more numbers. To disable grouping, set to code{''}.}
       |                                                                                                                                                                                                                           ^
checkRd: (-1) docker_config_collection.Rd:11: Lost braces; missing escapes or markup?
    11 | \Sexpr[results=rd,stage=render]{stevedore:::generate_help("config")}
       | ^
checkRd: (-1) docker_container.Rd:13: Lost braces
    13 | \Sexpr[results=rd,stage=render]{stevedore:::generate_help("docker_container")}
       | ^
checkRd: (-1) docker_image_collection.Rd:11: Lost braces
    11 | \Sexpr[results=rd,stage=render]{stevedore:::generate_help("image")}
       | ^
checkRd: (-1) docker_plugin_collection.Rd:11: Lost braces
    11 | \Sexpr[results=rd,stage=render]{stevedore:::generate_help("plugin")}
       | ^
checkRd: (-1) docker_service_collection.Rd:11: Lost braces
    11 | \Sexpr[results=rd,stage=render]{stevedore:::generate_help("service")}
       | ^
checkRd: (-1) docker_task.Rd:13: Lost braces
    13 | \Sexpr[results=rd,stage=render]{stevedore:::generate_help("docker_task")}
       | ^
Maintainer: ‘Tomas Johannesson <tj@vedur.is>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Tomas", "Johannesson", "&", "Halldor"),
                      family = "Bjornsson",
                      role = "aut"),
               person(given = c("Icelandic", "Met.", "Office;", "Gabor"),
                      family = "Grothendieck",
                      role = "aut"),
               person(given = "Tomas",
                      family = "Johannesson",
                      role = "cre",
                      email = "tj@vedur.is"))
as necessary.
Maintainer: ‘Dan Zangri <dzangri@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Dan",
                      family = "Zangri",
                      role = c("aut", "cre"),
                      email = "dzangri@gmail.com"),
               person(given = "Dustin",
                      family = "Tingley",
                      role = "ctb"),
               person(given = "Brandon",
                      family = "Stewart",
                      role = "ctb"))
as necessary.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘stmgui-package.Rd’:
    \keyword{ stm, shiny }
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘get_diag.Rd’ ‘get_effects.Rd’ ‘get_network.Rd’ ‘stm_diag.R’
    ‘stm_effects.R’ ‘stm_network.R’
Maintainer: ‘Andres Villegas <andresmauriciovillegas@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Andres",
                      family = "Villegas",
                      role = c("aut", "cre"),
                      email = "andresmauriciovillegas@gmail.com"),
               person(given = "Pietro",
                      family = "Millossovich",
                      role = "aut",
                      email = "Pietro.Millossovich.1@city.ac.uk"),
               person(given = "Vladimir",
                      family = "Kaishev",
                      role = "aut",
                      email = "Vladimir.Kaishev.1@city.ac.uk"))
as necessary.

Found the following (possibly) invalid file URI:
  URI: www.mortality.org
    From: man/EWMaleData.Rd
Maintainer: ‘Brandon Stewart <bms4@princeton.edu>’

Found the following (possibly) invalid file URIs:
  URI: structuraltopicmodel.com
    From: inst/doc/stmVignette.pdf
  URI: brandonstewart.org
    From: inst/doc/stmVignette.pdf
Maintainer: ‘Devin S. Johnson <devin.johnson@noaa.gov>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Devin", "S."),
                    family = "Johnson",
                    role = c("aut", "cre"),
                    email = "devin.johnson@noaa.gov")
as necessary.
Maintainer: ‘Grant Humphries <grwhumphries@blackbawks.net>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Author field differs from that derived from Authors@R
  Author:    ‘Grant Humphries [aut, cre] (<https://orcid.org/0000-0001-5783-9892>), Bruno Caneco [aut], Aonghais Cook [aut], Elizabeth Masden [aut], Marine Scotland [fnd, cph], HiDef [cph], DMPstats [cph], Kelly Street [rev] (@kstreet13)’
  Authors@R: ‘Grant Humphries [aut, cre] (ORCID: <https://orcid.org/0000-0001-5783-9892>), Bruno Caneco [aut], Aonghais Cook [aut], Elizabeth Masden [aut], Marine Scotland [fnd, cph], HiDef [cph], DMPstats [cph], Kelly Street [rev] (GITHUB: @kstreet13)’
Maintainer: ‘David Cortes <david.cortes.rivera@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "David",
                    family = "Cortes",
                    role = c("aut", "cre"),
                    email = "david.cortes.rivera@gmail.com")
as necessary.

The Description field contains
  2016 <arXiv:1401.7020>), adaQN (adaptive quasi-Newton) (Keskar, N.S.,
  Berahas, A.S., 2016, <arXiv:1511.01169>).  Provides functions for
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘Functions.R’
Maintainer: ‘Dane R. Van Domelen <vandomed@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Dane", "R."),
                    family = "Van Domelen",
                    role = c("aut", "cre"),
                    email = "vandomed@gmail.com")
as necessary.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘stocks.Rd’:
    https://doi.org/10.7287/peerj.preprints.3188v1
Maintainer: ‘Peter Reichert <peter.reichert@emeriti.eawag.ch>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Peter",
                    family = "Reichert",
                    role = c("aut", "cre"),
                    email = "peter.reichert@emeriti.eawag.ch")
as necessary.
Maintainer: ‘Allen Day <allenday@allenday.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Allen",
                    family = "Day",
                    role = c("aut", "cre"),
                    email = "allenday@allenday.com")
as necessary.
Malformed Title field: should not end in a period.
Maintainer: ‘Thomas Arsouze <thomas.arsouze@cirad.fr>’

The BugReports field in DESCRIPTION has
  https://github.com/umr-amap/StormR/issues/new/choose
which should likely be
  https://github.com/umr-amap/StormR/issues/new/choose/issues
instead.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘defStormsList.R’
Maintainer: ‘Deniz Akdemir <deniz.akdemir.work@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Deniz",
                    family = "Akdemir",
                    role = c("aut", "cre"),
                    email = "deniz.akdemir.work@gmail.com")
as necessary.
Maintainer: ‘Ilya Y. Zhbannikov <ilya.zhbannikov@duke.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "I.",
                      family = "Zhbannikov",
                      role = "aut"),
               person(given = "Liang",
                      family = "He",
                      role = "aut"),
               person(given = "K.",
                      family = "Arbeev",
                      role = "aut"),
               person(given = "I.",
                      family = "Akushevich",
                      role = "aut"),
               person(given = "A.",
                      family = "Yashin.",
                      role = "aut"),
               person(given = c("Ilya", "Y."),
                      family = "Zhbannikov",
                      role = "cre",
                      email = "ilya.zhbannikov@duke.edu"))
as necessary.
Obsolete C++11 standard request will be ignored
Maintainer: ‘Edith Gabriel <edith.gabriel@inrae.fr>’

The BugReports field in DESCRIPTION has
  https://github.com/stpp-GitHub-community
which should likely be
  https://github.com/stpp-GitHub-community/issues
instead.
Maintainer: ‘Monsuru Adepeju <monsuur2010@yahoo.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Monsuru",
                    family = "Adepeju",
                    role = c("cre", "aut"),
                    email = "monsuur2010@yahoo.com")
as necessary.

The BugReports field in DESCRIPTION has
  https://github.com/Manalytics/stppSim/issues/new/choose
which should likely be
  https://github.com/Manalytics/stppSim/issues/new/choose/issues
instead.
Maintainer: ‘Samuel Soubeyrand <samuel.soubeyrand@inra.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(family = "Soubeyrand",
                      role = "aut"),
               person(family = "S.",
                      role = "aut"),
               person(family = "Tollenaere",
                      role = "aut"),
               person(family = "C.",
                      role = "aut"),
               person(family = "Haon-Lasportes",
                      role = "aut"),
               person(family = "E.",
                      role = "aut"),
               person(family = "Laine",
                      role = "aut"),
               person(family = "A.-L.",
                      role = "aut"),
               person(given = "Samuel",
                      family = "Soubeyrand",
                      role = "cre",
                      email = "samuel.soubeyrand@inra.fr"))
as necessary.
checkRd: (-1) powderymildew.Rd:14-16: Lost braces
    14 | \code{$demographic.coord}{
       |                          ^
checkRd: (-1) powderymildew.Rd:18-20: Lost braces
    18 | \code{$genetic.coord}{
       |                      ^
checkRd: (-1) powderymildew.Rd:22-24: Lost braces
    22 | \code{$demographic.measures}{
       |                             ^
checkRd: (-1) powderymildew.Rd:26-28: Lost braces
    26 | \code{$genetic.frequencies}{
       |                            ^
Maintainer: ‘Rachael C. Aikens <rockyaikens@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Jose Brito <jambrito@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jose",
                      family = "Brito",
                      role = c("aut", "cre"),
                      email = "jambrito@gmail.com"),
               person(given = "Pedro",
                      family = "Silva",
                      role = "aut"),
               person(given = "Tomas",
                      family = "Veiga",
                      role = "aut"))
as necessary.
Maintainer: ‘Miles Ott <miles_ott@alumni.brown.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Miles",
                    family = "Ott",
                    role = c("aut", "cre"),
                    email = "miles_ott@alumni.brown.edu")
as necessary.
Maintainer: ‘Julian Busch <jb@quants.ch>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Julian",
                    family = "Busch",
                    role = c("aut", "cre"),
                    email = "jb@quants.ch")
as necessary.
Found the following files/directories:
  ‘myNewStrat.R’
Maintainer: ‘Michael Heath <m.heath@strath.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Michael",
                      family = "Heath",
                      role = c("aut", "cre"),
                      email = "m.heath@strath.ac.uk"),
               person(given = "Ian",
                      family = "Thurlbeck",
                      role = "ctb"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) StrathE2E2-package.Rd:70: Lost braces; missing escapes or markup?
    70 | {Basic model operations:} \cr
       | ^
checkRd: (-1) StrathE2E2-package.Rd:79: Lost braces; missing escapes or markup?
    79 | {Parameter estimation:} \cr
       | ^
checkRd: (-1) StrathE2E2-package.Rd:88: Lost braces; missing escapes or markup?
    88 | {Sensitivity and Monte Carlo analyses:} \cr
       | ^
checkRd: (-1) StrathE2E2-package.Rd:98: Lost braces; missing escapes or markup?
    98 | {Compare model runs:} \cr
       | ^
checkRd: (-1) StrathE2E2-package.Rd:105: Lost braces; missing escapes or markup?
   105 | {Fishery yield analysis:} \cr
       | ^
checkRd: (-1) StrathE2E2-package.Rd:111: Lost braces; missing escapes or markup?
   111 | {Visualize model inputs:} \cr
       | ^
checkRd: (-1) StrathE2E2-package.Rd:117: Lost braces; missing escapes or markup?
   117 | {Visualize model outputs:} \cr
       | ^
Maintainer: ‘Amr ElRafey <aelrafey@gmu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Farrokh",
                      family = "Alemi",
                      role = "aut",
                      email = "falemi@gmu.edu"),
               person(given = "Amr",
                      family = "ElRafey",
                      role = c("aut", "cre"),
                      email = "aelrafey@gmu.edu"))
as necessary.
Maintainer: ‘Thomas Jemielita <thomasjemielita@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Thomas",
                    family = "Jemielita",
                    role = c("aut", "cre"),
                    email = "thomasjemielita@gmail.com")
as necessary.

The Description field contains
  2019 <arXiv:1912.03337>. This package is in beta and will be
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘David Cortes <david.cortes.rivera@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "David",
                    family = "Cortes",
                    role = c("aut", "cre"),
                    email = "david.cortes.rivera@gmail.com")
as necessary.
Maintainer: ‘Sebastien Wouters <wouterseb@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Sebastien",
                      family = "Wouters",
                      role = c("aut", "cre"),
                      email = "wouterseb@gmail.com"),
               person(given = c("Adam", "D."),
                      family = "Smith",
                      role = "ctb"))
as necessary.
Maintainer: ‘Xiang Zhou <xiang_zhou@fas.harvard.edu>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Xiangdong Gu <ustcgxd@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Xiangdong",
                      family = "Gu",
                      role = c("aut", "cre"),
                      email = "ustcgxd@gmail.com"),
               person(given = "Raji",
                      family = "Balasubramanian",
                      role = "aut"))
as necessary.
Maintainer: ‘Priyanga Dilini Talagala <pritalagala@gmail.com>’

The Description field contains
  <arXiv:1908.04000> for detecting anomalies in high-dimensional data
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Korbinian Strimmer <strimmerlab@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Rainer",
                      family = "Opgen-Rhein",
                      role = "aut"),
               person(given = "Verena",
                      family = "Zuber",
                      role = "aut"),
               person(given = "Korbinian",
                      family = "Strimmer.",
                      role = "aut"),
               person(given = "Korbinian",
                      family = "Strimmer",
                      role = "cre",
                      email = "strimmerlab@gmail.com"))
as necessary.
Maintainer: ‘Nele Schuwirth <nele.schuwirth@eawag.ch>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Nele",
                      family = "Schuwirth",
                      role = c("aut", "cre"),
                      email = "nele.schuwirth@eawag.ch"),
               person(given = "Peter",
                      family = "Reichert",
                      role = "aut"),
               person(given = "Mikolaj",
                      family = "Rybinski",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘apportion_inverse.R’ ‘apportion_polygon.R’ ‘apportion_web.R’
    ‘prep_reach_dist.R’
Maintainer: ‘Stephen A Sefick Jr. <ssefick@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Stephen", "A"),
                    family = "Sefick Jr.",
                    role = c("aut", "cre"),
                    email = "ssefick@gmail.com")
as necessary.
Maintainer: ‘Michael Hahsler <mhahsler@lyle.smu.edu>’

The BugReports field in DESCRIPTION has
  https://github.com/mhahsler/streamMOA
which should likely be
  https://github.com/mhahsler/streamMOA/issues
instead.
Maintainer: ‘Pablo Barbera <pablo.barbera@nyu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Pablo",
                    family = "Barbera",
                    role = c("aut", "cre"),
                    email = "pablo.barbera@nyu.edu")
as necessary.
Maintainer: ‘Sebastian Henz <bastihz.dev@posteo.de>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘ecxsys.Rd’:
    https://doi.org/10.1038/s41598-019-51645-4
  File ‘multi_tox.Rd’:
    https://doi.org/10.1186/s12302-020-00394-7
  File ‘multiple_stress.Rd’:
    https://doi.org/10.1021/acs.est.9b04293
    https://doi.org/10.1186/s12302-020-00394-7
  File ‘stressaddition-package.Rd’:
    https://doi.org/10.1038/s41598-019-51645-4
    https://doi.org/10.1186/s12302-020-00394-7
Maintainer: ‘Matt Barry <mrb@softisms.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Matt",
                    family = "Barry",
                    role = c("aut", "cre"),
                    email = "mrb@softisms.com")
as necessary.
Malformed Title field: should not end in a period.
Maintainer: ‘Alessandro Barbiero <alessandro.barbiero@unimi.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Alessandro",
                      family = "Barbiero",
                      role = c("aut", "cre"),
                      email = "alessandro.barbiero@unimi.it"),
               person(given = "Riccardo",
                      family = "Inchingolo",
                      role = "aut",
                      email = "dott.inchingolo_r@libero.it"))
as necessary.
Maintainer: ‘Tom Drake <t.drake@ed.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tom",
                    family = "Drake",
                    role = c("aut", "cre"),
                    email = "t.drake@ed.ac.uk")
as necessary.
Found the following (possibly) invalid URL:
  URL: ../doc/stringdist_api.pdf
    From: man/stringdist-api.Rd
File ‘stringfish/libs/stringfish.so’:
  Found non-API call to R: ‘ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Maintainer: ‘Alexander Hoyle <alexander@alexanderhoyle.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Alexander",
                    family = "Hoyle",
                    role = c("aut", "cre"),
                    email = "alexander@alexanderhoyle.com")
as necessary.
Maintainer: ‘Bert Gunter <bgunter@comcast.net>’

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘strucplot.Rd’:
    \concept{
      structured plots,structured trellis plot [TRUNCATED]
efpFunctional: multiple local function definitions for ‘plotProcess’
  with different formal arguments
mefp.efp: multiple local function definitions for ‘computeEmpProc’ with
  different formal arguments
Maintainer: ‘Moritz Berger <Moritz.Berger@imbie.uni-bonn.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Moritz",
                    family = "Berger",
                    role = c("aut", "cre"),
                    email = "moritz.berger@imbie.uni-bonn.de")
as necessary.
Maintainer: ‘Yifu Liu <2012johnnyliu@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yifu",
                      family = "Liu",
                      role = c("aut", "cre"),
                      email = "2012johnnyliu@gmail.com"),
               person(given = "Anru",
                      family = "Zhang",
                      role = "aut"))
as necessary.
checkRd: (-1) cmss.Rd:21: Lost braces
    21 | \item{sim.fn}{Optional function to be used as similarity measure for accept/reject step. Default function is: |cor( bar{x}^{(r)}|,~ bar{x}_{target} ) |}
       |                                                                                                                        ^
checkRd: (-1) cmss.Rd:21: Lost braces; missing escapes or markup?
    21 | \item{sim.fn}{Optional function to be used as similarity measure for accept/reject step. Default function is: |cor( bar{x}^{(r)}|,~ bar{x}_{target} ) |}
       |                                                                                                                            ^
checkRd: (-1) cmss.Rd:21: Lost braces
    21 | \item{sim.fn}{Optional function to be used as similarity measure for accept/reject step. Default function is: |cor( bar{x}^{(r)}|,~ bar{x}_{target} ) |}
       |                                                                                                                                        ^
checkRd: (-1) cmss.Rd:21: Lost braces; missing escapes or markup?
    21 | \item{sim.fn}{Optional function to be used as similarity measure for accept/reject step. Default function is: |cor( bar{x}^{(r)}|,~ bar{x}_{target} ) |}
       |                                                                                                                                            ^
Maintainer: ‘I. Manjula Schou <im.schou@yahoo.com.au>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("I.", "Manjula"),
                    family = "Schou",
                    role = c("aut", "cre"),
                    email = "im.schou@yahoo.com.au")
as necessary.
Maintainer: ‘Jerome Collet <jeromepcollet@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jerome",
                    family = "Collet",
                    role = c("aut", "cre"),
                    email = "jeromepcollet@gmail.com")
as necessary.
Maintainer: ‘Andrew Chapple <achapp@lsuhsc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Andrew",
                    family = "Chapple",
                    role = c("aut", "cre"),
                    email = "achapp@lsuhsc.edu")
as necessary.
Maintainer: ‘Junwei Han <hanjunwei1981@163.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Xudong",
                      family = "Han",
                      role = "aut"),
               person(given = "Junwei",
                      family = "Han",
                      role = c("aut", "cre"),
                      email = "hanjunwei1981@163.com"),
               person(given = "Chonghui",
                      family = "Liu",
                      role = "aut"))
as necessary.
Maintainer: ‘Scott Barlowe <sabarlowe@email.wcu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Scott",
                    family = "Barlowe",
                    role = c("aut", "cre"),
                    email = "sabarlowe@email.wcu.edu")
as necessary.
Maintainer: ‘Bill Venables <Bill.Venables@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Bill",
                    family = "Venables",
                    role = c("aut", "cre"),
                    email = "Bill.Venables@gmail.com")
as necessary.
Maintainer: ‘David Brahm <brahm@alum.mit.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "David",
                      family = "Brahm",
                      role = c("aut", "cre"),
                      email = "brahm@alum.mit.edu"),
               person(given = "Greg",
                      family = "Snow",
                      role = "aut",
                      email = "Greg.Snow@intermountainmail.org"),
               person(given = c("with", "contributions", "from", "Curt"),
                      family = "Seeliger",
                      role = "aut",
                      email = "Seeliger.Curt@epamail.epa.gov"),
               person(given = "Henrik",
                      family = "Bengtsson.",
                      role = "aut",
                      email = "hb@maths.lth.se"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘geom_glyph_ribbon.R’ ‘geom_glyph_ribbon.Rd’ ‘geom_glyph_segment.Rd’
    ‘theme_glyph.Rd’
checkRd: (-1) suggests.Rd:14: Lost braces; missing escapes or markup?
    14 | {suggests} aims to make that workflow as minimal and painless as possible,
       | ^
Package required but not available: ‘seqminer’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Maintainer: ‘Anna Vesely <anna.vesely@phd.unipd.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Anna",
                    family = "Vesely",
                    role = c("aut", "cre"),
                    email = "anna.vesely@phd.unipd.it")
as necessary.

The Description field contains
  may be found in Vesely, Finos, and Goeman (2020) <arXiv:2102.11759>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) sunburst.Rd:30: Lost braces; missing escapes or markup?
    30 | nested d3 JSON hierarchy with `{name:...,  children:[];}`.  \code{csvdata}
       |                                ^
checkRd: (-1) sunburst.Rd:88: Lost braces; missing escapes or markup?
    88 | \item{jsondata}{\code{deprecated} use data argument instead; data in nested d3 JSON hierarchy with `{name:...,  children:[];}`}
       |                                                                                                     ^
checkRd: (-1) sund2b.Rd:22: Lost braces; missing escapes or markup?
    22 | nested d3 JSON hierarchy with `{name:...,  children:[];}`.  \code{list}, \code{character},
       |                                ^
Maintainer: ‘Roel Braekers <roel.braekers@uhasselt.be>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Leen",
                      family = "Prenen",
                      role = "aut"),
               person(given = "Roel",
                      family = "Braekers",
                      role = c("aut", "cre"),
                      email = "roel.braekers@uhasselt.be"),
               person(given = "Luc",
                      family = "Duchateau",
                      role = "aut"),
               person(given = "Ewoud",
                      family = "De Troyer",
                      role = "aut"))
as necessary.
Maintainer: ‘Martin Maechler <maechler@stat.math.ethz.ch>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Marcel",
                      family = "Dettling",
                      role = "aut",
                      email = "marcel.dettling@zhaw.ch"),
               person(given = "Martin",
                      family = "Maechler",
                      role = c("aut", "cre"),
                      email = "maechler@stat.math.ethz.ch"))
as necessary.
Maintainer: ‘Le Bao <lbaole17@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(family = "Le Bao",
                      role = c("aut", "cre"),
                      email = "lbaole17@gmail.com"),
               person(given = "Jeff",
                      family = "Gill",
                      role = "aut",
                      email = "jgill@mac.com"),
               person(given = "Tsung-han",
                      family = "Tsai",
                      role = "aut",
                      email = "thtsai@nccu.edu.tw"),
               person(given = "Jonathan",
                      family = "Rapkin",
                      role = "aut"))
as necessary.
Maintainer: ‘Minghui Wang <minghui.wang@mssm.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Minghui",
                      family = "Wang",
                      role = c("aut", "cre"),
                      email = "minghui.wang@mssm.edu"),
               person(given = "Yongzhong",
                      family = "Zhao",
                      role = "aut"),
               person(given = "Bin",
                      family = "Zhang",
                      role = "aut"))
as necessary.
checkRd: (-1) plot.Rd:42: Lost braces; missing escapes or markup?
    42 |  \item{color.off}{color code; specifying the color for set(s) which are "{absent}" for an intersection.}
       |                                                                          ^
Maintainer: ‘Jean-Eudes Dazard <jean-eudes.dazard@case.edu>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Hideo Aizaki <azk-r@spa.nifty.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Hideo",
                    family = "Aizaki",
                    role = c("aut", "cre"),
                    email = "azk-r@spa.nifty.com")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Hideo Aizaki <azk-r@spa.nifty.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Hideo",
                    family = "Aizaki",
                    role = c("aut", "cre"),
                    email = "azk-r@spa.nifty.com")
as necessary.
Maintainer: ‘Hideo Aizaki <azk-r@spa.nifty.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Hideo",
                    family = "Aizaki",
                    role = c("aut", "cre"),
                    email = "azk-r@spa.nifty.com")
as necessary.
Maintainer: ‘Hideo Aizaki <azk-r@spa.nifty.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Hideo",
                    family = "Aizaki",
                    role = c("aut", "cre"),
                    email = "azk-r@spa.nifty.com")
as necessary.
checkRd: (-1) getFittedProbs.Rd:6-8: Lost braces
     6 | getFittedValues <- function(object) {
       |                                     ^
checkRd: (-1) getFittedProbs.Rd:14-16: Lost braces
    14 | getFittedValues <- function(object) {
       |                                     ^
Maintainer: ‘Layla Parast <parast@austin.utexas.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Layla",
                    family = "Parast",
                    role = c("aut", "cre"),
                    email = "parast@austin.utexas.edu")
as necessary.
Maintainer: ‘Dan Chaltiel <dan.chaltiel@gustaveroussy.fr>’

Found the following (possibly) invalid URLs:
  URL: 
    From: inst/doc/surrosurv.pdf
    Message: Empty URL
Maintainer: ‘Yunro Chung <yunro.chung@asu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Yunro",
                    family = "Chung",
                    role = c("cre", "aut"),
                    email = "yunro.chung@asu.edu")
as necessary.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘surrosurvROC-package.Rd’:
    \keyword{biomarkers, inverse probability weighing, [TRUNCATED]
  File ‘surrosurvROC.Rd’:
    \keyword{biomarkers, inverse probability weighing, [TRUNCATED]
Maintainer: ‘Miki Horiguchi <horiguchimiki@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Lu",
                      family = "Tian",
                      role = "aut"),
               person(given = "Hajime",
                      family = "Uno",
                      role = "aut"),
               person(given = "Miki",
                      family = "Horiguchi",
                      role = c("aut", "cre"),
                      email = "horiguchimiki@gmail.com"))
as necessary.
Maintainer: ‘Miki Horiguchi <horiguchimiki@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Miki",
                      family = "Horiguchi",
                      role = c("aut", "cre"),
                      email = "horiguchimiki@gmail.com"),
               person(given = "Hajime",
                      family = "Uno",
                      role = "aut"))
as necessary.
Maintainer: ‘Joao Pinto <joao.pinto@tecnico.ulisboa.pt>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Joao",
                      family = "Pinto",
                      role = c("aut", "cre"),
                      email = "joao.pinto@tecnico.ulisboa.pt"),
               person(given = "Andre",
                      family = "Verissimo",
                      role = "aut",
                      email = "andre.verissimo@tecnico.ulisboa.pt"),
               person(given = "Alexandra",
                      family = "Carvalho",
                      role = "aut",
                      email = "alexandra.carvalho@tecnico.ulisboa.pt"),
               person(given = "Susana",
                      family = "Vinga",
                      role = "aut",
                      email = "susanavinga@tecnico.ulisboa.pt"))
as necessary.
Maintainer: ‘Hajime Uno <huno@jimmy.harvard.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Hajime",
                    family = "Uno",
                    role = c("aut", "cre"),
                    email = "huno@jimmy.harvard.edu")
as necessary.
Maintainer: ‘Guo-You Lan <jj6020770416jj@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Hsin-wen",
                    family = "Chang",
                    role = c("aut", "cre"),
                    email = "hwchang@stat.sinica.edu.tw")
as necessary.
Found the following (possibly) invalid URLs:
  URL: ../index.html
    From: inst/doc/examples.html
  URL: ../index.html
    From: inst/doc/methods.html
  URL: ../methods.html#bayesspec
    From: inst/doc/priors.html
Maintainer: ‘Hajime Uno <huno@jimmy.harvard.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hajime",
                      family = "Uno",
                      role = c("aut", "cre"),
                      email = "huno@jimmy.harvard.edu"),
               person(given = "Tianxi",
                      family = "Cai",
                      role = "aut"))
as necessary.
Maintainer: ‘Marta Sestelo <sestelo@uvigo.es>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Luis",
                      family = "Meira-Machado",
                      role = "aut"),
               person(given = "Marta",
                      family = "Sestelo",
                      role = c("aut", "cre"),
                      email = "sestelo@uvigo.es"),
               person(given = "Gustavo",
                      family = "Soutinho",
                      role = "aut"))
as necessary.
checkRd: (-1) tprob.Rd:138: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:139: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:140: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:141: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:142: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:143: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:144: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:145: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tprob.Rd:146: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coxph_mpl_dc.Rd:24: Lost braces; missing escapes or markup?
    24 | \item{mpl_h0t}{MPL estimates of the baseline hazard for T, i.e. h_{0T}(x_i)}
       |                                                                   ^
checkRd: (-1) coxph_mpl_dc.Rd:25: Lost braces; missing escapes or markup?
    25 | \item{mpl_h0c}{MPL estimates of the baseline hazard for C, i.e. h_{0C}(x_i)}
       |                                                                   ^
checkRd: (-1) coxph_mpl_dc.Rd:26: Lost braces; missing escapes or markup?
    26 | \item{mpl_H0t}{MPL estimates of the baseline cumulative hazard for T, i.e. H_{0T}(x_i)}
       |                                                                              ^
checkRd: (-1) coxph_mpl_dc.Rd:27: Lost braces; missing escapes or markup?
    27 | \item{mpl_H0c}{MPL estimates of the baseline cumulative hazard for C, i.e. H_{0c}(x_i)}
       |                                                                              ^
checkRd: (-1) coxph_mpl_dc.Rd:28: Lost braces; missing escapes or markup?
    28 | \item{mpl_S0t}{MPL estimates of the baseline survival for T, i.e. S_{0T}(x_i)}
       |                                                                     ^
checkRd: (-1) coxph_mpl_dc.Rd:29: Lost braces; missing escapes or markup?
    29 | \item{mpl_S0c}{MPL estimates of the baseline survival for C, i.e. S_{0C}(x_i)}
       |                                                                     ^
Maintainer: ‘Paramita Saha-Chaudhuri <paramita.sahachaudhuri.work@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Patrick", "J."),
                      family = "Heagerty",
                      role = "aut",
                      email = "heagerty@u.washington.edu"),
               person(given = c("packaging", "by", "Paramita"),
                      family = "Saha-Chaudhuri",
                      role = "aut",
                      email = "paramita.sahachaudhuri.work@gmail.com"),
               person(given = "Paramita",
                      family = "Saha-Chaudhuri",
                      role = "cre",
                      email = "paramita.sahachaudhuri.work@gmail.com"))
as necessary.
Maintainer: ‘Chris Dardis <christopherdardis@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Chris",
                    family = "Dardis",
                    role = c("aut", "cre"),
                    email = "christopherdardis@gmail.com")
as necessary.
checkRd: (-1) sf.Rd:66: Lost braces; missing escapes or markup?
    66 | A {data.table} which is stored as an attribute of
       |   ^
Maintainer: ‘Marta Bofill Roig <marta.bofillroig@meduniwien.ac.at>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Marta", "Bofill"),
                      family = "Roig",
                      role = c("aut", "cre"),
                      email = "marta.bofillroig@meduniwien.ac.at"),
               person(given = c("Guadalupe", "Gomez"),
                      family = "Melis",
                      role = "ctb"),
               person(given = "Yu",
                      family = "Shen",
                      role = "ctb"))
as necessary.

The Description field contains
  found in Bofill, Shen & Gómez (2021) <arXiv:2008.12887>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘censor_event.Rd’ ‘survival_class.R’
Maintainer: ‘Xuefei Jia <xuefeij.ai@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Xuefei",
                    family = "Jia",
                    role = c("aut", "cre"),
                    email = "xuefeij.ai@gmail.com")
as necessary.
Maintainer: ‘Miki Horiguchi <horiguchimiki@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Miki",
                      family = "Horiguchi",
                      role = c("aut", "cre"),
                      email = "horiguchimiki@gmail.com"),
               person(given = "Hajime",
                      family = "Uno",
                      role = "aut"))
as necessary.
Maintainer: ‘Hajime Uno <huno@jimmy.harvard.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hajime",
                      family = "Uno",
                      role = c("aut", "cre"),
                      email = "huno@jimmy.harvard.edu"),
               person(given = "Lu",
                      family = "Tian",
                      role = "aut"),
               person(given = "Miki",
                      family = "Horiguchi",
                      role = "aut"),
               person(given = "Angel",
                      family = "Cronin",
                      role = "aut"),
               person(given = "Chakib",
                      family = "Battioui",
                      role = "aut"),
               person(given = "James",
                      family = "Bell",
                      role = "aut"))
as necessary.
Maintainer: ‘Rong Huang <roh019@ucsd.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Rong",
                      family = "Huang",
                      role = c("aut", "cre"),
                      email = "roh019@ucsd.edu"),
               person(given = "Ronghui",
                      family = "Xu",
                      role = "aut",
                      comment = "Lily"))
as necessary.
Maintainer: ‘David Moriña Soler <dmorina@ub.edu>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Alexander Sibley <dcibioinformatics@duke.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Kouros",
                      family = "Owzar",
                      role = "aut"),
               person(given = "Zhiguo",
                      family = "Li",
                      role = "aut"),
               person(given = "Nancy",
                      family = "Cox",
                      role = "aut"),
               person(given = "Sin-Ho",
                      family = "Jung",
                      role = "aut"),
               person(given = "Chanhee",
                      family = "Yi",
                      role = "aut"),
               person(given = "Alexander",
                      family = "Sibley",
                      role = "cre",
                      email = "dcibioinformatics@duke.edu"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Zhuowei Sun <sunzw21@mails.jlu.edu.cn>’

The Description field contains
  <arXiv:2310.15877> and Sun, D. et al. (2023) <arXiv:2308.15549>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Lior Rennert <liorr@clemson.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Lior",
                      family = "Rennert",
                      role = c("aut", "cre"),
                      email = "liorr@clemson.edu"),
               person(given = "Yidan",
                      family = "Shi",
                      role = "aut",
                      email = "yidan.shi@pennmedicine.upenn.edu"))
as necessary.
checkRd: (-1) coxDT.Rd:76: Lost braces; missing escapes or markup?
    76 | The estimation procedure here is performed using coxph {survival} and inserting these estimated
       |                                                        ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘suso_gql_helpers.R’ ‘suso_gql_uploadMap.R’
Maintainer: ‘Aaron M Olsen <aarolsen@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Aaron", "M"),
                      family = "Olsen",
                      role = c("aut", "cre"),
                      email = "aarolsen@gmail.com"),
               person(given = c("Alejandro", "J"),
                      family = "Romero",
                      role = "aut"))
as necessary.
Maintainer: ‘Philippe Grosjean <phgrosjean@sciviews.org>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘createSyntaxFile.Rd’:
    \concept{ Syntax highlighting, code coloring }
  File ‘guiDDEInstall.Rd’:
    \concept{ Interprocess DDE communication, call tip [TRUNCATED]
  File ‘svIDE-package.Rd’:
    \concept{ GUI API IDE and code editor, language sy [TRUNCATED]
Maintainer: ‘Philippe Grosjean <phgrosjean@sciviews.org>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) koInstall.Rd:24: Lost braces; missing escapes or markup?
    24 | set, svKomodo loads {svSocket}, starts the socket server listening to the
       |                     ^
checkRd: (-1) svKomodo-package.Rd:18: Lost braces; missing escapes or markup?
    18 | Komodo and (2) the present {svKomodo} R package that work hand in hand to
       |                            ^
checkRd: (-1) svKomodo-package.Rd:28: Lost braces; missing escapes or markup?
    28 | Nevertheless, the SciViews-K Komodo addin and the {svKomodo} R package
       |                                                   ^
checkRd: (-1) svKomodo-package.Rd:31: Lost braces; missing escapes or markup?
    31 | communication protocols developed in the {svSocket} and {svHttp} R packages.
       |                                          ^
checkRd: (-1) svKomodo-package.Rd:31: Lost braces; missing escapes or markup?
    31 | communication protocols developed in the {svSocket} and {svHttp} R packages.
       |                                                         ^
checkRd: (-1) svKomodo-package.Rd:37: Lost braces; missing escapes or markup?
    37 | Both SciViews-K and {svKomodo} should be considered archived items. I keep
       |                     ^
Maintainer: ‘Trevor Hastie <hastie@stanford.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Trevor",
                    family = "Hastie",
                    role = c("aut", "cre"),
                    email = "hastie@stanford.edu")
as necessary.
Maintainer: ‘Damien Challet <damien.challet@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Damien",
                    family = "Challet",
                    role = c("aut", "cre"),
                    email = "damien.challet@gmail.com")
as necessary.
Maintainer: ‘Uditha Amarananda Wijesuriya <u.wijesuriya@usi.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Uditha", "Amarananda"),
                    family = "Wijesuriya",
                    role = c("aut", "cre"),
                    email = "u.wijesuriya@usi.edu")
as necessary.
Maintainer: ‘Philippe Grosjean <phgrosjean@sciviews.org>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Philippe Grosjean <phgrosjean@sciviews.org>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘bibRNews.Rd’:
    \concept{ BibTeX bibliography, R News }
Maintainer: ‘Philippe Grosjean <phgrosjean@sciviews.org>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Thomas Lumley <t.lumley@auckland.ac.nz>’

The Description field contains
  likelihood, as described in Lumley & Huang (2023) <arXiv:2311.13048>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Mithat Gonen <gonenm@mskcc.org>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) eff_n.Rd:32: Lost braces; missing escapes or markup?
    32 | \code{\link[survey:surveysummary]{survey::svymean()}} and related functions from the {survey}
       |                                                                                      ^
Maintainer: ‘Martin Lauss <martin.lauss@med.lu.se>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Martin",
                    family = "Lauss",
                    role = c("aut", "cre"),
                    email = "martin.lauss@med.lu.se")
as necessary.
Maintainer: ‘Xingye Qiao <qiao@math.binghamton.edu>’

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘swa.Rd’:
    \keyword{classification,}
    \keyword{selection,}
Maintainer: ‘Chung-hong Chan <chainsawtiney@gmail.com>’

The Description field contains
  (Mazini et al., 2019) <arXiv:1904.04047>, SemAxis (An et al., 2018)
  <arXiv:1806.05521>, Relative Negative Sentiment Bias (Sweeney &
  Test (Dev & Phillips, 2019) <arXiv:1901.07656>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Mans Magnusson <mons.magnusson@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Mans",
                      family = "Magnusson",
                      role = c("aut", "cre"),
                      email = "mons.magnusson@gmail.com"),
               person(given = "Erik",
                      family = "Bulow",
                      role = "aut"))
as necessary.
Maintainer: ‘Juan Xiong <jxiong@szu.edu.cn>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Juan",
                      family = "Xiong",
                      role = c("aut", "cre"),
                      email = "jxiong@szu.edu.cn"),
               person(given = c("Grace", "Y."),
                      family = "Yi",
                      role = "aut",
                      email = "yyi@uwaterloo.ca"))
as necessary.
Maintainer: ‘Jessica Weiss <jessica.weiss@uhnresearch.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jessica",
                      family = "Weiss",
                      role = c("aut", "cre"),
                      email = "jessica.weiss@uhnresearch.ca"),
               person(given = "Wei",
                      family = "Xu",
                      role = "aut",
                      email = "Wei.Xu@uhnresearch.ca"))
as necessary.
Maintainer: ‘Silvana M. Pesenti <swimpackage@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Additional functions and data sets
    Amendments to functions
Maintainer: ‘Gabriel Becker <gabembecker@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Gabriel",
                    family = "Becker",
                    role = c("aut", "cre"),
                    email = "gabembecker@gmail.com")
as necessary.
Maintainer: ‘Josef Fruehwald <jofrhwld@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Josef",
                    family = "Fruehwald",
                    role = c("aut", "cre"),
                    email = "jofrhwld@gmail.com")
as necessary.
checkRd: (-1) hyph.support.en.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hyph.support.en.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) kRp.hyphen-methods.Rd:84: Lost braces in \itemize; meant \describe ?
checkRd: (-1) kRp.hyphen-methods.Rd:85: Lost braces in \itemize; meant \describe ?
checkRd: (-1) kRp.hyphen-methods.Rd:86: Lost braces in \itemize; meant \describe ?
checkRd: (-1) kRp.hyphen-methods.Rd:87: Lost braces in \itemize; meant \describe ?
checkRd: (-1) manage.hyph.pat.Rd:53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) manage.hyph.pat.Rd:54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) manage.hyph.pat.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) manage.hyph.pat.Rd:56: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Vinicius Quintas Souto Maior <vinicius@de.ufpe.br>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Vinicius", "Quintas", "Souto"),
                      family = "Maior",
                      role = c("aut", "cre", "cph"),
                      email = "vinicius@de.ufpe.br"),
               person(given = c("Francisco", "Jose", "A"),
                      family = "Cysneiros",
                      role = "aut"))
as necessary.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘elliptical.ts.Rd’:
    https://doi.org/10.1007/s00362-016-0753-z
  File ‘influence.Rd’:
    https://doi.org/10.1080/03610929308831105
    https://doi.org/10.2307/3109764
    https://doi.org/10.1198/073500104000000217
  File ‘predict.Rd’:
    https://doi.org/10.1007/s00362-016-0753-z
  File ‘sym.arma-package.Rd’:
    https://doi.org/10.1007/s00362-016-0753-z
checkRd: (-1) elliptical.ts.Rd:18: Lost braces; missing escapes or markup?
    18 |   \item{epsilon}{positive convergence tolerance \emph{e}; the iterations converge when |fit - fit_{old}|/|fit| < \emph{e}. Default is \emph{e=1e-04}.}
       |                                                                                                   ^
Found the following (possibly) invalid URLs:
  URL: ../doc/HINoVSDA_details.pdf
    From: man/HINoV.SDA.rd
  URL: ../doc/dist_SDA.pdf
    From: man/dist_SDA.rd
  URL: ../doc/indexG1d_details.pdf
    From: man/index.G1d.rd
  URL: ../doc/Kernel_SDA.pdf.pdf
    From: man/kernel.SDA.rd
  URL: ../doc/kohonenSDA_details.pdf
    From: man/kohonen.SDA.rd
Maintainer: ‘Alexander Grueneberg <cran@agrueneberg.info>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Blagoje Ivanović <blagoje.ivanovic@matf.bg.ac.rs>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Blagoje",
                    family = "Ivanović",
                    role = c("aut", "cre"),
                    email = "blagoje.ivanovic@matf.bg.ac.rs")
as necessary.
Maintainer: ‘Michael Grabchak <mgrabcha@uncc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Michael",
                      family = "Grabchak",
                      role = c("aut", "cre"),
                      email = "mgrabcha@uncc.edu"),
               person(given = "Lijuan",
                      family = "Cao",
                      role = "aut",
                      email = "lcao2@uncc.edu"))
as necessary.
Maintainer: ‘Tarik C. Gouhier <tarik.gouhier@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Tarik", "C."),
                    family = "Gouhier",
                    role = c("aut", "cre"),
                    email = "tarik.gouhier@gmail.com")
as necessary.
checkRd: (-1) coord2dist.Rd:14: Lost braces; missing escapes or markup?
    14 | \code{n} x 4 matrix of coordinates consisting of {lat or y, lon or x} pairs for each each site
       |                                                  ^
Maintainer: ‘Donghoh Kim <donghoh.kim@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Matlab", "original", "by", "Eugene", "Brevdo;", "R", "port", "by", "Dongik"),
                      family = "Jang",
                      role = "aut"),
               person(given = "Hee-Seok",
                      family = "Oh",
                      role = "aut"),
               person(given = "Donghoh",
                      family = "Kim",
                      role = c("aut", "cre"),
                      email = "donghoh.kim@gmail.com"))
as necessary.
Maintainer: ‘Gertjan van den Burg <gertjanvandenburg@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Gertjan",
                    family = "van den Burg",
                    role = c("aut", "cre"),
                    email = "gertjanvandenburg@gmail.com")
as necessary.
Maintainer: ‘Michael Kleinsasser <mkleinsa@umich.edu>’

The Description field contains
  populations <arXiv:2106.06835>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) create_synthetic_example.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) create_synthetic_example.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) create_synthetic_example.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initial_estimates_example.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initial_estimates_example.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initial_estimates_example.Rd:12: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Alix Lahuec <alix.lahuec@mail.mcgill.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Alix",
                    family = "Lahuec",
                    role = c("aut", "cre"),
                    email = "alix.lahuec@mail.mcgill.ca")
as necessary.
Maintainer: ‘Merlin Kopfmann <mghncd+cran@posteo.jp>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Merlin",
                    family = "Kopfmann",
                    role = c("aut", "cre"),
                    email = "mghncd+cran@posteo.jp")
as necessary.
Maintainer: ‘Yixuan Qiu <yixuan.qiu@cos.name>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yixuan",
                      family = "Qiu",
                      role = c("aut", "cre"),
                      email = "yixuan.qiu@cos.name"),
               person(given = c("authors/contributors", "of", "the", "included", "fonts.", "See", "file", "AUTHORS", "for"),
                      family = "details.",
                      role = "aut"))
as necessary.
Maintainer: ‘Suraj Yerramilli <surajyerramilli@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Suraj",
                      family = "Yerramilli",
                      role = c("aut", "cre"),
                      email = "surajyerramilli@gmail.com"),
               person(given = "Arun",
                      family = "Tangirala",
                      role = "aut"))
as necessary.
Found the following files/directories:
  ‘test.csv’
Maintainer: ‘Arne Henningsen <arne.henningsen@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Arne",
                      family = "Henningsen",
                      role = c("aut", "cre"),
                      email = "arne.henningsen@gmail.com"),
               person(given = c("Jeff", "D."),
                      family = "Hamann",
                      role = "aut"))
as necessary.
Maintainer: ‘Stéphane Laurent <laurent_step@outlook.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Stéphane",
                    family = "Laurent",
                    role = c("aut", "cre"),
                    email = "laurent_step@outlook.fr")
as necessary.
Maintainer: ‘Thomas Hoffelder <thomas.hoffelder@boehringer-ingelheim.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Thomas",
                    family = "Hoffelder",
                    role = c("aut", "cre"),
                    email = "thomas.hoffelder@boehringer-ingelheim.com")
as necessary.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘T2EQ-package.Rd’:
    http://dx.doi.org/10.1080/10543406.2014.920344
    http://dx.doi.org/10.1177/009286159603000427
  File ‘T2EQ.Rd’:
    http://dx.doi.org/10.1080/10543406.2014.920344
  File ‘T2EQ.dissolution.profiles.hoffelder.Rd’:
    http://dx.doi.org/10.1177/009286159603000427
  File ‘ex_data_JoBS.Rd’:
    http://dx.doi.org/10.1080/10543406.2014.920344
Maintainer: ‘Philip C Schouten <philip.schouten@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Philip", "C"),
                    family = "Schouten",
                    role = c("aut", "cre"),
                    email = "philip.schouten@gmail.com")
as necessary.
Maintainer: ‘Alon Kipnis <kipnisal@stanford.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Alon",
                    family = "Kipnis",
                    role = c("aut", "cre"),
                    email = "kipnisal@stanford.edu")
as necessary.

The Description field contains
  frequency tables described in Kipnis (2019) <arXiv:1911.01208>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Dane R. Van Domelen <vandomed@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Dane", "R."),
                    family = "Van Domelen",
                    role = c("aut", "cre"),
                    email = "vandomed@gmail.com")
as necessary.
checkRd: (-1) tabmulti.Rd:68: Lost braces
    68 | \\code{yvarlabels = list(race = "Race/ethnicity", age_yrs = "Age (years)")}.}
       |       ^
checkRd: (-1) tabmulti.svy.Rd:67: Lost braces
    67 | \\code{yvarlabels = list(race = "Race/ethnicity", age_yrs = "Age (years)")}.}
       |       ^
Maintainer: ‘Austin Nar <austin.nar@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Austin",
                    family = "Nar",
                    role = c("aut", "cre"),
                    email = "austin.nar@gmail.com")
as necessary.
checkRd: (-1) parse_logs.Rd:38: Lost braces
    38 |  '{{ip ip_address}} [{{date access_date}}]...'.
       |   ^
checkRd: (-1) parse_logs.Rd:38: Lost braces
    38 |  '{{ip ip_address}} [{{date access_date}}]...'.
       |                      ^
Maintainer: ‘Katarina Domijan <domijank@tcd.ie>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Katarina",
                    family = "Domijan",
                    role = c("aut", "cre"),
                    email = "domijank@tcd.ie")
as necessary.
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Eric Brown <eb@ericebrown.com>’

The BugReports field in DESCRIPTION has
  https://github.com/ropensci/tacmagic
which should likely be
  https://github.com/ropensci/tacmagic/issues
instead.
Maintainer: ‘Anna Kiriliouk <anna.kiriliouk@unamur.be>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Anna",
                    family = "Kiriliouk",
                    role = c("aut", "cre"),
                    email = "anna.kiriliouk@unamur.be")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘add_lines.R’ ‘init.R’ ‘plots.R’ ‘report.R’ ‘tokenize.R’
Maintainer: ‘Nanne Aben <nanne.aben@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Nanne",
                    family = "Aben",
                    role = c("aut", "cre"),
                    email = "nanne.aben@gmail.com")
as necessary.
Maintainer: ‘Alexey Shipunov <dactylorhiza@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Alexey",
                    family = "Shipunov",
                    role = c("aut", "cre"),
                    email = "dactylorhiza@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘auth0.R’ ‘config.R’ ‘entra_id.R’ ‘google.R’ ‘utils.R’
checkRd: (-1) tapnet-package.Rd:40: Escaped LaTeX specials: \&
Maintainer: ‘Fabrizio Cipollini <cipollini.fabrizio@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Francesco",
                      family = "Calvori",
                      role = "aut"),
               person(given = "Fabrizio",
                      family = "Cipollini",
                      role = c("aut", "cre"),
                      email = "cipollini.fabrizio@gmail.com"),
               person(given = c("Giampiero", "M."),
                      family = "Gallo",
                      role = "aut"),
               person(given = "'gzstream'",
                      family = "authors.",
                      role = "aut"))
as necessary.
checkRd: (-1) TAQ-functions.Rd:119: Lost braces
   119 | Brownlees, C. T., and Gallo, G. M. (2006). Financial Econometric Analysis at Ultra{--}High Frequency: Data Handling Concerns, \emph{Computational Statistics and Data Analysis} \bold{51}, 2232--2245.
       |                                                                                   ^
checkRd: (-1) TAQ-package.Rd:59: Lost braces
    59 | Brownlees, C. T., and Gallo, G. M. (2006). Financial Econometric Analysis at Ultra{--}High Frequency: Data Handling Concerns, \emph{Computational Statistics and Data Analysis} \bold{51}, 2232--2245.
       |                                                                                   ^
Maintainer: ‘Zehang Li <lizehang@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Zehang",
                      family = "Li",
                      role = c("aut", "cre"),
                      email = "lizehang@uw.edu"),
               person(given = "Tyler",
                      family = "McCormick",
                      role = "aut"),
               person(given = "Sam",
                      family = "Clark",
                      role = "aut"))
as necessary.
Maintainer: ‘Hanwen Zhang <hanwengutierrez@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hanwen",
                      family = "Zhang",
                      role = c("aut", "cre"),
                      email = "hanwengutierrez@gmail.com"),
               person(given = c("Fabio", "H."),
                      family = "Nieto",
                      role = "aut"))
as necessary.
Maintainer: ‘Kartikeya Bolar <kartikeya.bolar@tapmi.edu.in>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Kartikeya",
                    family = "Bolar",
                    role = c("aut", "cre"),
                    email = "kartikeya.bolar@tapmi.edu.in")
as necessary.
Maintainer: ‘Yuan-De Tan <tanyuande@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Yuan-De",
                    family = "Tan",
                    role = c("aut", "cre"),
                    email = "tanyuande@gmail.com")
as necessary.
Maintainer: ‘Lukas Burk <lukas@quantenbrot.de>’

Found the following (possibly) invalid file URI:
  URI: CODE_OF_CONDUCT.md
    From: README.md
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘parse_schema.R’
Maintainer: ‘Carl Boettiger <cboettig@gmail.com>’

The BugReports field in DESCRIPTION has
  https://github.com/cboettig/taxalight
which should likely be
  https://github.com/cboettig/taxalight/issues
instead.
Maintainer: ‘Jacques Allard <jacques.allard@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jacques",
                      family = "Allard",
                      role = c("aut", "cre"),
                      email = "jacques.allard@gmail.com"),
               person(given = "Vartan",
                      family = "Choulakian",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘TaylorRussell.Rd’
Maintainer: ‘Zhixuan Shao <shaozhixuansh@pku.edu.cn>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘sace.Rd’:
    https://doi.org/10.1093/biomet/asx034
  File ‘simulated_data.Rd’:
    https://doi.org/10.1093/biomet/asx034
Maintainer: ‘Guoli Sun <guolisun87@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Guoli",
                      family = "Sun",
                      role = c("aut", "cre"),
                      email = "guolisun87@gmail.com"),
               person(given = "Alex",
                      family = "Krasnitz",
                      role = "aut"))
as necessary.
Maintainer: ‘Elior Rahmani <elior.rahmani@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) tca.Rd:35: Lost braces; missing escapes or markup?
    35 | \item{C1.map}{An \code{p1} by \code{k} matrix of 0/1 values, indicating for each of the \code{p1} covariates in \code{C1} whether to consider its potential effects on the values of each of the \code{k} sources (e.g., if position \code{i,j} in \code{C1.map} is 1 then the potential effect of the \code{i}-th covariate in \code{C1} on the {j}-th source will be considered). If \code{C1.map == NULL} then effects for all covariates in \code{C1} will be considered in each of the sources. Note that \code{C1.map} is available only if \code{constrain_mu == TRUE}.}
       |                                                                                                                                                                                                                                                                                                                                                  ^
Maintainer: ‘Huaiyu Zhang <huaiyuzhang1988@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Huaiyu",
                      family = "Zhang",
                      role = c("aut", "cre"),
                      email = "huaiyuzhang1988@gmail.com"),
               person(given = "Haiyan",
                      family = "Wang",
                      role = "aut"))
as necessary.
Maintainer: ‘Boris P Hejblum <boris.hejblum@u-bordeaux.fr>’

Found the following (possibly) invalid URLs:
  URL: https://docs.gsea-msigdb.org/#GSEA/Data_Formats/#gmt-gene-matrix-transposed-file-format-gmt/
    From: inst/doc/TcGSA_userguide.html
    Message: Invalid URL: '#' not allowed in fragment
Maintainer: ‘Raoul Wadhwa <raoulwadhwa@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/TDAstats.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’
Obsolete C++11 standard request will be ignored
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘mobius-strips.Rd’
Maintainer: ‘Guangchuang Yu <guangchuangyu@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Mikael Lucas <mikael.lucas@ird.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Julien",
                      family = "Lavenus",
                      role = "aut"),
               person(given = "Mikael",
                      family = "Lucas",
                      role = "cre",
                      email = "mikael.lucas@ird.fr"))
as necessary.
File ‘tdigest/libs/tdigest.so’:
  Found non-API call to R: ‘DATAPTR’
This entry point may be removed soon.

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Maintainer: ‘Maxime Durand <duran1211@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Maxime",
                    family = "Durand",
                    role = c("aut", "cre"),
                    email = "duran1211@gmail.com")
as necessary.
Maintainer: ‘Dirk Eddelbuettel <edd@debian.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Dirk",
                      family = "Eddelbuettel",
                      role = c("aut", "cre"),
                      email = "edd@debian.org"),
               person(given = "Kenneth",
                      family = "Rose",
                      role = "aut"))
as necessary.
Found the following HTML validation problems:
tdsa.html:231:1 (state_sens.Rd:7): Warning: <script> anchor "MathJax-script" already defined
Maintainer: ‘Jing Hua Zhao <jinghuazhao@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "David",
                      family = "Clayton",
                      role = "aut"),
               person(given = c("Jing", "Hua"),
                      family = "Zhao",
                      role = "cre",
                      email = "jinghuazhao@hotmail.com"))
as necessary.
Maintainer: ‘Greg Snow <538280@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Greg",
                    family = "Snow",
                    role = c("aut", "cre"),
                    email = "538280@gmail.com")
as necessary.
Maintainer: ‘Hugo Andres Gutierrez Rojas <hagutierrezro@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Hugo", "Andres", "Gutierrez"),
                    family = "Rojas",
                    role = c("aut", "cre"),
                    email = "hagutierrezro@gmail.com")
as necessary.
Maintainer: ‘Johannes Ossberger <johannes.ossberger@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Johannes",
                    family = "Ossberger",
                    role = c("aut", "cre"),
                    email = "johannes.ossberger@gmail.com")
as necessary.
Maintainer: ‘Jeffrey L. Andrews <jeff.andrews@ubc.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Jeffrey", "L."),
                      family = "Andrews",
                      role = c("aut", "cre"),
                      email = "jeff.andrews@ubc.ca"),
               person(given = c("Jaymeson", "R."),
                      family = "Wickins",
                      role = "aut"),
               person(given = c("Nicholas", "M."),
                      family = "Boers",
                      role = "aut"),
               person(given = c("Paul", "D."),
                      family = "McNicholas",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Marcos Fernández-Martínez <marcos.fernandez-martinez@uantwerpen.be>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Marcos",
                      family = "Fernández-Martínez",
                      role = c("aut", "cre"),
                      email = "marcos.fernandez-martinez@uantwerpen.be"),
               person(given = "Joan",
                      family = "Maspons",
                      role = "aut"))
as necessary.
Maintainer: ‘Etienne Low-Decarie <etienne.decarie@gmail.com>’

Found the following (possibly) invalid file URI:
  URI: to_be_added
    From: man/Emiliania_huxleyi.Rd
Maintainer: ‘Siddhartha Kundu <siddhartha_kundu@aiims.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Siddhartha",
                    family = "Kundu",
                    role = c("aut", "cre"),
                    email = "siddhartha_kundu@aiims.edu")
as necessary.
Maintainer: ‘Till Massing <till.massing@uni-due.de>’

The Description field contains
  (Massing (2023) <arXiv:2303.07060>).  The following references form the
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Pixu Shi <pixu.shi@duke.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Pixu",
                    family = "Shi",
                    role = c("aut", "cre"),
                    email = "pixu.shi@duke.edu")
as necessary.
checkRd: (-1) Tendril.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:61: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:62: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tendril.Rd:67: Lost braces in \itemize; \value handles \item{}{} directly
Maintainer: ‘K. Gerald van den Boogaart <boogaart@math.tu-freiberg.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("K.", "Gerald"),
                    family = "van den Boogaart",
                    role = c("aut", "cre"),
                    email = "boogaart@uni-greifswald.de")
as necessary.
Maintainer: ‘Suleiman A Khan <khan.suleiman@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Weilin Chen <w.chen56@lse.ac.uk>’

The Description field contains
  projected data.  See Chen and Lam (2023) <arXiv:2208.04012> for more
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Yuchen Zeng <yzeng58@wisc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Miaoyan",
                      family = "Wang",
                      role = "aut"),
               person(given = "Yuchen",
                      family = "Zeng",
                      role = c("aut", "cre"),
                      email = "yzeng58@wisc.edu"))
as necessary.
Maintainer: ‘M. Suzette Blanchard <sblanchard@coh.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("M.", "Suzette"),
                    family = "Blanchard",
                    role = c("aut", "cre"),
                    email = "sblanchard@coh.org")
as necessary.
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘CXX’ was ignored
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/terra.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-15 (Debian 15.2.0-12) 15.2.0’
* used C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’
checkRd: (-1) MC_CRUDE.Rd:19: Lost braces; missing escapes or markup?
    19 | \item{lsf}{objective function with limit state function in form of function(x) {x[1]+x[2]...}}
       |                                                                                ^
checkRd: (-1) MC_IS.Rd:23: Lost braces; missing escapes or markup?
    23 | \item{lsf}{objective function with limit state function in form of function(x) {x[1]+x[2]...}}
       |                                                                                ^
checkRd: (-1) PROB_BASEVAR-class.Rd:14: Lost braces
    14 | \item{\code{Id}}{Place in vector of objective functional expression function(x){x[id]}}
       |                                                                                ^
checkRd: (-1) PROB_DETVAR-class.Rd:14: Lost braces
    14 | \item{\code{Id}}{Place in vector of objective functional expression function(x){x[id]}}
       |                                                                                ^
checkRd: (-1) SORM.Rd:10: Lost braces; missing escapes or markup?
    10 | \item{lsf}{objective function with limit state function in form of function(x) {x[1]+x[2]...}}
       |                                                                                ^
checkRd: (-1) SYS_LSF-class.Rd:16: Lost braces
    16 | \item{\code{func}}{prepared for objective functions like SYS_LSF$func <- function(x){return(x[1] + x[2])}}
       |                                                                                     ^
Author field differs from that derived from Authors@R
  Author:    ‘Nicolas Frerebeau [aut, cre] (<https://orcid.org/0000-0001-5759-4944>), Brice Lebrun [art] (<https://orcid.org/0000-0001-7503-8685>, Logo designer), Université Bordeaux Montaigne [fnd] (03pbgwk21), CNRS [fnd] (02feahw73)’
  Authors@R: ‘Nicolas Frerebeau [aut, cre] (ORCID: <https://orcid.org/0000-0001-5759-4944>), Brice Lebrun [art] (ORCID: <https://orcid.org/0000-0001-7503-8685>, Logo designer), Université Bordeaux Montaigne [fnd] (ROR: <https://ror.org/03pbgwk21>), CNRS [fnd] (ROR: <https://ror.org/02feahw73>)’
Maintainer: ‘Michael C Sachs <sachsmc@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Michael", "C"),
                      family = "Sachs",
                      role = c("aut", "cre"),
                      email = "sachsmc@gmail.com"),
               person(given = c("Michael", "P"),
                      family = "Fay",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) lognormConstCVCI.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) lognormConstCVCI.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) lognormConstCVCI.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) normConstCVCI.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) normConstCVCI.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) normConstCVCI.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:39: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) testassay.Rd:40: Lost braces in \itemize; \value handles \item{}{} directly
Maintainer: ‘Gannaz Irene <irene.gannaz@insa-lyon.fr>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘TestCor-package.Rd’:
    https://doi.org/10.1111/j.2517-6161.1995.tb02031.x
    https://doi.org/10.1080/01621459.2014.999157
    https://doi.org/10.1214/088342307000000113
    https://doi.org/10.1198/016214504000000539
Maintainer: ‘Dexter Cahoy <dexter.cahoy@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Dexter",
                    family = "Cahoy",
                    role = c("aut", "cre"),
                    email = "dexter.cahoy@gmail.com")
as necessary.
Maintainer: ‘En-shuo Hsu <daviden1013@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Jeffrey", "C."),
                      family = "Miecznikowski",
                      role = "aut"),
               person(given = "En-shuo",
                      family = "Hsu",
                      role = c("aut", "cre"),
                      email = "daviden1013@gmail.com"),
               person(given = "Yanhua",
                      family = "Chen",
                      role = "aut"),
               person(given = "Albert",
                      family = "Vexler",
                      role = "aut"))
as necessary.
Maintainer: ‘Kathrin Moellenhoff <kathrin.moellenhoff@rub.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Kathrin",
                    family = "Moellenhoff",
                    role = c("aut", "cre"),
                    email = "kathrin.moellenhoff@rub.de")
as necessary.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘bootstrap_test.Rd’:
    https://doi.org/10.1080/01621459.2017.1281813
Maintainer: ‘Manel Salamero <manelsalamero@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Manel",
                    family = "Salamero",
                    role = c("aut", "cre"),
                    email = "manelsalamero@gmail.com")
as necessary.
Maintainer: ‘Paul R. Rosenbaum <rosenbaum@wharton.upenn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Paul", "R."),
                    family = "Rosenbaum",
                    role = c("aut", "cre"),
                    email = "rosenbaum@wharton.upenn.edu")
as necessary.
Maintainer: ‘vincent guyader <vincent@thinkr.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "vincent",
                    family = "guyader",
                    role = c("aut", "cre"),
                    email = "vincent@thinkr.fr")
as necessary.
Maintainer: ‘Giancarlo Vercellino <giancarlo.vercellino@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Giancarlo",
                    family = "Vercellino",
                    role = c("aut", "cre"),
                    email = "giancarlo.vercellino@gmail.com")
as necessary.
Maintainer: ‘Juan Domingo Gonzalez <juanrst@hotmail.com>’

The Description field contains
  objects of arbitrary geometries. arXiv preprint <arXiv:2312.16721>).
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) permucycle.Rd:37: Lost braces; missing escapes or markup?
    37 |  {The 2 in the first row means there are two cycles;}
       |  ^
checkRd: (-1) permucycle.Rd:38: Lost braces; missing escapes or markup?
    38 |   {The second row means there is a cycle of length 2, with members  (1,3);}
       |   ^
checkRd: (-1) permucycle.Rd:39: Lost braces; missing escapes or markup?
    39 |  {The third row means  there is a cycle of length 1, with member  (2);}
       |  ^
checkRd: (-1) permucycle.Rd:40: Lost braces; missing escapes or markup?
    40 |  {The fourth row is redundant for this specific case.}
       |  ^
checkRd: (-1) permucycle.Rd:41: Lost braces; missing escapes or markup?
    41 |  {One can read from the output of permucycle() to obtain cycle notation (13)(2) of the permutation, and other information.}
       |  ^
Maintainer: ‘Alejandro Gonzalez Recuenco <alejandrogonzalezrecuenco@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Alejandro", "Gonzalez"),
                    family = "Recuenco",
                    role = c("aut", "cre"),
                    email = "alejandrogonzalezrecuenco@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘tex_preview.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘dtm_builder.Rd’ ‘dtm_stopper.Rd’ ‘rancor_builder.Rd’
    ‘rancors_builder.Rd’ ‘utils-perm.R’
Maintainer: ‘Dominik S. Meier <dominikmeier@outlook.com>’

The Description field contains
  'text2sdg' package. See Wulff, Meier and Mata (2023) <arXiv:2301.11353>
  and Meier, Wulff and Mata (2021) <arXiv:2110.05856> for reference.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Tyler Rinker <tyler.rinker@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following (possibly) invalid file URI:
  URI: CONDUCT.md
    From: README.md
Maintainer: ‘Christian Fong <christianfong@stanford.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Christian",
                    family = "Fong",
                    role = c("aut", "cre"),
                    email = "christianfong@stanford.edu")
as necessary.
checkRd: (-1) infer_Z.Rd:16: Lost braces; missing escapes or markup?
    16 |   \item{nu}{Informally, the probability that the row document has the column treatment.  Formally, the parameter for the variatioanl approximation of z_{i,k}, which is a Bernoulli distribution.}
       |                                                                                                                                                         ^
checkRd: (-1) sibp.Rd:26: Lost braces
    26 | It is recommended to use link{sibp_param_search} instead of this function to search over multiple configurations of the most important parameters.  So long as only the training data is used, the analyst can freely experimient with as many parameter configurations as he likes without corrupting his causal inferences.  Once a parameter configuration is chosen, the user can then use \link{sibp_amce} on the test set to estimate the average marginal component effect (AMCE) for each treatment.}
       |                              ^
checkRd: (-1) sibp.Rd:28: Lost braces; missing escapes or markup?
    28 |   \item{nu}{Informally, the probability that the row document has the column treatment.  Formally, the parameter for the variational approximation of z_{i,k}, which is a Bernoulli distribution.}
       |                                                                                                                                                         ^
checkRd: (-1) sibp_amce.Rd:19: Lost braces
    19 |   \item{sibp.amce}{The table returned by code{sibp_amce}.}
       |                                              ^
Maintainer: ‘Matt Taddy <mataddy@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Matt",
                    family = "Taddy",
                    role = c("aut", "cre"),
                    email = "mataddy@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

The Description field contains
  Inverse Regression for Text Analysis <arXiv:1012.2098> and Taddy (2015,
  AoAS), Distributed Multinomial Regression, <arXiv:1311.6139>. A
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘congress109.Rd’:
    http://dx.doi.org/10.3886/ICPSR26242
Maintainer: ‘Matthieu Decorde <matthieu.decorde@ens-lyon.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Sylvain",
                      family = "Loiseau",
                      role = "aut"),
               person(given = "Lise",
                      family = "Vaudor",
                      role = "aut"),
               person(given = "Matthieu",
                      family = "Decorde",
                      role = c("aut", "cre"),
                      email = "matthieu.decorde@ens-lyon.fr"),
               person(given = "Serge",
                      family = "Heiden",
                      role = "aut"))
as necessary.
Problems with news in ‘NEWS.md’:
No news entries found.
Unknown package ‘ggalt’ in Rd xrefs
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘nlp_build_chunks.R’ ‘sem_search_corpus.R’
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘textra.R’
checkRd: (-1) textTrainNPlot.Rd:93: height/width attributes should be in pixels
Maintainer: ‘Luke Miratrix <lmiratrix@stat.harvard.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Luke",
                    family = "Miratrix",
                    role = c("aut", "cre"),
                    email = "lmiratrix@stat.harvard.edu")
as necessary.
checkRd: (-1) make.phrase.matrix.Rd:20: Lost braces
    20 |  \\tabular{rrrrr}{
       |           ^
checkRd: (-1) make.phrase.matrix.Rd:20-23: Lost braces
    20 |  \\tabular{rrrrr}{
       |                  ^
Maintainer: ‘Tyler Rinker <tyler.rinker@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Timothy Conwell <timconwell@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Timothy",
                    family = "Conwell",
                    role = c("aut", "cre"),
                    email = "timconwell@gmail.com")
as necessary.
Maintainer: ‘James Curran <j.curran@auckland.ac.nz>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "James",
                      family = "Curran",
                      role = c("aut", "cre"),
                      email = "j.curran@auckland.ac.nz"),
               person(given = "TingYu",
                      family = "Huang",
                      role = "aut"))
as necessary.
Maintainer: ‘Hong Zhang <hzhang@wpi.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hong",
                      family = "Zhang",
                      role = c("aut", "cre"),
                      email = "hzhang@wpi.edu"),
               person(given = "Zheyang",
                      family = "Wu",
                      role = "aut"))
as necessary.
Maintainer: ‘Paul Gilbert <pgilbert.ttv9z@ncf.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Paul",
                    family = "Gilbert",
                    role = c("aut", "cre"),
                    email = "pgilbert.ttv9z@ncf.ca")
as necessary.
checkRd: (-1) shoulders.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) shoulders.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) shoulders.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
Maintainer: ‘Glenn J. Tattersall <gtatters@brocku.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Glenn", "J."),
                    family = "Tattersall",
                    role = c("aut", "cre"),
                    email = "gtatters@brocku.ca")
as necessary.
Maintainer: ‘Francisco Jablinski Castelhano <fjcastelhano@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Francisco", "Jablinski", "Castelhano/Laboclima", "-", "Universidade", "Federal", "do"),
                      family = "Paraná",
                      role = "aut"),
               person(given = c("Francisco", "Jablinski"),
                      family = "Castelhano",
                      role = "cre",
                      email = "fjcastelhano@gmail.com"))
as necessary.
Maintainer: ‘Jose Gama <rxprtgama@gmail.com>’

Found the following (possibly) invalid file URIs:
  URI: www.madur.com
    From: man/RTDtemperatureFromResistance.Rd
  URI: www.betatherm.com
    From: man/ThermistorSlope.Rd
  URI: www.betatherm.com
    From: man/ThermistorSteinhartHartCoeffFromMeasurements.Rd
  URI: www.betatherm.com
    From: man/ThermistorVolumeResistivityFromR25.Rd
  URI: www.betatherm.com
    From: man/ThermistorVolumeResistivityFromRho.Rd
  URI: www.conaxbuffalo.com
    From: man/ThermocoupleLeadWireExternalResistanceUS.Rd
  URI: www.madur.com
    From: man/rtdResistivityAlpha.Rd
  URI: www.phoenixcontact.com
    From: man/thermocoupleExtensionCables.Rd
  URI: www.tempco.com
    From: man/thermocoupleWireColorUnitedStatesCanadaMexico.Rd
  URI: www.conaxbuffalo.com
    From: man/thermocoupleWireSizeResistanceImperial.Rd
Maintainer: ‘Amit Sasson <amitsasson1@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Amit",
                    family = "Sasson",
                    role = c("aut", "cre"),
                    email = "amitsasson1@gmail.com")
as necessary.
Maintainer: ‘Olgun Aydin <olgun.aydin@pg.edu.pl>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Olgun",
                      family = "Aydin",
                      role = c("aut", "cre"),
                      email = "olgun.aydin@pg.edu.pl"),
               person(given = "Mustafa",
                      family = "Cavus",
                      role = "aut"))
as necessary.
Maintainer: ‘Thomas Hoffmann <tjhoffm@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Thomas",
                    family = "Hoffmann",
                    role = c("aut", "cre"),
                    email = "tjhoffm@gmail.com")
as necessary.
Maintainer: ‘Holger L. Kern <hkern@fsu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Holger", "L."),
                    family = "Kern",
                    role = c("aut", "cre"),
                    email = "hkern@fsu.edu")
as necessary.
Maintainer: ‘Paolo Giordani <paolo.giordani@uniroma1.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Maria", "Antonietta", "Del"),
                      family = "Ferraro",
                      role = "aut"),
               person(given = c("Henk", "A.L."),
                      family = "Kiers",
                      role = "aut"),
               person(given = "Paolo",
                      family = "Giordani",
                      role = c("aut", "cre"),
                      email = "paolo.giordani@uniroma1.it"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) CPdimensionalityplot.Rd:18: Escaped LaTeX specials: \&
checkRd: (-1) CPdimensionalityplot.Rd:19: Escaped LaTeX specials: \&
checkRd: (-1) Kinship.Rd:15: Escaped LaTeX specials: \&
checkRd: (-1) Kinship.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) T2func.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) T2funcrep.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) T3dimensionalityplot.Rd:18: Escaped LaTeX specials: \&
checkRd: (-1) T3func.Rd:43: Escaped LaTeX specials: \&
checkRd: (-1) T3func.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) T3funcrep.Rd:43: Escaped LaTeX specials: \&
checkRd: (-1) T3funcrep.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) TV.Rd:26: Escaped LaTeX specials: \& \& \&
checkRd: (-1) TV.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) TV.Rd:31: Escaped LaTeX specials: \&
checkRd: (-1) TV.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) TV.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) pcamean.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) threewayanova.Rd:24: Escaped LaTeX specials: \&
Maintainer: ‘Oliver Keyes <ironholds@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Oliver",
                    family = "Keyes",
                    role = c("aut", "cre"),
                    email = "ironholds@gmail.com")
as necessary.

Found the following (possibly) invalid file URI:
  URI: CONDUCT.md
    From: README.md

The Description field contains
  A connector to the 'What3Words' (http://what3words.com/) service, which
Please enclose URLs in angle brackets (<...>).
Maintainer: ‘Man-Hua Chen <mchen@mail.tku.edu.tw>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Man-Hua",
                    family = "Chen",
                    role = c("aut", "cre"),
                    email = "mchen@mail.tku.edu.tw")
as necessary.
Maintainer: ‘Tao Xiao <taoxiao1@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tao",
                    family = "Xiao",
                    role = c("aut", "cre"),
                    email = "taoxiao1@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
File ‘tibble/libs/tibble.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘SET_ATTRIB’, ‘SET_OBJECT’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Maintainer: ‘Sergei Izrailev <sizrailev@jabiruventures.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Sergei",
                    family = "Izrailev",
                    role = c("aut", "cre"),
                    email = "sizrailev@jabiruventures.com")
as necessary.
Maintainer: ‘Alec Stephenson <alec_stephenson@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Alec",
                      family = "Stephenson.",
                      role = "aut"),
               person(given = "Alec",
                      family = "Stephenson",
                      role = "cre",
                      email = "alec_stephenson@hotmail.com"))
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Tom Cox <tom.cox@uantwerp.be>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Tom",
                      family = "Cox",
                      role = c("aut", "cre"),
                      email = "tom.cox@uantwerp.be"),
               person(given = "Lennert",
                      family = "Schepers",
                      role = "aut",
                      email = "lennert.schepers@uantwerp.be"))
as necessary.
Maintainer: ‘Moritz Mueller-Navarra <muellernavarra@gmail.com>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘BuildTT.Rd’:
    https://doi.org/10.5194/os-15-1363-2019
  File ‘SynTT.Rd’:
    https://doi.org/10.5194/os-15-1363-2019
  File ‘TideTable.Rd’:
    https://doi.org/10.5194/os-15-1363-2019
Maintainer: ‘Steven Sanderson <spsanderson@gmail.com>’

Found the following (possibly) invalid URLs:
  URL: https://lifecycle.r-lib.org/articles/stages.html##experimental
    From: README.md
    Message: Invalid URL: '#' not allowed in fragment
Problems with news in ‘NEWS.md’:
No news entries found.
Author field differs from that derived from Authors@R
  Author:    ‘Tyson Barrett [aut, cre] (<https://orcid.org/0000-0002-2137-1391>), Mark Fairbanks [ctb], Ivan Leung [ctb], Indrajeet Patil [ctb] (<https://orcid.org/0000-0003-1995-6531>, @patilindrajeets)’
  Authors@R: ‘Tyson Barrett [aut, cre] (ORCID: <https://orcid.org/0000-0002-2137-1391>), Mark Fairbanks [ctb], Ivan Leung [ctb], Indrajeet Patil [ctb] (ORCID: <https://orcid.org/0000-0003-1995-6531>, Twitter: @patilindrajeets)’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Initial Release (v0.1.0)
Maintainer: ‘Robert Myles McDonnell <robertmylesmcdonnell@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Robert", "Myles"),
                    family = "McDonnell",
                    role = c("aut", "cre"),
                    email = "robertmylesmcdonnell@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘iterate.Rd’ ‘random_walk_rank.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘add_paras.Rd’ ‘checks.R’ ‘compute-idx.Rd’ ‘compute-indexes.R’
    ‘dimension-reduction.R’ ‘dimension-reduction.Rd’ ‘dist-fit.Rd’
    ‘distribution-fit.R’ ‘drought-idx.Rd’ ‘drought-indexes.R’ ‘init.R’
    ‘normalise.R’ ‘normalise.Rd’ ‘rescale.Rd’ ‘rescaling.R’
    ‘swap-values.R’ ‘swap.Rd’ ‘temporal-aggregate.Rd’
    ‘temporal-aggregation.R’ ‘theme_benchmark.Rd’
    ‘variable-transformation.R’ ‘variable-transformation.Rd’
'::' or ':::' imports not declared from:
  ‘here’ ‘janitor’ ‘ozmaps’ ‘readxl’ ‘rmapshaper’ ‘sf’ ‘tibble’
'library' or 'require' calls not declared from:
  ‘GGally’ ‘ozmaps’ ‘tidyverse’
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/tidyjson.Rcheck/00install.out’ for details.
Maintainer: ‘Joshua M Rosenberg <jmrosenberg@utk.edu>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Minor changes:
checkRd: (-1) single_imputation.Rd:21-22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) single_imputation.Rd:23-27: Lost braces in \itemize; meant \describe ?
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘tidymodl.R’ ‘tidymodl.Rd’
Maintainer: ‘Michael Milton <michael.r.milton@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Michael",
                    family = "Milton",
                    role = c("aut", "cre"),
                    email = "michael.r.milton@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘tidy_plate.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘summarise2.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘import_instruments.R’ ‘make_choose_all_table.R’
Found the following (possibly) invalid URLs:
  URL: ../doc/importInstruments.html
    From: inst/doc/makeBinaryWord.html
  URL: ../doc/importInstruments.html
    From: inst/doc/makeChooseAllTable.html
  URL: ../doc/importInstruments.html
    From: inst/doc/makeChooseOneTable.html
  URL: ../doc/importInstruments.html
    From: inst/doc/makeInstrument.html
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘tw_search.R’
Maintainer: ‘Simon Urbanek <Simon.Urbanek@r-project.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Simon",
                      family = "Urbanek",
                      role = c("aut", "cre"),
                      email = "Simon.Urbanek@r-project.org"),
               person(given = "Kent",
                      family = "Johnson",
                      role = "ctb",
                      email = "kjohnson@akoyabio.com"))
as necessary.
Maintainer: ‘Will Kuan <aiien61will@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Will",
                    family = "Kuan",
                    role = c("aut", "cre"),
                    email = "aiien61will@gmail.com")
as necessary.
Maintainer: ‘Siyu Han <siyu.han@helmholtz-muenchen.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Siyu",
                      family = "Han",
                      role = c("aut", "cre"),
                      email = "siyu.han@helmholtz-muenchen.de"),
               person(given = "Jialing",
                      family = "Huang",
                      role = "aut"),
               person(given = "Francesco",
                      family = "Foppiano",
                      role = "aut"),
               person(given = "Cornelia",
                      family = "Prehn",
                      role = "aut"),
               person(given = "Jerzy",
                      family = "Adamski",
                      role = "aut"),
               person(given = "Karsten",
                      family = "Suhre",
                      role = "aut"),
               person(given = "Ying",
                      family = "Li",
                      role = "aut"),
               person(given = "Giuseppe",
                      family = "Matullo",
                      role = "aut"),
               person(given = "Freimut",
                      family = "Schliess",
                      role = "aut"),
               person(given = "Christian",
                      family = "Gieger",
                      role = "aut"),
               person(given = "Annette",
                      family = "Peters",
                      role = "aut"),
               person(given = "Rui",
                      family = "Wang-Sattler",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Chi Song <song.1188@osu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("George", "C."),
                      family = "Tseng",
                      role = "aut",
                      email = "ctseng@pitt.edu"),
               person(given = c("Wing", "H."),
                      family = "Wong",
                      role = "aut",
                      email = "whwong@stanford.edu"),
               person(given = "Chi",
                      family = "Song",
                      role = "cre",
                      email = "song.1188@osu.edu"))
as necessary.
Running ‘testthat.R’ [7s/10s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(tikatuwq)
  > test_check("tikatuwq")
  [ FAIL 2 | WARN 5 | SKIP 13 | PASS 112 ]
  
  ══ Skipped tests (13) ══════════════════════════════════════════════════════════
  • On CRAN (12): 'test-param_analysis.R:2:3', 'test-param_analysis.R:30:3',
    'test-param_analysis.R:50:3', 'test-param_analysis.R:75:3',
    'test-param_analysis_multi.R:2:3', 'test-param_analysis_multi.R:28:3',
    'test-param_analysis_multi.R:61:3', 'test-param_analysis_multi.R:88:3',
    'test-plot_map.R:2:3', 'test-plot_map.R:11:3', 'test-plot_map.R:28:3',
    'test-plot_trend.R:2:3'
  • requireNamespace("rmarkdown", quietly = TRUE) is TRUE (1):
    'test-render_report.R:30:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-render_report.R:23:3'): render_report creates output file when rmarkdown available ──
  Error in `file(con, "w")`: cannot open the connection
  Backtrace:
      ▆
   1. └─tikatuwq::render_report(df, output_dir = tmp_dir) at test-render_report.R:23:3
   2.   └─rmarkdown::render(...)
   3.     └─knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
   4.       └─xfun::write_utf8(res, output)
   5.         └─base::writeLines(enc2utf8(text), con, ..., useBytes = TRUE)
   6.           └─base::file(con, "w")
  ── Error ('test-render_report.R:55:3'): render_report accepts meta parameter ───
  Error in `file(con, "w")`: cannot open the connection
  Backtrace:
      ▆
   1. └─tikatuwq::render_report(...) at test-render_report.R:55:3
   2.   └─rmarkdown::render(...)
   3.     └─knitr::knit(knit_input, knit_output, envir = envir, quiet = quiet)
   4.       └─xfun::write_utf8(res, output)
   5.         └─base::writeLines(enc2utf8(text), con, ..., useBytes = TRUE)
   6.           └─base::file(con, "w")
  
  [ FAIL 2 | WARN 5 | SKIP 13 | PASS 112 ]
  Error:
  ! Test failures.
  Execution halted
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/timechange.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-15 (Debian 15.2.0-12) 15.2.0’
* used C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’
Obsolete C++11 standard request will be ignored
Maintainer: ‘Hyungsuk Tak <hyungsuk.tak@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hyungsuk",
                      family = "Tak",
                      role = c("aut", "cre"),
                      email = "hyungsuk.tak@gmail.com"),
               person(given = "Kaisey",
                      family = "Mandel",
                      role = "aut"),
               person(given = c("David", "A."),
                      family = "van Dyk",
                      role = "aut"),
               person(given = c("Vinay", "L."),
                      family = "Kashyap",
                      role = "aut"),
               person(given = "Xiao-Li",
                      family = "Meng",
                      role = "aut"),
               person(given = "Aneta",
                      family = "Siemiginowska",
                      role = "aut"),
               person(given = "Zhirui",
                      family = "Hu",
                      role = "aut"))
as necessary.

The Description field contains
  <arXiv:2005.08049>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Peter Reichert <peter.reichert@emeriti.eawag.ch>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Peter",
                    family = "Reichert",
                    role = c("aut", "cre"),
                    email = "peter.reichert@emeriti.eawag.ch")
as necessary.
Maintainer: ‘Toshihiro Umehara <toshi@niceume.com>’

The BugReports field in DESCRIPTION has
  https://github.com/niceume/timeDF
which should likely be
  https://github.com/niceume/timeDF/issues
instead.
Maintainer: ‘Dahee Lee <dhlee99@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Dahee",
                      family = "Lee",
                      role = c("aut", "cre"),
                      email = "dhlee99@gmail.com"),
               person(given = "Dustin",
                      family = "Tingley",
                      role = "aut"))
as necessary.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘life_exp.Rd’:
    \keyword{durPlot,}
    \keyword{durSummary,}
Maintainer: ‘Paul Blanche <paulfblanche@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Paul",
                    family = "Blanche",
                    role = c("aut", "cre"),
                    email = "paulfblanche@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) compare.Rd:46: Escaped LaTeX specials: \&
Maintainer: ‘Yifu Yan <yanyifu94@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Yifu",
                    family = "Yan",
                    role = c("aut", "cre"),
                    email = "yanyifu94@hotmail.com")
as necessary.
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) setup_sql_functions.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Install {timeseriesdb} System Functions}
       |                ^
checkRd: (-1) setup_sql_functions.Rd:17: Lost braces; missing escapes or markup?
    17 | Installs functions needed to operated {timeseriesdb} in
       |                                       ^
checkRd: (-1) setup_sql_grant_rights.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Grant execute on {timeseriesdb} functions}
       |                         ^
checkRd: (-1) setup_sql_grant_rights.Rd:17: Lost braces; missing escapes or markup?
    17 | Grant execute on {timeseriesdb} functions
       |                  ^
checkRd: (-1) setup_sql_tables.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Install {timeseriesdb} System Tables}
       |                ^
checkRd: (-1) setup_sql_tables.Rd:17: Lost braces; missing escapes or markup?
    17 | Installs tables needed to operated {timeseriesdb} in
       |                                    ^
checkRd: (-1) setup_sql_triggers.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Install {timeseriesdb} Triggers}
       |                ^
Found the following (possibly) invalid URLs:
  URL: ../reference/db_dataset_next_release
    From: inst/doc/a02_advanced_usage.html
  URL: ../reference/db_collection_delete
    From: inst/doc/a02_advanced_usage.html
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘tcor.Rd’
checkRd: (-1) alcohol.Rd:16-18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) alcohol.Rd:19-21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) alcohol.Rd:22-26: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Joris Snellenburg <j.snellenburg@vu.nl>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Masami Saga <msaga@mtb.biglobe.ne.jp>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("The", "Institute", "of", "Statistical"),
                      family = "Mathematics",
                      role = "aut"),
               person(given = "Masami",
                      family = "Saga",
                      role = "cre",
                      email = "msaga@mtb.biglobe.ne.jp"))
as necessary.
Maintainer: ‘Josef Leydold <josef.leydold@wu.ac.at>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Josef",
                      family = "Leydold",
                      role = c("aut", "cre"),
                      email = "josef.leydold@wu.ac.at"),
               person(given = "Carsten",
                      family = "Botts",
                      role = "aut"),
               person(given = "Wolfgang",
                      family = "H\\\"ormann",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘base-lenses.R’ ‘where_il.Rd’
Maintainer: ‘Camilo Khatchikian <ckhatchikian@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Adrien",
                      family = "Rieux",
                      role = "aut"),
               person(given = "Camilo",
                      family = "Khatchikian",
                      role = c("aut", "cre"),
                      email = "ckhatchikian@gmail.com"))
as necessary.
checkRd: (-1) partition_undirected_graph.Rd:20: Lost braces; missing escapes or markup?
    20 | \item{cutoff}{Numeric. The value max(0, g_{i,j} - cutoff) so that there are <\code{.num_components}> components in the graph.}
       |                                           ^
Maintainer: ‘Brian Salzer <brian.m.salzer@frb.gov>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jeff",
                      family = "Hallman",
                      role = "aut",
                      email = "jeffhallman@gmail.com"),
               person(given = "Brian",
                      family = "Salzer",
                      role = "cre",
                      email = "brian.m.salzer@frb.gov"))
as necessary.
checkRd: (-1) tierChart.Rd:332: Lost braces
   332 |   If the input argument code{boxes} is \code{F}, the \code{lBox},
       |                             ^
Maintainer: ‘Luke Tierney <luke-tierney@uiowa.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Luke",
                    family = "Tierney",
                    role = c("aut", "cre"),
                    email = "luke-tierney@uiowa.edu")
as necessary.
Found an obsolete/platform-specific call in the following function:
  ‘.my.tkdev’
Found the platform-specific device:
  ‘X11’
dev.new() is the preferred way to open a new device, in the unlikely
event one is needed.
Maintainer: ‘Filipe Campelo <fcampelo@ci.uc.pt>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Filipe",
                    family = "Campelo",
                    role = c("aut", "cre"),
                    email = "fcampelo@ci.uc.pt")
as necessary.
Maintainer: ‘Jasin Machkour <jasin.machkour@tu-darmstadt.de>’

The Description field contains
  Machkour, Muma, and Palomar (2022) <arXiv:2110.06048>, Efron, Hastie,
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Author field differs from that derived from Authors@R
  Author:    ‘Lukas Soenning [aut, cre, cph] (<https://orcid.org/0000-0002-2705-395X>), German Research Foundation (DFG) [fnd] (018mejw64, Grant number 548274092)’
  Authors@R: ‘Lukas Soenning [aut, cre, cph] (ORCID: <https://orcid.org/0000-0002-2705-395X>), German Research Foundation (DFG) [fnd] (ROR: <https://ror.org/018mejw64>, Grant number 548274092)’
Maintainer: ‘Jona Lilienthal <lilienthal@statistik.tu-dortmund.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jona",
                    family = "Lilienthal",
                    role = c("aut", "cre"),
                    email = "lilienthal@statistik.tu-dortmund.de")
as necessary.
checkRd: (-1) pmvn.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmvn.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmvn.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmvt.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmvt.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pmvt.Rd:25: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Muhammed Ali Onder <muhammedalionder@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Muhammed", "Ali"),
                    family = "Onder",
                    role = c("aut", "cre"),
                    email = "muhammedalionder@gmail.com")
as necessary.
Maintainer: ‘Kasper Kristensen <kaskr@dtu.dk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Kasper",
                    family = "Kristensen",
                    role = c("aut", "cre"),
                    email = "kaskr@dtu.dk")
as necessary.
Maintainer: ‘Junhui Li <junhuili@cau.edu.cn>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Junhui",
                    family = "Li",
                    role = c("aut", "cre"),
                    email = "junhuili@cau.edu.cn")
as necessary.
Maintainer: ‘Jian Li <rweibo@sina.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jian",
                    family = "Li",
                    role = c("aut", "cre"),
                    email = "rweibo@sina.com")
as necessary.
Maintainer: ‘Andrea Capozio <andreacapozio@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Andrea",
                    family = "Capozio",
                    role = c("aut", "cre"),
                    email = "andreacapozio@gmail.com")
as necessary.
checkRd: (-1) tv_episode_changes.Rd:29: Lost braces; missing escapes or markup?
    29 | This method is used in conjunction with the /tv/{id}/changes method. This method uses the episode_id value found in the change entries.
       |                                                 ^
checkRd: (-1) tv_season_changes.Rd:29: Lost braces; missing escapes or markup?
    29 | This method is used in conjunction with the /tv/{id}/changes method. This method uses the season_id value found in the change entries.
       |                                                 ^
checkRd: (-1) pvalEffectPlot.Rd:90: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pvalEffectPlot.Rd:91: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pvalEffectPlot.Rd:92: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pvalEffectPlot.Rd:93: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pvalEffectPlot.Rd:94: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Stefan Theussl <Stefan.Theussl@R-project.org>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Cody Moore <Jumper9400@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Cody",
                    family = "Moore",
                    role = c("aut", "cre"),
                    email = "jumper9400@gmail.com")
as necessary.
Maintainer: ‘Samsiddhi Bhattacharjee <sb1@nibmg.ac.in>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Samsiddhi",
                      family = "Bhattacjarjee",
                      role = "aut",
                      email = "sb1@nibmg.ac.in"),
               person(given = "Samsiddhi",
                      family = "Bhattacharjee",
                      role = "cre",
                      email = "sb1@nibmg.ac.in"))
as necessary.
Maintainer: ‘Tore Opsahl <tore@opsahl.co.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tore",
                    family = "Opsahl",
                    role = c("aut", "cre"),
                    email = "tore@opsahl.co.uk")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Ali Santacruz <amsantac@unal.edu.co>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Robert", "G."),
                      family = "Pontius",
                      role = "aut",
                      email = "rpontius@clarku.edu"),
               person(given = "Ali",
                      family = "Santacruz",
                      role = c("aut", "cre"),
                      email = "amsantac@unal.edu.co"),
               person(given = "Amin",
                      family = "Tayyebi",
                      role = "aut"),
               person(given = "Benoit",
                      family = "Parmentier",
                      role = "aut"),
               person(given = "Kangping",
                      family = "Si",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘Get_time_entries.R’
Maintainer: ‘Sara Algeri <salgeri@umn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Sara",
                    family = "Algeri",
                    role = c("aut", "cre"),
                    email = "salgeri@umn.edu")
as necessary.

The Description field contains
  <arXiv:1803.03858>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Lincoln Mullen <lincoln@lincolnmullen.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Abedrahim Ben rebia <b.abedrahim@tomba.io>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Abedrahim", "Ben"),
                      family = "rebia",
                      role = c("ctb", "aut", "cre"),
                      email = "b.abedrahim@tomba.io"),
               person(family = "Tomba.io",
                      role = c("cph", "aut")))
as necessary.
Maintainer: ‘Timothy Conwell <timconwell@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Timothy",
                    family = "Conwell",
                    role = c("aut", "cre"),
                    email = "timconwell@gmail.com")
as necessary.
checkRd: (-1) jsonStr.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Format data as a JSON object (like this: {"x": "120"}).}
       |                                                 ^
checkRd: (-1) jsonStr.Rd:18: Lost braces; missing escapes or markup?
    18 | Format data as a JSON object (like this: {"x": "120"}).
       |                                          ^
checkRd: (-1) fixed_width_no_modeling.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fixed_width_no_modeling.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fixed_width_no_modeling.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
Maintainer: ‘Mouloud Belbahri <mouloud.belbahri@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Mouloud",
                      family = "Belbahri",
                      role = c("aut", "cre"),
                      email = "mouloud.belbahri@gmail.com"),
               person(given = "Olivier",
                      family = "Gandouet",
                      role = "aut"),
               person(given = "Alejandro",
                      family = "Murua",
                      role = "aut"),
               person(given = c("Vahid", "Partovi"),
                      family = "Nia",
                      role = "aut"))
as necessary.
Maintainer: ‘Gregory W. Schwartz <gsch@pennmedicine.upenn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Gregory", "W."),
                    family = "Schwartz",
                    role = c("aut", "cre"),
                    email = "gsch@pennmedicine.upenn.edu")
as necessary.
Maintainer: ‘Damian W. Betebenner <dbetebenner@nciea.org>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Found the following (possibly) invalid URL:
  URL: ../index.html#installation
    From: inst/doc/toOrdinal.html
Maintainer: ‘Henrik Bengtsson <henrikb@braju.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) TopDom.Rd:21: Lost braces; missing escapes or markup?
    21 | Recommended range is in {5, ..., 20}.}
       |                         ^
checkRd: (-1) getSegsExtra.Rd:14: Lost braces
    14 | \item{data}{data.table returned from function /code{tdtr}}
       |                                                    ^
Maintainer: ‘Doug Friedman <doug.nhp@gmail.com>’

The Description field contains
  <arXiv:1206.4631v1>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Minzhe Wang <minzhew@uchicago.edu>’

The Description field contains
  (2017) <arXiv:1704.07016>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Bastian Pfeifer <bastian.pfeifer@medunigraz.at>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Michael", "G."),
                      family = "Schimek",
                      role = "aut"),
               person(given = "Eva",
                      family = "Budinska",
                      role = "aut"),
               person(given = "Jie",
                      family = "Ding",
                      role = "aut"),
               person(given = c("Karl", "G."),
                      family = "Kugler",
                      role = "aut"),
               person(given = "Vendula",
                      family = "Svendova",
                      role = "aut"),
               person(given = "Shili",
                      family = "Lin",
                      role = "aut"),
               person(given = "Bastian",
                      family = "Pfeifer",
                      role = c("aut", "cre"),
                      email = "bastian.pfeifer@medunigraz.at"))
as necessary.
Maintainer: ‘Gabriele Sales <gabriele.sales@unipd.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Sofia",
                      family = "Massa",
                      role = "aut"),
               person(given = "Gabriele",
                      family = "Sales",
                      role = c("aut", "cre"),
                      email = "gabriele.sales@unipd.it"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘dat_checks.R’ ‘setters_and_getters.R’
Maintainer: ‘Mahmoud Mosalman Yazdi <m.mosalman@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Mahmoud", "Mosalman"),
                    family = "Yazdi",
                    role = c("aut", "cre"),
                    email = "m.mosalman@gmail.com")
as necessary.
Maintainer: ‘Gilberto Camara <gilberto.camara.inpe@gmail.com>’

The Description field contains
  (a) 'adabelief' by Zhuang et al (2020), <arXiv:2010.07468>; (b)
  'adabound' by Luo et al.(2019), <arXiv:1902.09843>; (c) 'adahessian' by
  Yao et al.(2021) <arXiv:2006.00719>; (d) 'adamw' by Loshchilov & Hutter
  (2019), <arXiv:1711.05101>; (e) 'madgrad' by Defazio and Jelassi
  (2021), <arXiv:2101.11075>; (f) 'nadam' by Dozat (2019),
  Ma and Yarats(2019), <arXiv:1810.06801>; (h) 'radam' by Liu et al.
  (2019), <arXiv:1908.03265>; (i) 'swats' by Shekar and Sochee (2018),
  <arXiv:1712.07628>; (j) 'yogi' by Zaheer et al.(2019),
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Running ‘testthat.R’ [9s/11s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(tosr)
  > 
  > test_check("tosr")
  Saving _problems/test-tosr_load-9.R
  [ FAIL 1 | WARN 176 | SKIP 0 | PASS 0 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-tosr_load.R:4:3'): create ToS correctly ──────────────────────
  Expected `nrow(tosSAP(my_tosr_load$graph, my_tosr_load$df, my_tosr_load$nodes))` to equal 127.
  Differences:
    `actual`: 115.0
  `expected`: 127.0
  
  
  [ FAIL 1 | WARN 176 | SKIP 0 | PASS 0 ]
  Error:
  ! Test failures.
  Execution halted
Maintainer: ‘Guanglai Li <liguanglai@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Guanglai",
                    family = "Li",
                    role = c("aut", "cre"),
                    email = "liguanglai@gmail.com")
as necessary.
Maintainer: ‘Martin R. Smith <martin.smith@durham.ac.uk>’

Package CITATION file contains call(s) to old-style personList() or
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Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘response_builder.R’
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following (possibly) invalid URLs:
  URL: ../doc/basicWorkflow.html#box_plot_details
    From: man/plot_tox_boxplots.Rd
  URL: ../doc/basicWorkflow.html#box_plot_details
    From: man/plot_tox_endpoints.Rd
Maintainer: ‘Xiang Lyu <lyu17@purdue.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hanfang",
                      family = "Yang",
                      role = "aut"),
               person(given = "Kun",
                      family = "Lu",
                      role = "aut"),
               person(given = "Xiang",
                      family = "Lyu",
                      role = c("aut", "cre"),
                      email = "lyu17@purdue.edu"),
               person(given = "Feifang",
                      family = "Hu",
                      role = "aut"),
               person(given = "Yichuan",
                      family = "Zhao",
                      role = "aut"))
as necessary.
Maintainer: ‘Ronja Foraita <foraita@leibniz-bips.de>’

The Description field contains
  <arXiv:2108.13395> provide a guide how to use tpc to analyse cohort
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Carlos P. Carmona <perezcarmonacarlos@gmail.com>’

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Please add one, modifying
  Authors@R: person(given = c("Carlos", "P."),
                    family = "Carmona",
                    role = c("aut", "cre"),
                    email = "perezcarmonacarlos@gmail.com")
as necessary.
Maintainer: ‘Wei Jiang <jiangwei@hrbmu.edu.cn>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Wei",
                    family = "Jiang",
                    role = c("aut", "cre"),
                    email = "jiangwei@hrbmu.edu.cn")
as necessary.
Maintainer: ‘Alessio Locallo <alessio.locallo@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Alessio",
                      family = "Locallo",
                      role = c("aut", "cre"),
                      email = "alessio.locallo@gmail.com"),
               person(given = "Davide",
                      family = "Prandi",
                      role = "aut",
                      email = "davide.prandi@unitn.it"),
               person(given = "Francesca",
                      family = "Demichelis",
                      role = "aut",
                      email = "f.demichelis@unitn.it"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘replace_leading_whitespace.R’
Maintainer: ‘Jun Yan <jun.yan@uconn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jun",
                    family = "Yan",
                    role = c("aut", "cre"),
                    email = "jun.yan@uconn.edu")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Chanwoo Lee <chanwoo.lee@wisc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Chanwoo",
                      family = "Lee",
                      role = c("aut", "cre"),
                      email = "chanwoo.lee@wisc.edu"),
               person(given = "Lexin",
                      family = "Li",
                      role = "aut",
                      email = "lexinli@berkeley.edu"),
               person(given = c("Hao", "Helen"),
                      family = "Zhang",
                      role = "aut",
                      email = "hzhang@math.arizona.edu"),
               person(given = "Miaoyan",
                      family = "Wang",
                      role = "aut",
                      email = "miaoyan.wang@wisc.edu"))
as necessary.

The Description field contains
  Series Representation. <arXiv:2105.01783>. The method employs the
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) parse_beast_output_files.Rd:23: Lost braces
    23 |     item{\code{estimates}: parameter estimates}
       |         ^
checkRd: (-1) parse_beast_output_files.Rd:24-28: Lost braces
    24 |     item{
       |         ^
checkRd: (-1) parse_beast_output_files.Rd:29-31: Lost braces
    29 |     item{\code{operators}: the BEAST2 MCMC operator
       |         ^
checkRd: (-1) parse_beast_posterior.Rd:28: Lost braces
    28 |     item{\code{estimates}: parameter estimates}
       |         ^
checkRd: (-1) parse_beast_posterior.Rd:29-33: Lost braces
    29 |     item{
       |         ^
Maintainer: ‘Filipe Campelo <fcampelo@uc.pt>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Filipe",
                    family = "Campelo",
                    role = c("aut", "cre"),
                    email = "fcampelo@uc.pt")
as necessary.
Maintainer: ‘Marjolein Bruijning <m.bruijning@uva.nl>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Marjolein",
                      family = "Bruijning",
                      role = c("aut", "cre"),
                      email = "m.bruijning@uva.nl"),
               person(given = c("Marco", "D."),
                      family = "Visser",
                      role = "aut"),
               person(given = c("Caspar", "A."),
                      family = "Hallmann",
                      role = "aut"),
               person(given = "Eelke",
                      family = "Jongejans",
                      role = "aut"))
as necessary.
Maintainer: ‘Claudio Zandonella Callegher <claudiozandonella@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
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Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Brian Battaile <brian.battaile@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Brian",
                    family = "Battaile",
                    role = c("aut", "cre"),
                    email = "brian.battaile@gmail.com")
as necessary.
Maintainer: ‘Kleanthis Koupidis <koupidis.okfgr@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Kleanthis",
                      family = "Koupidis",
                      role = c("aut", "cre"),
                      email = "koupidis.okfgr@gmail.com"),
               person(given = "Aikaterini",
                      family = "Chatzopoulou",
                      role = "aut"),
               person(given = "Charalampos",
                      family = "Bratsas",
                      role = "aut"),
               person(given = "Panagiotis",
                      family = "Tzenos",
                      role = "dtc"),
               person(given = c("Josep", "Maria"),
                      family = "Salanova",
                      role = "dtc"))
as necessary.
checkRd: (-1) trait_missing.Rd:17-18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trait_missing.Rd:19-20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trait_missing.Rd:21-22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trait_missing.Rd:23-24: Lost braces in \itemize; \value handles \item{}{} directly
'::' or ':::' import not declared from: ‘devtools’
'library' or 'require' calls not declared from:
  ‘XML’ ‘devtools’ ‘jsonlite’ ‘ks’ ‘maps’
Maintainer: ‘Balint Tamasi <balint.tamasi+tramME@gmail.com>’

Found the following (possibly) invalid file URIs:
  URI: Balint.Tamasi@uzh.ch
    From: inst/doc/mixed-effects-additive-models.pdf
  URI: Torsten.Hothorn@R-project.org
    From: inst/doc/mixed-effects-additive-models.pdf
Maintainer: ‘Rich FitzJohn <rich.fitzjohn@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Babak Naderi <bnaderi9@gmail.com>’

The Description field contains
  Möller (2020) <arXiv:2004.11490>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Cristhian Paredes <craparedesca@unal.edu.co>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Cristhian",
                      family = "Paredes",
                      role = c("aut", "cre"),
                      email = "craparedesca@unal.edu.co"),
               person(given = c("Eduardo", "Rodríguez", "de", "San"),
                      family = "Miguel",
                      role = "aut"))
as necessary.
Maintainer: ‘Jie Zhou <zhoujie02569@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jie",
                      family = "Zhou",
                      role = c("aut", "cre"),
                      email = "zhoujie02569@gmail.com"),
               person(given = "Jiajia",
                      family = "Zhang",
                      role = "aut"),
               person(given = "Wenbin",
                      family = "Lu",
                      role = "aut"))
as necessary.
Maintainer: ‘Somenath Sit <somenath.bhu.2010@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Somenath",
                    family = "Sit",
                    role = c("aut", "cre"),
                    email = "somenath.bhu.2010@gmail.com")
as necessary.
Maintainer: ‘Almut E. D. Veraart <a.veraart@imperial.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Almut", "E.", "D."),
                    family = "Veraart",
                    role = c("aut", "cre"),
                    email = "a.veraart@imperial.ac.uk")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Lam Opal Huang <opal.huang@mail.mcgill.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Lam", "Opal"),
                    family = "Huang",
                    role = c("aut", "cre"),
                    email = "opal.huang@mail.mcgill.ca")
as necessary.
Maintainer: ‘Marshall Brown <mdbrown@fhcrc.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Marshall",
                      family = "Brown",
                      role = c("aut", "cre"),
                      email = "mdbrown@fhcrc.org"),
               person(given = "Holly",
                      family = "Janes",
                      role = "aut"))
as necessary.
checkRd: (-1) trtsel.Rd:69: Lost braces; missing escapes or markup?
    69 | numeric with two values {0,1} and gaussian(link = "identity") otherwise.
       |                         ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘tree_mesh.R’ ‘tree_mesh.Rd’ ‘zzz.R’
Maintainer: ‘Sophie Kersting <sophie_kersting@gmx.de>’

The Description field contains
  Kersting, and L. Kühn (2023) <arXiv:2307.14537>, which provides precise
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Silvestre Garcia de Jalon <s.garciadejalon@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Silvestre", "Garcia"),
                    family = "de Jalon",
                    role = c("aut", "cre"),
                    email = "s.garciadejalon@gmail.com")
as necessary.
Maintainer: ‘Wen Tian (Wendy) Wang <wtwang@sfu.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Wen", "Tian", "Wang,Lloyd"),
                      family = "Elliott",
                      role = "aut",
                      comment = "Wendy"),
               person(given = c("Wen", "Tian"),
                      family = "Wang",
                      role = "cre",
                      email = "wtwang@sfu.ca",
                      comment = "Wendy"))
as necessary.
Found the following (possibly) invalid URL:
  URL: ../reference/index.html
    From: inst/doc/using-distances.html
Maintainer: ‘Oskar Hagen <oskar.hagen@outlook.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Oskar",
                      family = "Hagen",
                      role = c("aut", "cre"),
                      email = "oskar.hagen@outlook.com"),
               person(given = "Tanja",
                      family = "Stadler",
                      role = "aut"))
as necessary.
Maintainer: ‘Tanja Stadler <tanja.stadler@bsse.ethz.ch>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tanja",
                    family = "Stadler",
                    role = c("aut", "cre"),
                    email = "tanja.stadler@bsse.ethz.ch")
as necessary.
File ‘treesitter/libs/treesitter.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘SET_ATTRIB’, ‘SET_OBJECT’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Maintainer: ‘Ashkan Ertefaie <ashkan_ertefaie@urmc.rochester.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Xinyao",
                      family = "Ji",
                      role = "aut"),
               person(given = "Ashkan",
                      family = "Ertefaie",
                      role = c("aut", "cre"),
                      email = "ashkan_ertefaie@urmc.rochester.edu"))
as necessary.
Maintainer: ‘Jasin Machkour <jasin.machkour@tu-darmstadt.de>’

The Description field contains
  (2022) <arXiv:2110.06048>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Vicky Qian Wu <wuqian7@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Ed", "Zhang", ";", "Vicky", "Qian", "Wu", ";", "Shein-Chung", "Chow", ";", "Harry"),
                      family = "G.Zhang",
                      role = "aut",
                      email = "ed.zhang.jr@gmail.com",
                      comment = "Quality check"),
               person(given = c("Vicky", "Qian"),
                      family = "Wu",
                      role = "cre",
                      email = "wuqian7@gmail.com"))
as necessary.
Maintainer: ‘Os Keyes <ironholds@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Os",
                      family = "Keyes",
                      role = c("aut", "cre"),
                      email = "ironholds@gmail.com"),
               person(given = "Drew",
                      family = "Schmidt",
                      role = "aut"),
               person(given = "Yuuki",
                      family = "Takano",
                      role = "cph"))
as necessary.
Maintainer: ‘Phil Mike Jones <philmikejones@gmail.com>’

Found the following (possibly) invalid file URI:
  URI: CODE_OF_CONDUCT.md
    From: README.md
Maintainer: ‘Timo Stöcker <timo.stoecker@hhu.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Timo",
                      family = "Stöcker",
                      role = c("aut", "cre"),
                      email = "timo.stoecker@hhu.de"),
               person(given = "Noah",
                      family = "Simon",
                      role = "aut"),
               person(given = "Jerome",
                      family = "Friedman",
                      role = "aut"),
               person(given = "Trevor",
                      family = "Hastie",
                      role = "aut"),
               person(given = "Rob",
                      family = "Tibshirani",
                      role = "aut"))
as necessary.
Maintainer: ‘Michael D. Sumner <mdsumner@gmail.com>’

The BugReports field in DESCRIPTION has
  https://github.com/Trackage/tripEstimation
which should likely be
  https://github.com/Trackage/tripEstimation/issues
instead.
Maintainer: ‘Felix Schönbrodt <felix.schoenbrodt@psy.lmu.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("F.", "D."),
                      family = "Schönbrodt",
                      role = "aut"),
               person(given = c("M.", "D."),
                      family = "Back",
                      role = "aut"),
               person(given = c("S.", "C."),
                      family = "Schmukle",
                      role = "aut"),
               person(given = "Felix",
                      family = "Schönbrodt",
                      role = "cre",
                      email = "felix.schoenbrodt@psy.lmu.de"))
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Found the following (possibly) invalid URL:
  URL: ../doc/TripleR.pdf
    From: man/RR.Rd
Maintainer: ‘Richard Ambler <rambler@ibwya.net>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Richard",
                    family = "Ambler",
                    role = c("aut", "cre"),
                    email = "rambler@ibwya.net")
as necessary.
Malformed Title field: should not end in a period.
Maintainer: ‘Somjit Roy <somjit.roy2001@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Somjit",
                    family = "Roy",
                    role = c("aut", "cre"),
                    email = "somjit.roy2001@gmail.com")
as necessary.
Maintainer: ‘David Hugh-Jones <davidhughjones@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "David",
                    family = "Hugh-Jones",
                    role = c("aut", "cre"),
                    email = "davidhughjones@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Yuyao Wang <yuw079@ucsd.edu>’

The Description field contains
  dependent left truncation" <arXiv:2208.06836>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Frederick Novomestky <fnovomes@poly.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Frederick",
                      family = "Novomestky",
                      role = c("aut", "cre"),
                      email = "fn334@nyu.edu"),
               person(given = "Saralees",
                      family = "Nadarajah",
                      role = "aut",
                      email = "saralees.nadarajah@manchester.ac.uk"))
as necessary.
Maintainer: ‘Michael Braun <braunm@smu.edu>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/trustOptim.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-15 (Debian 15.2.0-12) 15.2.0’
* used C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’
Obsolete C++11 standard request will be ignored
Maintainer: ‘Charles J. Geyer <charlie@stat.umn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Charles", "J."),
                      family = "Geyer.",
                      role = "aut",
                      email = "charlie@stat.umn.edu"),
               person(given = c("Charles", "J."),
                      family = "Geyer",
                      role = "cre",
                      email = "charlie@stat.umn.edu"))
as necessary.
Maintainer: ‘Rainer Schlittgen <R.Schlittgen@t-online.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Rainer",
                    family = "Schlittgen",
                    role = c("aut", "cre"),
                    email = "r.schlittgen@t-online.de")
as necessary.
Maintainer: ‘Kung-Sik Chan <kungsik.chan@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Kung-Sik",
                      family = "Chan",
                      role = c("aut", "cre"),
                      email = "kungsik.chan@gmail.com"),
               person(given = "Brian",
                      family = "Ripley",
                      role = "aut"))
as necessary.
checkRd: (-1) summary.armasubsets.Rd:16: Lost braces
    16 | \item{matrix.logical}{With matrix=TRUE, the matrix is logical TRUE/FALSE or string "*"/code{" "}}
       |                                                                                            ^
checkRd: (-1) tsBSS-package.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tsBSS-package.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tsBSS-package.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tsBSS-package.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tsBSS-package.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tsBSS-package.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tsBSS-package.Rd:34: Lost braces in \itemize; meant \describe ?
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘calc_distance.R’ ‘reason_dataleaks.R’ ‘viz_dataleaks.R’
Maintainer: ‘Javier López-de-Lacalle <javlacalle@yahoo.es>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Javier",
                    family = "López-de-Lacalle",
                    role = c("aut", "cre"),
                    email = "javlacalle@yahoo.es")
as necessary.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘tsdecomp-package.Rd’:
    \keyword{package, ts}
Maintainer: ‘Wenchuan Guo <wguo1017@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Wenchuan",
                      family = "Guo",
                      role = c("aut", "cre"),
                      email = "wguo1017@gmail.com"),
               person(given = "Jianan",
                      family = "Hui",
                      role = "aut"),
               person(given = "Bob",
                      family = "Zhong",
                      role = "aut"))
as necessary.
Maintainer: ‘Jorge Vieira <jorgealexandrevieira@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jorge",
                    family = "Vieira",
                    role = c("aut", "cre"),
                    email = "jorgealexandrevieira@gmail.com")
as necessary.
Maintainer: ‘Luke Mosley <l.mosley@lancaster.ac.uk>’

The Description field contains
  <arXiv:2108.05783> for disaggregating low-frequency series in the
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Usue Mori <usue.mori@ehu.eus>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) example.database2.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) example.database2.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) example.database3.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) example.database3.Rd:19: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Vitor Cerqueira <cerqueira.vitormanuel@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Hakki Sabah <hakkisabah@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Hakki",
                    family = "Sabah",
                    role = c("aut", "cre"),
                    email = "hakkisabah@hotmail.com")
as necessary.
Maintainer: ‘Antonio Fabio Di Narzo <antonio.fabio@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(family = "Antonio",
                      role = c("aut", "cre"),
                      email = "antonio.fabio@gmail.com"),
               person(given = c("Fabio", "Di"),
                      family = "Narzo",
                      role = "aut"))
as necessary.
Found the following HTML validation problems:
tseriesTARMA.html:627:1 (TARMA.fit.Rd:99): Warning: <script> anchor "MathJax-script" already defined
tseriesTARMA.html:971:1 (TARMA.fit2.Rd:91): Warning: <script> anchor "MathJax-script" already defined
tseriesTARMA.html:1239:1 (TARMA.sim.Rd:64): Warning: <script> anchor "MathJax-script" already defined
tseriesTARMA.html:2430:1 (supLMQur.Rd:26): Warning: <script> anchor "MathJax-script" already defined
Maintainer: ‘Ali Saeb <ali.saeb@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ali",
                    family = "Saeb",
                    role = c("aut", "cre"),
                    email = "ali.saeb@gmail.com")
as necessary.
Maintainer: ‘Francisco Martinez <fmartin@ujaen.es>’

The BugReports field in DESCRIPTION has
  https://github.com/franciscomartinezdelrio/tsfgrnn
which should likely be
  https://github.com/franciscomartinezdelrio/tsfgrnn/issues
instead.
Maintainer: ‘Dr. Ranjit Kumar Paul <ranjitstat@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Sandipan",
                      family = "Samanta",
                      role = "aut"),
               person(given = c("Ranjit", "Kumar"),
                      family = "Paul",
                      role = "aut"),
               person(given = "Dipankar",
                      family = "Mitra",
                      role = "aut"),
               person(given = c("Dr.", "Ranjit", "Kumar"),
                      family = "Paul",
                      role = "cre",
                      email = "ranjitstat@gmail.com"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘benchmark.R’ ‘print.R’
Maintainer: ‘Yao-Hwei Fang <yhfang@nhri.org.tw>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yao-Hwei",
                      family = "Fang",
                      role = c("aut", "cre"),
                      email = "yhfang@nhri.org.tw"),
               person(given = "Jie-Huei",
                      family = "Wang",
                      role = "aut"),
               person(given = c("Chao", "A."),
                      family = "Hsiung",
                      role = "aut"))
as necessary.
Maintainer: ‘Charles J. Geyer <charlie@stat.umn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jun",
                      family = "Sheng",
                      role = "aut"),
               person(given = "Peihua",
                      family = "Qiu",
                      role = "aut",
                      email = "pqiu@ufl.edu"),
               person(given = c("Charles", "J."),
                      family = "Geyer",
                      role = c("aut", "cre"),
                      email = "charlie@stat.umn.edu"))
as necessary.
Maintainer: ‘Eraldo B. dos Anjos Filho <ebdaf1@de.ufpe.br>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Eraldo", "B.", "dos", "Anjos"),
                      family = "Filho",
                      role = c("aut", "cre"),
                      email = "ebdaf1@de.ufpe.br"),
               person(given = c("Aldo", "William", "Medina"),
                      family = "Garay",
                      role = "aut",
                      email = "agaray@de.ufpe.br"))
as necessary.
Maintainer: ‘Roger D. Peng <roger.peng@austin.utexas.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Roger", "D."),
                      family = "Peng",
                      role = c("aut", "cre"),
                      email = "roger.peng@austin.utexas.edu"),
               person(given = c("with", "contributions", "from", "Aidan"),
                      family = "McDermott",
                      role = "aut"))
as necessary.
Maintainer: ‘Justin Donaldson <jdonaldson@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Justin",
                    family = "Donaldson",
                    role = c("aut", "cre"),
                    email = "jdonaldson@gmail.com")
as necessary.
Maintainer: ‘Javier López-de-Lacalle <javlacalle@yahoo.es>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Javier",
                    family = "López-de-Lacalle",
                    role = c("aut", "cre"),
                    email = "javlacalle@yahoo.es")
as necessary.
Maintainer: ‘Jouni Helske <jouni.helske@iki.fi>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jouni",
                    family = "Helske",
                    role = c("aut", "cre"),
                    email = "jouni.helske@iki.fi")
as necessary.
Maintainer: ‘Bernd Bischl <bernd_bischl@gmx.net>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Bernd",
                      family = "Bischl",
                      role = c("aut", "cre"),
                      email = "bernd_bischl@gmx.net"),
               person(given = "Jakob",
                      family = "Bossek",
                      role = "aut",
                      email = "jakob.bossek@tu-dortmund.de"),
               person(given = "Olaf",
                      family = "Mersmann",
                      role = "aut",
                      email = "olafm@p-value.net"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Higor Cotta <cotta.higor@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Higor",
                      family = "Cotta",
                      role = c("aut", "cre"),
                      email = "cotta.higor@gmail.com"),
               person(given = "Valderio",
                      family = "Reisen",
                      role = "aut"),
               person(given = "Pascal",
                      family = "Bondon",
                      role = "aut"),
               person(given = "Céline",
                      family = "Lévy-Leduc",
                      role = "aut"))
as necessary.
Maintainer: ‘Peter Laurinec <tsreprpackage@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) repr_dwt.Rd:28: Lost braces; missing escapes or markup?
    28 | The final representation has length equal to floor(n / 2^{level}), where n is a length of original time series.
       |                                                          ^
Maintainer: ‘Michał Narajewski <michal.narajewski@uni-due.de>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Avi Blinder <aviblinder@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Avi",
                    family = "Blinder",
                    role = c("aut", "cre"),
                    email = "aviblinder@gmail.com")
as necessary.
Maintainer: ‘Arden Burrell <arden.burrell@gmail.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Masami Saga <msaga@mtb.biglobe.ne.jp>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("The", "Institute", "of", "Statistical"),
                      family = "Mathematics",
                      role = "aut"),
               person(given = c("based", "on", "the", "program", "by", "Genshiro"),
                      family = "Kitagawa",
                      role = "aut"),
               person(given = "Masami",
                      family = "Saga",
                      role = "cre",
                      email = "msaga@mtb.biglobe.ne.jp"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘berkowitz.R’ ‘dac.R’ ‘gmm.R’ ‘hongli.R’ ‘minzar.R’ ‘nyblom.R’
    ‘shortfall_de.R’ ‘signbias.R’ ‘var.R’ ‘var_cp.R’
Maintainer: ‘Alberto Lopez Moreno <bertolomo@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Alberto", "Lopez"),
                    family = "Moreno",
                    role = c("aut", "cre"),
                    email = "bertolomo@gmail.com")
as necessary.
Maintainer: ‘Marco Albrecht <marco.albrecht@posteo.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Marco",
                    family = "Albrecht",
                    role = c("aut", "cre"),
                    email = "marco.albrecht@posteo.de")
as necessary.
Maintainer: ‘Antonio Meneses <antoniomenesesfreire@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Antonio",
                      family = "Meneses",
                      role = c("aut", "cre"),
                      email = "antoniomenesesfreire@hotmail.com"),
               person(given = "Salvador",
                      family = "Naya",
                      role = "aut",
                      email = "salva@udc.es"),
               person(given = "Javier",
                      family = "Tarrio-Saavedra",
                      role = "aut",
                      email = "jtarrio@udc.es"))
as necessary.
Maintainer: ‘Carlos A. Martinez <amartin@unal.edu.co>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Carlos", "A.", "Martinez", "based", "on", "the", "work", "of"),
                      family = "Ribeiro",
                      role = c("aut", "cre")),
               person(family = "Rosseti.",
                      comment = "2015"),
               person(given = c("Carlos", "A."),
                      family = "Martinez",
                      role = "cre",
                      email = "amartin@unal.edu.co"))
as necessary.
Maintainer: ‘Thorn Thaler <thorn.thaler@thothal.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Thorn",
                    family = "Thaler",
                    role = c("aut", "cre"),
                    email = "thorn.thaler@thothal.com")
as necessary.
Maintainer: ‘Michael C Sachs <sachsmc@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Michael", "C"),
                    family = "Sachs",
                    role = c("aut", "cre"),
                    email = "sachsmc@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Malformed Description field: should contain one or more complete sentences.
Maintainer: ‘Yuqing Pan <yuqing.pan@stat.fsu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Yuqing",
                      family = "Pan",
                      role = c("aut", "cre"),
                      email = "yuqing.pan@stat.fsu.edu"),
               person(given = "Qing",
                      family = "Mai",
                      role = "aut",
                      email = "mai@stat.fsu.edu"),
               person(given = "Xin",
                      family = "Zhang",
                      role = "aut",
                      email = "henry@stat.fsu.edu"))
as necessary.

The Description field contains
  (2019) <arXiv:1904.03469>. Functions are included for covariate
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Julia Wilkerson <jmwilkers@outlook.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Julia",
                    family = "Wilkerson",
                    role = c("aut", "cre"),
                    email = "jmwilkers@outlook.com")
as necessary.
Maintainer: ‘Hans Kestler <hans.kestler@uni-ulm.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Christoph",
                      family = "Müssel",
                      role = "aut"),
               person(given = "Ludwig",
                      family = "Lausser",
                      role = "aut"),
               person(given = "Hans",
                      family = "Kestler",
                      role = c("aut", "cre"),
                      email = "hans.kestler@uni-ulm.de"))
as necessary.
Maintainer: ‘Emmanuel Lazaridis <emmanuel@lazaridis.eu>’

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘duplicate.Rd’:
    \keyword{duplicate,}
    \keyword{duplicated,}
    \keyword{repeat,}
  File ‘not-in.Rd’:
    \keyword{time,}
  File ‘orphan.Rd’:
    \keyword{orphan,}
  File ‘triplicate.Rd’:
    \keyword{repeat,}
    \keyword{triplicate,}
    \keyword{triplicated,}
  File ‘triplicated.Rd’:
    \keyword{repeat,}
    \keyword{triplicate,}
    \keyword{triplicated,}
  File ‘tuplicate.Rd’:
    \keyword{n-replicate,}
    \keyword{n-replicated,}
    \keyword{repeat,}
    \keyword{repeated,}
  File ‘tuplicated.Rd’:
    \keyword{n-replicate,}
    \keyword{n-replicated,}
    \keyword{repeat,}
    \keyword{repeated,}
Maintainer: ‘Feifei ZHANG<tushare_pro@163.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Feifei",
                    family = "ZHANG",
                    role = c("aut", "cre"),
                    email = "tushare_pro@163.com")
as necessary.
Maintainer: ‘Vincent Landau <vincent@csp-inc.org>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Juan Manuel Truppia <jmtruppia@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Juan", "Manuel"),
                    family = "Truppia",
                    role = c("aut", "cre"),
                    email = "jmtruppia@gmail.com")
as necessary.
Maintainer: ‘Peter K. Dunn <pdunn2@usc.edu.au>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) tweedie-internal.Rd:74: Lost braces
    74 |         doi{10.1093/biomet/74.2.221}
       |            ^
Obsolete C++11 standard request will be ignored
Maintainer: ‘Michael Swanson <dms866@mail.harvard.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Michael",
                    family = "Swanson",
                    role = c("aut", "cre"),
                    email = "dms866@mail.harvard.edu")
as necessary.
Maintainer: ‘Connor Dowd <cd@codowd.com>’

The Description field contains
  that of Anderson-Darling. See the companion paper at <arXiv:2007.01360>
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) twosigmag.Rd:83: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:84: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:85: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:86: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:87: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:88: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:89: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:90: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:91: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:92: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:94: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:95: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twosigmag.Rd:96: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) twoway.Rd:66: Lost braces
    66 | code{\link{twoway.formula}}, code{\link[stats]{medpolish}}
       |     ^
checkRd: (-1) twoway.Rd:66: Lost braces
    66 | code{\link{twoway.formula}}, code{\link[stats]{medpolish}}
       |                                  ^
checkRd: (-1) est_g_exp.Rd:55: Lost braces; missing escapes or markup?
    55 |  {A - delta}, {A + delta}, and {A + 2 * delta}).
       |  ^
checkRd: (-1) est_g_exp.Rd:55: Lost braces; missing escapes or markup?
    55 |  {A - delta}, {A + delta}, and {A + 2 * delta}).
       |               ^
checkRd: (-1) est_g_exp.Rd:55: Lost braces; missing escapes or markup?
    55 |  {A - delta}, {A + delta}, and {A + 2 * delta}).
       |                                ^
Maintainer: ‘Sebastien Thonnard <sebastien.thonnard@icloud.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Sebastien",
                    family = "Thonnard",
                    role = c("aut", "cre"),
                    email = "sebastien.thonnard@icloud.com")
as necessary.
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) cambodia.Rd:47: Lost braces
    47 | (\doi{10.1371/journal.pmed.1000253}{10.1371/journal.pmed.1000253})
       |                                    ^
checkRd: (-1) microdata.Rd:33: Lost braces
    33 | (\doi{10.1371/journal.pmed.1000253}{10.1371/journal.pmed.1000253})
       |                                    ^
checkRd: (-1) u5mr_cohort.Rd:111: Lost braces
   111 | (\doi{10.1371/journal.pmed.1000253}{10.1371/journal.pmed.1000253})
       |                                    ^
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Christophe Zemmour <christophe.zemmour@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Benjamin", "Esterni", "with", "contribution", "from", "Baboukar"),
                      family = "Mane",
                      role = "aut"),
               person(given = "Christophe",
                      family = "Zemmour",
                      role = "cre",
                      email = "christophe.zemmour@gmail.com"))
as necessary.
Maintainer: ‘Mikaela Koutrouli <mikaela.koutrouli@cpr.ku.dk>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Gabriela Cybis <gcybis@gmail.com>’

The Description field contains
  Valk and Gabriela B. Cybis (2021) <arXiv:2106.09115>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Luc Duchateau <Luc.Duchateau@ugent.be>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hans",
                      family = "Laevens",
                      role = "aut"),
               person(given = "Luc",
                      family = "Duchateau",
                      role = c("aut", "cre"),
                      email = "luc.duchateau@ugent.be"),
               person(given = "Klara",
                      family = "Goethals",
                      role = "aut"),
               person(given = "Ewoud",
                      family = "De Troyer",
                      role = "aut"),
               person(given = "Paul",
                      family = "Janssen",
                      role = "aut"))
as necessary.
Maintainer field differs from that derived from Authors@R
  Maintainer: ‘ORPHANED’
  Authors@R:  ‘James Hiebert <hiebert@uvic.ca>’
Maintainer: ‘Paul TERNYNCK <ternynck@lisic.univ-littoral.fr>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘MarelCarnot.Rd’:
    http://doi.org/10.17882/39754
Maintainer: ‘Minna Genbaeck <minna.genback@umu.se>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Minna",
                      family = "Genbaeck,",
                      role = c("aut", "cre")),
               person(given = "Minna",
                      family = "Genbaeck",
                      role = "cre",
                      email = "minna.genback@umu.se"))
as necessary.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    uktrans_get is fixed when start_date is used (#2)
    Extra layer of of NULL returns to fail gracefully with an informative message.
    Removed travis & appveyor and using gh_actions instead.
    Using gh-pages to create the pkgdown website.
    Create an app as vignette page to search with the help of uklr.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘augment_gazetteer.Rd’ ‘locate_event.Rd’
Maintainer: ‘Kaniav Kamary <kamary@ceremade.dauphine.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Kaniav",
                      family = "Kamary",
                      role = c("aut", "cre"),
                      email = "kamary@ceremade.dauphine.fr"),
               person(given = "Kate",
                      family = "Lee",
                      role = "aut"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘readtextgrid.R’
Maintainer: ‘Tomasz Konopka <tokonopka@gmail.com>’

The Description field contains
  (2018) in <arXiv:1802.03426>. This package provides an interface for
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Linus Seelinger <mail@linusseelinger.de>’

The BugReports field in DESCRIPTION has
  https://github.com/um-bridge
which should likely be
  https://github.com/um-bridge/issues
instead.
Maintainer: ‘Charles J. Geyer <charlie@stat.umn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Charles", "J."),
                      family = "Geyer",
                      role = c("aut", "cre"),
                      email = "charlie@stat.umn.edu"),
               person(given = c("Glen", "D."),
                      family = "Meeden",
                      role = "aut",
                      email = "glen@stat.umn.edu"))
as necessary.
Maintainer: ‘Piotr Fryzlewicz <p.fryzlewicz@lse.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Piotr",
                    family = "Fryzlewicz",
                    role = c("aut", "cre"),
                    email = "p.fryzlewicz@lse.ac.uk")
as necessary.
Problems with news in ‘NEWS.md’:
No news entries found.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘annotate_mf.R’ ‘annotate_mf_all.R’
Maintainer: ‘Yunro Chung <yunro.chung@asu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Yunro",
                    family = "Chung",
                    role = c("aut", "cre"),
                    email = "yunro.chung@asu.edu")
as necessary.
Maintainer: ‘Oscar Alberto Quijano Xacur <oscar.quijano@use.startmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Oscar", "Alberto", "Quijano"),
                    family = "Xacur",
                    role = c("aut", "cre"),
                    email = "oscar.quijano@use.startmail.com")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Chia-Wei Hsu <Chia-Wei.Hsu@stjude.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Chia-Wei",
                      family = "Hsu",
                      role = c("aut", "cre"),
                      email = "chia-wei.hsu@stjude.org"),
               person(given = "Haitao",
                      family = "Pan",
                      role = "aut"),
               person(given = "Rongji",
                      family = "Mu",
                      role = "aut"))
as necessary.
Maintainer: ‘Stéphane Laurent <laurent_step@outlook.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Stéphane",
                    family = "Laurent",
                    role = c("aut", "cre"),
                    email = "laurent_step@outlook.fr")
as necessary.
Maintainer: ‘Zhipeng Xu <xzhipeng@umich.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Zhipeng",
                      family = "Xu",
                      role = c("aut", "cre"),
                      email = "xzhipeng@umich.edu"),
               person(given = "Chenkai",
                      family = "Sun",
                      role = "aut",
                      email = "sunchenk@umich.edu"),
               person(given = "Aman",
                      family = "Karunakaran",
                      role = "aut",
                      email = "akarunak@umich.edu"),
               person(given = "Quentin",
                      family = "Stout",
                      role = "aut",
                      email = "qstout@umich.edu"))
as necessary.
checkRd: (-1) reg_1d.Rd:42: Lost braces; missing escapes or markup?
    42 |         \item Metric input is not in {1,2,3}: Metric does not exist
       |                                      ^
checkRd: (-1) reg_2d.Rd:33: Lost braces; missing escapes or markup?
    33 |         \item Metric input is not in {1,2,3}: Metric does not exist
       |                                      ^
Maintainer: ‘Claudia Koellmann <koellmann@statistik.tu-dortmund.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Claudia",
                    family = "Koellmann",
                    role = c("aut", "cre"),
                    email = "koellmann@statistik.tu-dortmund.de")
as necessary.
Maintainer: ‘Takeshi Emura <takeshiemura@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Takeshi",
                      family = "Emura",
                      role = c("aut", "cre"),
                      email = "takeshiemura@gmail.com"),
               person(given = "Wei-Chern",
                      family = "Hsu",
                      role = "aut"))
as necessary.
Maintainer: ‘Jonathan Berrisch <Jonathan@Berrisch.biz>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jonathan",
                    family = "Berrisch",
                    role = c("aut", "cre"),
                    email = "jonathan@berrisch.biz")
as necessary.
checkRd: (-1) simRedCard.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simRedCard.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
Maintainer: ‘David Navarro-Gonzalez <david.navarro@urv.cat>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Pere", "Joan"),
                      family = "Ferrando",
                      role = "aut"),
               person(given = "David",
                      family = "Navarro-Gonzalez",
                      role = c("aut", "cre"),
                      email = "david.navarro@urv.cat"),
               person(given = "Urbano",
                      family = "Lorenzo-Seva",
                      role = "aut"))
as necessary.
Maintainer: ‘Marcello D'Orazio <mdo.statmatch@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Marcello",
                    family = "D'Orazio",
                    role = c("aut", "cre"),
                    email = "mdo.statmatch@gmail.com")
as necessary.
Maintainer: ‘Ran Gao <rgao8@uic.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hakan",
                      family = "Demirtas",
                      role = "aut"),
               person(given = "Rawan",
                      family = "Allozi",
                      role = "aut"),
               person(given = "Ran",
                      family = "Gao",
                      role = c("aut", "cre"),
                      email = "rgao8@uic.edu"))
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘runm.Rd’ ‘unm_summary.R’
Maintainer: ‘Erika S. Helgeson <helge@umn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Erika", "S."),
                      family = "Helgeson",
                      role = c("aut", "cre"),
                      email = "helge@umn.edu"),
               person(given = "David",
                      family = "Vock",
                      role = "aut"),
               person(given = "Eric",
                      family = "Bair",
                      role = "aut"))
as necessary.
checkRd: (-1) UNPaC_Copula.Rd:59: Lost braces; missing escapes or markup?
    59 | \item{\code{selected_features}}: {A vector of integers indicating the features retained by the feature filtering process.}
       |                                  ^
checkRd: (-1) UNPaC_Copula.Rd:60: Lost braces; missing escapes or markup?
    60 | \item{\code{sim_CI}}: {vector containing the cluster indices for each generated unimodal reference distribution}
       |                       ^
checkRd: (-1) UNPaC_Copula.Rd:61-62: Lost braces
    61 | \item{\code{pvalue_emp}}: {the empirical p-value:  the proportion of times the cluster index from the reference
       |                           ^
checkRd: (-1) UNPaC_Copula.Rd:63: Lost braces; missing escapes or markup?
    63 | \item{\code{pvalue_norm}}: {the normalized p-value: the simulated p-value based on comparison to a standard normal distribution }
       |                            ^
checkRd: (-1) UNPaC_num_clust.Rd:58-62: Lost braces
    58 | \item{\code{BestK}}: {A matrix with 1 row and 4 columns named: "Max_CI","Max_CI_wi_1SE","Max_scaled_CI" and "Max_logWCSS_wi_1SE".
       |                      ^
checkRd: (-1) UNPaC_num_clust.Rd:63-65: Lost braces
    63 | \item{\code{full_process}}: {A matrix containing the number of clusters, K, evaluated, the CI from the data, the average CI from the null
       |                             ^
checkRd: (-1) UNPaC_num_clust.Rd:66: Lost braces; missing escapes or markup?
    66 | \item{\code{selected_features}}: {A vector of integers indicating the features retained by the feature filtering process.}}
       |                                  ^
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘available_version.R’
Maintainer: ‘Arne Henningsen <arne.henningsen@gmail.com>’

Found the following (possibly) invalid file URIs:
  URI: geraldine.henningsen@googlemail.com
    From: inst/doc/Manuscript.pdf
  URI: arne@ifro.ku.dk
    From: inst/doc/Manuscript.pdf
Maintainer: ‘Irucka Embry <iembry@ecoccs.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Irucka",
                    family = "Embry",
                    role = c("aut", "cre"),
                    email = "iembry@ecoccs.com")
as necessary.
Maintainer: ‘Frederick Liu <sliu85@u.rochester.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Frederick",
                    family = "Liu",
                    role = c("aut", "cre"),
                    email = "sliu85@u.rochester.edu")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘county_complete.Rd’ ‘fatal_police_shootings.Rd’ ‘gerrymander.Rd’
    ‘pierce_county_house_sales.Rd’ ‘pop_age_2019.Rd’ ‘pop_race_2019.Rd’
    ‘state_stats.Rd’ ‘us_temp.Rd’
Maintainer: ‘Babak Naimi <naimi.b@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Babak",
                    family = "Naimi",
                    role = c("aut", "cre"),
                    email = "naimi.b@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘intersection_powerset.R’ ‘powerset_icounts.Rd’ ‘pr.R’ ‘pr.boot.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘usgas.Rd’
Maintainer: ‘Sinead E. Morris <sinead.morris@columbia.edu>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘John Verzani <verzani@math.csi.cuny.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "John",
                    family = "Verzani",
                    role = c("aut", "cre"),
                    email = "verzani@math.csi.cuny.edu")
as necessary.
checkRd: (-1) aosat.Rd:20: Escaped LaTeX specials: \_ \_ \_
checkRd: (-1) aosat.Rd:21: Escaped LaTeX specials: \_
checkRd: (-1) arctic.oscillations.Rd:19: Escaped LaTeX specials: \_ \_ \_
checkRd: (-1) arctic.oscillations.Rd:20: Escaped LaTeX specials: \_
checkRd: (-1) babies.Rd:28: Escaped LaTeX specials: \&
checkRd: (-1) babies.Rd:41: Escaped LaTeX specials: \$
checkRd: (-1) cabinet.Rd:25: Escaped LaTeX specials: \$
checkRd: (-1) cabinet.Rd:43: Escaped LaTeX specials: \$
checkRd: (-1) cabinet.Rd:48: Escaped LaTeX specials: \$
checkRd: (-1) exec.pay.Rd:5: Escaped LaTeX specials: \$
checkRd: (-1) sp500.excess.Rd:4: Escaped LaTeX specials: \&
checkRd: (-1) sp500.excess.Rd:6: Escaped LaTeX specials: \&
Maintainer: ‘Paula M. Murray <paula.murray@math.mcmaster.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Paula", "M."),
                      family = "Murray",
                      role = c("aut", "cre"),
                      email = "paula.murray@math.mcmaster.ca"),
               person(given = c("Ryan", "P."),
                      family = "Browne",
                      role = "aut"),
               person(given = c("Paul", "D."),
                      family = "McNicholas",
                      role = "aut"))
as necessary.
Maintainer: ‘Thomas B. Berrett <tom.berrett@warwick.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Thomas", "B."),
                      family = "Berrett",
                      role = c("aut", "cre"),
                      email = "tom.berrett@warwick.ac.uk"),
               person(given = "Ioannis",
                      family = "Kontoyiannis",
                      role = "aut",
                      email = "yiannis@maths.cam.ac.uk"),
               person(given = c("Richard", "J."),
                      family = "Samworth",
                      role = "aut",
                      email = "r.samworth@statslab.cam.ac.uk"))
as necessary.

The Description field contains
  <arXiv:2001.05513>, and shown to be minimax rate optimal in a wide
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Snigdhansu Chatterjee <chatt019@umn.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Snigdhansu",
                    family = "Chatterjee",
                    role = c("aut", "cre"),
                    email = "chatt019@umn.edu")
as necessary.
Maintainer: ‘Matt Barry <mrb@softisms.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Matt",
                    family = "Barry",
                    role = c("aut", "cre"),
                    email = "mrb@softisms.com")
as necessary.
Malformed Title field: should not end in a period.
Maintainer: ‘Antonio J. Segura <segura.antonioj@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Antonio", "J."),
                    family = "Segura",
                    role = c("aut", "cre"),
                    email = "segura.antonioj@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘build_model.coxph.Rd’ ‘build_table.coxph.Rd’ ‘build_table.lm.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘cusum_failure.Rd’ ‘cusum_loglike.Rd’ ‘cusum_ome.Rd’ ‘cusum_sprt.Rd’
    ‘paste.R’
Maintainer: ‘Ben Derrick <ben.derrick@uwe.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ben",
                    family = "Derrick",
                    role = c("aut", "cre"),
                    email = "ben.derrick@uwe.ac.uk")
as necessary.
Maintainer: ‘Zhiqiang Tan <ztan@stat.rutgers.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Zhiqiang",
                      family = "Tan",
                      role = c("aut", "cre"),
                      email = "ztan@stat.rutgers.edu"),
               person(given = "Emilio",
                      family = "Gallicchio",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘benchmark_event.R’ ‘benchmark_event.Rd’ ‘benchmark_score.R’
    ‘benchmark_score.Rd’ ‘benchmark_time.R’
    ‘compare_means_between_groups.R’ ‘compare_means_between_groups.Rd’
    ‘compare_means_within_groups.R’ ‘compare_rates_between_groups.R’
    ‘compare_rates_between_groups.Rd’ ‘compare_rates_within_groups.R’
    ‘get_concordant_discordant_pairs.R’
    ‘get_confidence_intervals_within_groups.R’
    ‘table_observed_expected.R’ ‘test_chisq_one.R’ ‘test_chisq_one.Rd’
    ‘test_chisq_two.Rd’ ‘test_fisher.Rd’ ‘test_mcnemar.R’
    ‘test_n_1_prop.R’ ‘test_n_1_prop.Rd’ ‘test_t.R’ ‘test_t_paired.R’
Maintainer: ‘Ron Sielinski <sielinski@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ron",
                    family = "Sielinski",
                    role = c("aut", "cre"),
                    email = "sielinski@hotmail.com")
as necessary.
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Irucka Embry <iembry@ecoccs.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Irucka",
                    family = "Embry",
                    role = c("aut", "cre"),
                    email = "iembry@ecoccs.com")
as necessary.

Found the following (possibly) invalid file URI:
  URI: info@vaers.org
    From: README.md
Maintainer: ‘Irucka Embry <iembry@ecoccs.com>’

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  Authors@R: person(given = "Irucka",
                    family = "Embry",
                    role = c("aut", "cre"),
                    email = "iembry@ecoccs.com")
as necessary.

Found the following (possibly) invalid file URI:
  URI: info@vaers.org
    From: README.md
Maintainer: ‘Bruna Wundervald <brunadaviesw@gmail.com>’

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  Authors@R: person(given = "Bruna",
                    family = "Wundervald",
                    role = c("aut", "cre"),
                    email = "brunadaviesw@gmail.com")
as necessary.
Maintainer: ‘Han Lin Shang <hanlin.shang@anu.edu.au>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘plot_surv.Rd’
Maintainer: ‘Sean Wen <sean.wenwx@gmail.com>’

No Authors@R field in DESCRIPTION.
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  Authors@R: person(given = "Sean",
                    family = "Wen",
                    role = c("aut", "cre"),
                    email = "sean.wenwx@gmail.com")
as necessary.
Maintainer: ‘Christopher Belanger <christopher.a.belanger@gmail.com>’

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  Authors@R: person(given = "Christopher",
                    family = "Belanger",
                    role = c("aut", "cre"),
                    email = "christopher.a.belanger@gmail.com")
as necessary.
Maintainer: ‘Greer B. Humphrey <greer.humphrey@student.adelaide.edu.au>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘ar9.Rd’:
    http://dx.doi.org/10.1016/S0022-1694(00)00346-2
  File ‘validann.Rd’:
    http://dx.doi.org/10.1016/j.envsoft.2006.06.008
    http://dx.doi.org/10.1016/j.ecolmodel.2004.03.013
    http://dx.doi.org/10.1016/S0304-3800(02)00257-0
    http://dx.doi.org/10.1109/ijcnn.2006.247166
    http://dx.doi.org/10.5194/hess-17-2827-2013
Found the following files/directories:
  ‘PredValidationPlots.pdf’ ‘RepStructValidationPlots.pdf’
checkRd: (-1) sendTasks.Rd:41: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sendTasks.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
Maintainer: ‘Benjamin Hivert <benjamin.hivert@u-bordeaux.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Benjamin",
                    family = "Hivert",
                    role = c("aut", "cre"),
                    email = "benjamin.hivert@u-bordeaux.fr")
as necessary.

The Description field contains
  practical considerations", <arXiv:2210.13172>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Clay Ford <joe.clayton.ford@gmail.com>’

The Description field contains
  were downloaded from https://www.valottery.com/.
Please enclose URLs in angle brackets (<...>).
Maintainer: ‘H. Robert Frost <rob.frost@dartmouth.edu>’

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  Authors@R: person(given = c("H.", "Robert"),
                    family = "Frost",
                    role = c("aut", "cre"),
                    email = "rob.frost@dartmouth.edu")
as necessary.
Maintainer: ‘Jens von Bergmann <jens@mountainmath.ca>’

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  Authors@R: person(given = "Jens",
                    family = "von Bergmann",
                    role = c("aut", "cre"),
                    email = "jens@mountainmath.ca")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘datasets.R’
Maintainer: ‘Guo Yu <gy63@cornell.edu>’

The Description field contains
  Bien (2016) and is available at <https://arxiv.org/abs/1604.07451>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) sample_gen.Rd:18: Lost braces; missing escapes or markup?
    18 | Generate \code{n} random samples from multivariate Gaussian distribution N(0, (L^TL)^{-1})
       |                                                                                      ^
Maintainer: ‘Daniel Safai <danielsafai@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Daniel",
                    family = "Safai",
                    role = c("aut", "cre"),
                    email = "danielsafai@gmail.com")
as necessary.
Maintainer: ‘Piotr Sobczyk <pj.sobczyk@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Piotr",
                      family = "Sobczyk",
                      role = c("aut", "cre"),
                      email = "pj.sobczyk@gmail.com"),
               person(given = "Stanislaw",
                      family = "Wilczynski",
                      role = "aut"),
               person(given = "Julie",
                      family = "Josse",
                      role = "aut"),
               person(given = "Malgorzata",
                      family = "Bogdan",
                      role = "aut"))
as necessary.
Maintainer: ‘Martins Liberts <martins.liberts@csb.gov.lv>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘lingini2.Rd’:
    http://dx.doi.org/10.1007/BF03263549
  File ‘varpoord.Rd’:
    http://dx.doi.org/10.1007/BF03263549
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) vardannual.Rd:97: Lost braces
    97 | \item{ID_level2}{Optional}{variable for unit ID codes. One dimensional object convertible to one-column \code{data.table} or variable name as character, column number.}
       |                           ^
checkRd: (-1) vardannual.Rd:99: Lost braces
    99 | \item{dataset}{Optional}{survey data object convertible to \code{data.table}.}
       |                         ^
checkRd: (-1) vardcrospoor.Rd:122: Lost braces
   122 | \item{ind_gr}{Optional}{variable by which divided independently X matrix of the auxiliary variables for the calibration. One dimensional object convertible to one-column \code{data.table} or variable name as character, column number.}
       |                        ^
checkRd: (-1) vardcrospoor.Rd:124: Lost braces
   124 | \item{use.estVar}{Logical}{value. If value is \code{TRUE}, then \code{R} function \code{estVar} is used for the  estimation of covariance matrix of the residuals. If value is \code{FALSE}, then \code{R} function \code{estVar} is not used for the estimation of covariance matrix of the residuals.}
       |                           ^
checkRd: (-1) vardom_othstr.Rd:69: Lost braces
    69 | \item{percentratio}{Positive}{numeric value. All linearized variables are multiplied with \code{percentratio} value, by default - 1.}
       |                              ^
checkRd: (-1) varpoord.Rd:121: Lost braces
   121 | \item{month_at_work}{Variable}{for total number of month at work (sum of the number of months spent at full-time work as employee, number of months spent at part-time work as employee, number of months spent at full-time work as self-employed (including family worker), number of months spent at part-time work as self-employed (including family worker)).  One dimensional object convertible to one-column \code{data.table} or variable name as character, column number.}
       |                               ^
Running examples in ‘vardpoor-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: vardannual
> ### Title: Variance estimation for measures of annual net change or annual
> ###   for single and multistage stage cluster sampling designs
> ### Aliases: vardannual
> ### Keywords: vardannual
> 
> ### ** Examples
> 
>  
> ### Example
> library("data.table")

Attaching package: ‘data.table’

The following object is masked from ‘package:base’:

    %notin%

> 
> set.seed(1)
> 
> data("eusilc", package = "laeken")
> eusilc1 <- eusilc[1:20, ]
> rm(eusilc)
> 
> dataset1 <- data.table(rbind(eusilc1, eusilc1),
+                        year = c(rep(2010, nrow(eusilc1)),
+                                 rep(2011, nrow(eusilc1))))
> rm(eusilc1)
> 
> dataset1[, country := "AT"]
> dataset1[, half := .I - 2 * trunc((.I - 1) / 2)]
> dataset1[, quarter := .I - 4 * trunc((.I - 1) / 4)]
> dataset1[age < 0, age := 0]
> 
> PSU <- dataset1[, .N, keyby = "db030"][, N := NULL][]
> PSU[, PSU := trunc(runif(.N, 0, 5))]
> 
> dataset1 <- merge(dataset1, PSU, all = TRUE, by = "db030")
> rm(PSU)
> 
> dataset1[, strata := "XXXX"]
> dataset1[, employed := trunc(runif(.N, 0, 2))]
> dataset1[, unemployed := trunc(runif(.N, 0, 2))]
> dataset1[, labour_force := employed + unemployed]
> dataset1[, id_lv2 := paste0("V", .I)]
> 
> vardannual(Y = "employed", H = "strata",
+            PSU = "PSU", w_final = "rb050",
+            ID_level1 = "db030", ID_level2 = "id_lv2",
+            Dom = NULL, Z = NULL, years = "year",
+            subperiods = "half", dataset = dataset1,
+            percentratio = 100, confidence = 0.95,
+            method = "cros")
Error in t(X) %*% A_matrix : non-conformable arguments
Calls: vardannual -> lapply -> FUN -> data.table
Execution halted
Maintainer: ‘Wenlin Dai <wenlin.dai@kaust.edu.sa>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Wenlin",
                      family = "Dai",
                      role = c("aut", "cre"),
                      email = "wenlin.dai@kaust.edu.sa"),
               person(given = "Tiejun",
                      family = "Tong.",
                      role = "aut",
                      email = "tongt@hkbu.edu.sa"))
as necessary.
checkRd: (-1) betaburr.Rd:7: Lost braces
     7 | \description{Computes the pdf, cdf, value at risk and expected shortfall for the beta Burr distribution due to Parana\'{i}ba et al. (2011) given by
       |                                                                                                                        ^
checkRd: (-1) betafrechet.Rd:7: Lost braces
     7 | \description{Computes the pdf, cdf, value at risk and expected shortfall for the beta Fr\'{e}chet distribution due to Barreto-Souza et al. (2011) given by
       |                                                                                           ^
checkRd: (-1) frechet.Rd:7: Lost braces
     7 | \description{Computes the pdf, cdf, value at risk and expected shortfall for the Fr\'{e}chet distribution due to Fr\'{e}chet (1927) given by
       |                                                                                      ^
checkRd: (-1) frechet.Rd:7: Lost braces
     7 | \description{Computes the pdf, cdf, value at risk and expected shortfall for the Fr\'{e}chet distribution due to Fr\'{e}chet (1927) given by
       |                                                                                                                      ^
checkRd: (-1) kumburr7.Rd:7: Lost braces
     7 | \description{Computes the pdf, cdf, value at risk and expected shortfall for the Kumaraswamy Burr XII distribution due to Parana\'{i}ba et al. (2013) given by
       |                                                                                                                                   ^
Maintainer: ‘Sayanti Guha Majumdar <sayanti23gm@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Sayanti", "Guha"),
                      family = "Majumdar",
                      role = c("aut", "cre"),
                      email = "sayanti23gm@gmail.com"),
               person(given = "Anil",
                      family = "Rai",
                      role = "aut"),
               person(given = c("Dwijesh", "Chandra"),
                      family = "Mishra",
                      role = "aut"))
as necessary.
Maintainer: ‘Jae H. Kim <jaekim8080@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Jae.", "H."),
                      family = "Kim",
                      role = "aut"),
               person(given = c("Jae", "H."),
                      family = "Kim",
                      role = "cre",
                      email = "jaekim8080@gmail.com"))
as necessary.
checkRd: (-1) simulateDCSIS.Rd:40: Lost braces
    40 |        Y = 6*X1 + 1.5*X2  + 9*1{X12 < 0} + exp(2*X22)*e
       |                                ^
checkRd: (-1) simulateDCSIS.Rd:42: Lost braces
    42 |        Y = 6*X1 + 1.5*X2  + 9*1{X12 < 0} + 6*X22 + e
       |                                ^
Maintainer: ‘David Scott <d.scott@auckland.ac.nz>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "David",
                      family = "Scott",
                      role = c("aut", "cre"),
                      email = "d.scott@auckland.ac.nz"),
               person(given = c("Christine", "Yang"),
                      family = "Dong",
                      role = "aut",
                      email = "c.dong@auckland.ac.nz"))
as necessary.
Maintainer: ‘Joshua F. Wiley <josh@elkhartgroup.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Joshua", "F."),
                      family = "Wiley",
                      role = c("aut", "cre"),
                      email = "josh@elkhartgroup.com"),
               person(given = c("Elkhart", "Group"),
                      family = "Limited",
                      role = "cph"))
as necessary.
Maintainer: ‘Craig Wang <craig.wang@math.uzh.ch>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) get.miniseq.sample.files.Rd:15: Lost braces
    15 | \item{file.suffix}{Regex expression for end of file name. For example, `file.suffix = '_S\\d{1,2}_.*_R1_.*'` will match R1 files.1 files.}
       |                                                                                             ^
Maintainer: ‘Michele Dalponte <michele.dalponte@fmach.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Michele",
                      family = "Dalponte",
                      role = c("aut", "cre"),
                      email = "michele.dalponte@fmach.it"),
               person(given = c("Hans", "Ole"),
                      family = "Oerka",
                      role = "aut"))
as necessary.
Maintainer: ‘Ramon Diaz-Uriarte <rdiaz02@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ramon",
                    family = "Diaz-Uriarte",
                    role = c("aut", "cre"),
                    email = "rdiaz02@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) randomVarImpsRFplot.Rd:97: Escaped LaTeX specials: \&
checkRd: (-1) varSelImpSpecRF.Rd:83: Escaped LaTeX specials: \&
checkRd: (-1) Acoef_sh.Rd:23: Lost braces; missing escapes or markup?
    23 | The function returns the K-by-K matrices {A_1, ..., A_p} as a list object.
       |                                          ^
checkRd: (-1) VARshrink.Rd:58: Lost braces; missing escapes or markup?
    58 | Consider VAR(p) model: y_t = A_1 y_{t-1} + ... + A_p y_{t-p} + C d_t + e_t,
       |                                    ^
checkRd: (-1) VARshrink.Rd:58: Lost braces; missing escapes or markup?
    58 | Consider VAR(p) model: y_t = A_1 y_{t-1} + ... + A_p y_{t-p} + C d_t + e_t,
       |                                                        ^
Maintainer: ‘WenSui Liu <liuwensui@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "WenSui",
                    family = "Liu",
                    role = c("aut", "cre"),
                    email = "liuwensui@gmail.com")
as necessary.
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Jiehuan Sun <jiehuan.sun@gmail.com>’

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Please add one, modifying
  Authors@R: person(given = "Jiehuan",
                    family = "Sun",
                    role = c("aut", "cre"),
                    email = "jiehuan.sun@gmail.com")
as necessary.
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘CXX’ was ignored
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/VBJM.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-15 (Debian 15.2.0-12) 15.2.0’
Maintainer: ‘Michael Salter-Townshend <mike.saltertownshend@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Michael",
                    family = "Salter-Townshend",
                    role = c("aut", "cre"),
                    email = "mike.saltertownshend@gmail.com")
as necessary.
Maintainer: ‘Bo (Yu-Chien) Ning <bo.ning@upmc.fr>’

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  Authors@R: c(person(given = "Bo",
                      family = "Ning",
                      role = "aut",
                      comment = "Yu-Chien"),
               person(given = "Bo",
                      family = "Ning",
                      role = "cre",
                      email = "bo.ning@upmc.fr",
                      comment = "Yu-Chien"))
as necessary.

The Description field contains
  proposed by Ning (2020) <arXiv:2102.00305>. There are two algorithms:
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) decomposition.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) decomposition.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) decomposition.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) estimation.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) estimation.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) estimation.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) moving.decomposition.Rd:27-28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) moving.decomposition.Rd:28: Lost braces
    28 | \item{W2}{nxn matrix of weights. Season is estimated as W2 \%}\% y, if y is the data vector}
       |      ^
checkRd: (-1) moving.decomposition.Rd:28: Lost braces
    28 | \item{W2}{nxn matrix of weights. Season is estimated as W2 \%}\% y, if y is the data vector}
       |          ^
checkRd: (-1) moving.estimation.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) moving.estimation.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) moving.estimation.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
Maintainer: ‘Michael Chirico <MichaelChirico4@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Michael",
                    family = "Chirico",
                    role = c("aut", "cre"),
                    email = "michaelchirico4@gmail.com")
as necessary.
File ‘vctrs/libs/vctrs.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘BODY’, ‘CLOENV’, ‘ENCLOS’,
    ‘EXTPTR_PROT’, ‘EXTPTR_TAG’, ‘FORMALS’, ‘FRAME’, ‘HASHTAB’,
    ‘IS_S4_OBJECT’, ‘LEVELS’, ‘OBJECT’, ‘PRENV’, ‘PRVALUE’,
    ‘R_PromiseExpr’, ‘Rf_allocSExp’, ‘Rf_findVarInFrame3’, ‘SETLENGTH’,
    ‘SET_ATTRIB’, ‘SET_BODY’, ‘SET_CLOENV’, ‘SET_ENCLOS’,
    ‘SET_FORMALS’, ‘SET_GROWABLE_BIT’, ‘SET_OBJECT’, ‘SET_S4_OBJECT’,
    ‘SET_TRUELENGTH’, ‘STDVEC_DATAPTR’, ‘STRING_PTR’, ‘TRUELENGTH’,
    ‘UNSET_S4_OBJECT’
These entry points may be removed soon:
‘SET_ENCLOS’, ‘STDVEC_DATAPTR’, ‘SET_S4_OBJECT’, ‘UNSET_S4_OBJECT’, ‘EXTPTR_PROT’, ‘EXTPTR_TAG’, ‘FRAME’, ‘HASHTAB’, ‘IS_S4_OBJECT’, ‘BODY’, ‘FORMALS’, ‘CLOENV’, ‘ENCLOS’, ‘OBJECT’, ‘SET_FORMALS’, ‘SET_BODY’, ‘SET_CLOENV’, ‘STRING_PTR’, ‘LEVELS’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Maintainer: ‘Anne Le Maitre <anne.le.maitre@univie.ac.at>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘Tropheus.IK.coord.Rd’:
    https://doi.org/10.1038/hdy.2013.78
    https://doi.org/10.5061/dryad.fc02f
  File ‘Tropheus.Rd’:
    https://doi.org/10.5061/dryad.fc02f
    https://doi.org/10.1038/hdy.2013.78
  File ‘relative.eigen.Rd’:
    https://doi.org/10.1007/s11692-013-9260-5
Maintainer: ‘Cody Moore <Jumper9400@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Cody",
                    family = "Moore",
                    role = c("aut", "cre"),
                    email = "jumper9400@gmail.com")
as necessary.
Maintainer: ‘Solveig Pospiech <s.pospiech@hzdr.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Solveig",
                    family = "Pospiech",
                    role = c("aut", "cre"),
                    email = "s.pospiech@hzdr.de")
as necessary.
Obsolete C++11 standard request will be ignored
Maintainer: ‘Alexander Yermanos <ayermanos@gmail.com>’

No Authors@R field in DESCRIPTION.
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  Authors@R: person(given = "Alexander",
                    family = "Yermanos",
                    role = c("aut", "cre"),
                    email = "ayermanos@gmail.com")
as necessary.
Maintainer: ‘Lu Tian <lutian@stanford.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Ramon",
                      family = "Durazo-Arvizu",
                      role = "aut"),
               person(given = "Chris",
                      family = "Sempos",
                      role = "aut"),
               person(given = "Lu",
                      family = "Tian",
                      role = c("aut", "cre"),
                      email = "lutian@stanford.edu"))
as necessary.
Maintainer: ‘Tunc Oygur <info@tuncoygur.com.tr>’

No Authors@R field in DESCRIPTION.
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  Authors@R: c(person(given = "Tunc",
                      family = "Oygur",
                      role = c("aut", "cre"),
                      email = "info@tuncoygur.com.tr"),
               person(given = "Gazanfer",
                      family = "Unal",
                      role = "aut"),
               person(given = c("Tarik", "C."),
                      family = "Gouhier",
                      role = "ctb"),
               person(given = "Aslak",
                      family = "Grinsted",
                      role = "ctb"),
               person(given = "Viliam",
                      family = "Simko",
                      role = "ctb"))
as necessary.
Maintainer: ‘Bob Rudis <bob@rudis.net>’

Found the following (possibly) invalid file URI:
  URI: CONDUCT.md
    From: README.md
Maintainer: ‘Robert Nuske <robert.nuske@mailbox.org>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Andrew A Zaffos <azaffos@email.arizona.edu>’

No Authors@R field in DESCRIPTION.
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  Authors@R: c(person(given = c("Andrew", "A."),
                      family = "Zaffos",
                      role = "aut"),
               person(given = c("Andrew", "A"),
                      family = "Zaffos",
                      role = "cre",
                      email = "azaffos@email.arizona.edu"))
as necessary.
checkRd: (-1) additiveBeta.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) additiveBeta.Rd:41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) additiveBeta.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) additiveBeta.Rd:44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) additiveBeta.Rd:45: Lost braces in \itemize; meant \describe ?
checkRd: (-1) additiveBeta.Rd:47: Lost braces in \itemize; meant \describe ?
checkRd: (-1) downloadPBDB.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) downloadPBDB.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) downloadPBDB.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) downloadPBDB.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) downloadPBDB.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) downloadPBDB.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) downloadPBDB.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) downloadPBDB.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) multiplicativeBeta.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) multiplicativeBeta.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) multiplicativeBeta.Rd:33: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Paul Boutros <pboutros@mednet.ucla.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hanbo",
                      family = "Chen",
                      role = "aut"),
               person(given = "Paul",
                      family = "Boutros",
                      role = "cre",
                      email = "pboutros@mednet.ucla.edu"))
as necessary.
Running ‘test-all.R’ [4s/6s]
Running the tests in ‘tests/test-all.R’ failed.
Complete output:
  > library(testthat);
  > library(VennDiagram);
  Loading required package: grid
  Loading required package: futile.logger
  > test_check('VennDiagram');#This should only be used in /tests/test-all.R, and is run by R CMD check
  Saving _problems/test-Log-17.R
  [ FAIL 1 | WARN 0 | SKIP 1 | PASS 391 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1):
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-Log.R:17:9'): Disabled log file export ───────────────────────
  Expected `nchar(disabled.output)` > 0.
  Actual comparison: 0.0 <= 0.0
  Difference: 0.0 <= 0
  
  [ FAIL 1 | WARN 0 | SKIP 1 | PASS 391 ]
  Error:
  ! Test failures.
  Execution halted
Maintainer: ‘Simon Urbanek <simon.urbanek@r-project.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Lee",
                      family = "Wilkinson",
                      role = "aut",
                      email = "leland.wilkinson@gmail.com"),
               person(given = "Simon",
                      family = "Urbanek",
                      role = "cre",
                      email = "simon.urbanek@r-project.org"))
as necessary.
Maintainer: ‘Conor Neilson <condwanaland@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Conor",
                    family = "Neilson",
                    role = c("aut", "cre"),
                    email = "condwanaland@gmail.com")
as necessary.
Maintainer: ‘Nick Golding <nick.golding.research@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Nick",
                    family = "Golding",
                    role = c("aut", "cre"),
                    email = "nick.golding.research@gmail.com")
as necessary.
Maintainer: ‘Rishabh Singh<rishabhsinghrsg@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Rishabh",
                    family = "Singh",
                    role = c("aut", "cre"),
                    email = "rishabhsinghrsg@gmail.com")
as necessary.
Maintainer: ‘Javier Leiva Cuadrado <jleivacuadrado@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Javier", "Leiva"),
                    family = "Cuadrado",
                    role = c("aut", "cre"),
                    email = "jleivacuadrado@gmail.com")
as necessary.
checkRd: (-1) ex121.Rd:18: Escaped LaTeX specials: \&
checkRd: (-1) ex124.Rd:18: Escaped LaTeX specials: \&
checkRd: (-1) ex125.Rd:18: Escaped LaTeX specials: \&
checkRd: (-1) ex127.Rd:18: Escaped LaTeX specials: \&
checkRd: (-1) ex32.Rd:18: Escaped LaTeX specials: \&
checkRd: (-1) ex33.Rd:18: Escaped LaTeX specials: \&
File ‘vetr/libs/vetr.so’:
  Found non-API call to R: ‘ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Maintainer: ‘Dian Li <lidian@zju.edu.cn>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Tobias",
                      family = "Elze",
                      role = "aut"),
               person(given = "Dian",
                      family = "Li",
                      role = c("aut", "cre"),
                      email = "lidian@zju.edu.cn",
                      comment = "documentation"),
               person(given = c("Eun", "Young"),
                      family = "Choi",
                      role = "aut",
                      comment = "QC"))
as necessary.
Maintainer: ‘Sarah Goslee <Sarah.Goslee@ars.usda.gov>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Adam T. Kocsis <adam.t.kocsis@gmail.com>’

The BugReports field in DESCRIPTION has
  https://github.com/adamkocsis/via
which should likely be
  https://github.com/adamkocsis/via/issues
instead.
checkRd: (-1) VirtualArray-single-bracket-method.Rd:6: Lost braces
     6 | \title{Indexing to extract subsets of a 'code{\link[via:XArray-class]{VirtualArray}}'-class object}
       |                                              ^
checkRd: (-1) subset.Rd:20: Lost braces
    20 | \item{drop}{\code{logical} in case the result of subsetting is a single element, should the \\code{\link[via:XArray-class]{VirtualArray}} wrapper be dropped?}
       |                                                                                                   ^
Package required but not available: ‘R2BayesX’

Package suggested but not available for checking: ‘INLA’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) vic_param.Rd:311: Lost braces
   311 | albedo must be supplied in code{forcing_veg}. Default = 1.}
       |                                ^
checkRd: (-1) vic_param.Rd:323: Lost braces
   323 | supplied in code{forcing_veg}. Default = 1.}
       |                 ^
checkRd: (-1) vic_param.Rd:341: Lost braces
   341 | be supplied in code{forcing_veg} Default = 0.}
       |                    ^
checkRd: (-1) vietnamcode.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vietnamcode_data.Rd:16: Lost braces in \itemize; meant \describe ?
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘functions_upload.R’ ‘mod_hidecan.R’
Maintainer: ‘Joseph de Vilmarest <joseph.de-vilmarest@vikingconseil.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Joseph",
                    family = "de Vilmarest",
                    role = c("aut", "cre"),
                    email = "joseph.de-vilmarest@vikingconseil.fr",
                    comment = c(ORCID = "0000-0002-0634-8484"))
as necessary.
Maintainer: ‘Zhicheng Du <dgdzc@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Zhicheng",
                    family = "Du",
                    role = c("aut", "cre"),
                    email = "dgdzc@hotmail.com")
as necessary.
Maintainer: ‘Jefferson Paril <jeffersonparil@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Jefferson",
                    family = "Paril",
                    role = c("aut", "cre"),
                    email = "jeffersonparil@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Scott Sherrill-Mix <ssm@msu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Scott",
                      family = "Sherrill-Mix",
                      role = c("aut", "cre"),
                      email = "ssm@msu.edu"),
               person(given = "Erik",
                      family = "Clarke",
                      role = "aut"))
as necessary.
checkRd: (-1) viridis.map.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) viridis.map.Rd:13-14: Lost braces in \itemize; meant \describe ?
Running examples in ‘visaOTR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: visa.est
> ### Title: Valid Improved Sparsity A-Learning for Optimal Treatment
> ###   Decision
> ### Aliases: visa.est
> 
> ### ** Examples
> 
> data(visa_SimuData)
> y = visa_SimuData$y
> a = visa_SimuData$a
> x = visa_SimuData$x
> # estimation
> result <- visa.est(y, x, a, IC = "BIC", lambda.list = c(0.1, 0.5))
Warning in throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized),  :
  Passed unrecognized parameters: verbose. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '",  :
  Parameter 'data' has been renamed to 'x'. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized),  :
  Passed unrecognized parameters: verbose. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '",  :
  Parameter 'data' has been renamed to 'x'. This warning will become an error in a future version.
Warning in parallel::mclapply(seq(no_rep), wt_calc) :
  all scheduled cores encountered errors in user code
Error in FUN(x, aperm(array(STATS, dims[perm]), order(perm)), ...) : 
  non-numeric argument to binary operator
Calls: visa.est -> visa.weight -> sweep
Execution halted
checkRd: (-1) compdesc.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) compdesc.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) ViSiElse.Rd:101-107: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:102: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:103: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:104: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:105-106: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:108-127: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:112-113: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:114-115: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:116: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:128-134: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:135-147: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:148-157: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:152-153: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSiElse.Rd:154-155: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSibook-class.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSibook-class.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSibook-class.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ViSibook-class.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) dim-ViSibook-methods.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) dim-ViSibook-methods.Rd:17-18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summary-ViSigrid-methods.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) summary-ViSigrid-methods.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
Maintainer: ‘Marcelo Ponce <m.ponce@utoronto.ca>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Marcelo",
                    family = "Ponce",
                    role = c("aut", "cre"),
                    email = "m.ponce@utoronto.ca")
as necessary.
Maintainer: ‘David J. Sharrow <dsharrow@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Gregor",
                      family = "Passolt",
                      role = "aut"),
               person(given = c("James", "J."),
                      family = "Anderson",
                      role = "aut"),
               person(given = "Ting",
                      family = "Li",
                      role = "aut"),
               person(given = c("David", "H."),
                      family = "Salinger",
                      role = "aut"),
               person(given = c("David", "J."),
                      family = "Sharrow",
                      role = c("aut", "cre"),
                      email = "dsharrow@uw.edu"))
as necessary.
checkRd: (-1) getTurnType.Rd:38: Lost braces; missing escapes or markup?
    38 | Return one of {Vocalisation, GrpVocalisation, ...} or identifier.
       |               ^
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Carlo Pacioni <C.Pacioni@Murdoch.edu.au>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘campbell.Rd’:
    https://dx.doi.org/10.1080/14486563.2015.1028486
  File ‘pac.clas.Nadults.Rd’:
    https://doi.org/10.1071/PC17002
  File ‘pac.clas.Ne.Rd’:
    https://doi.org/10.1071/PC17002
  File ‘pac.clas.Rd’:
    https://doi.org/10.1071/PC17002
  File ‘pac.clas.lookup.Rd’:
    https://doi.org/10.1071/PC17002
  File ‘pac.clas.pairw.Rd’:
    https://doi.org/10.1071/PC17002
  File ‘pac.lhs.Rd’:
    https://doi.org/10.1071/PC17002
  File ‘pac.run.lhs.Rd’:
    https://doi.org/10.1071/PC17002
  File ‘pac.yr.Rd’:
    https://doi.org/10.1071/PC17002
  File ‘pacioni.Rd’:
    https://doi.org/10.1071/PC17002
  File ‘sta.evy5.Rd’:
    https://dx.doi.org/10.1080/14486563.2015.1028486
  File ‘sta.evy5.b11.Rd’:
    https://dx.doi.org/10.1080/14486563.2015.1028486
  File ‘sta.main.Rd’:
    https://dx.doi.org/10.1080/14486563.2015.1028486
  File ‘vortexRdata.Rd’:
    https://dx.doi.org/10.1080/14486563.2015.1028486
    https://doi.org/10.1071/PC17002
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    vortexRdata pre-1.0.3
Maintainer: ‘Bryan Gertzel <bryan.gertzel@anu.edu.au>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Bryan",
                      family = "Gertzel",
                      role = c("aut", "cre"),
                      email = "bryan.gertzel@anu.edu.au"),
               person(given = "Robert",
                      family = "Ackland",
                      role = "aut"))
as necessary.
Maintainer: ‘Pavel V. Moskalev <moskalefff@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Pavel", "V."),
                    family = "Moskalev",
                    role = c("aut", "cre"),
                    email = "moskalefff@gmail.com")
as necessary.
Maintainer: ‘Michael Gampmayer <michael.gampmayer@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Michael",
                    family = "Gampmayer",
                    role = c("aut", "cre"),
                    email = "michael.gampmayer@gmail.com")
as necessary.
Maintainer: ‘Tyler Kendall <tsk@uoregon.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Tyler",
                      family = "Kendall",
                      role = c("aut", "cre"),
                      email = "tsk@uoregon.edu"),
               person(given = c("Erik", "R."),
                      family = "Thomas",
                      role = "aut"))
as necessary.
checkRd: (-1) compute.means.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) norm.wattfabricius.Rd:5: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Ron Keizer <ronkeizer@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ron",
                    family = "Keizer",
                    role = c("aut", "cre"),
                    email = "ronkeizer@gmail.com")
as necessary.
File ‘vroom/libs/vroom.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘SETLENGTH’, ‘SET_TRUELENGTH’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Maintainer: ‘Jae H. Kim <jaekim8080@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Jae", "H."),
                    family = "Kim",
                    role = c("aut", "cre"),
                    email = "jaekim8080@gmail.com")
as necessary.
Maintainer: ‘Philippe Regnault <philipperegnault@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Justine",
                      family = "Lequesne",
                      role = "aut"),
               person(given = "Philippe",
                      family = "Regnault",
                      role = c("aut", "cre"),
                      email = "philipperegnault@hotmail.com"))
as necessary.
Maintainer: ‘Karolina Klockmann <karolina.klockmann@gmx.de>’

The Description field contains
  (Klockmann, Krivobokova; 2023), <arXiv:2303.10018>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) Data-Examples.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data-Examples.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data-Examples.Rd:41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Data-Examples.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Data-Examples.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Data-Examples.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Data.trafo.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Data.trafo.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Data.trafo.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Toep.estimator.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Toep.estimator.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Toep.estimator.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Toep.estimator.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aquaporin.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vsts_create_release.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) vsts_create_release.Rd:34: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Kartikeya Bolar <kartikeya.bolar@tapmi.edu.in>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Kartikeya",
                    family = "Bolar",
                    role = c("aut", "cre"),
                    email = "kartikeya.bolar@tapmi.edu.in")
as necessary.
Maintainer: ‘Andreas Schulz <ades-s@web.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Andreas",
                      family = "Schulz",
                      role = "cre",
                      email = "ades-s@web.de"),
               person(family = "PhD",
                      role = c("aut", "cre")))
as necessary.
Maintainer: ‘Csaba Farago <farago@inf.u-szeged.hu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Csaba",
                    family = "Farago",
                    role = c("aut", "cre"),
                    email = "farago@inf.u-szeged.hu")
as necessary.
Maintainer: ‘Ronan Trépos <ronan.trepos@inrae.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Denis",
                      family = "Allard",
                      role = c("aut", "cre")),
               person(given = "Ronan",
                      family = "Trépos",
                      role = c("aut", "cre"),
                      email = "ronan.trepos@inrae.fr"))
as necessary.
checkRd: (-1) WACS.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACS.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) WACSreadAgroclim.Rd:15: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) WACSreadAgroclim.Rd:16-17: Lost braces in \itemize; \value handles \item{}{} directly
Maintainer: ‘Tyler Rinker <tyler.rinker@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘John Whalen <whalenjf@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "John",
                    family = "Whalen",
                    role = c("aut", "cre"),
                    email = "whalenjf@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘walkscore.R’
Maintainer: ‘Paul F. Blanche <paulfblanche@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Paul", "F"),
                      family = "Blanche",
                      role = "aut",
                      email = "paulfblanche@gmail.com"),
               person(given = c("Thomas", "A."),
                      family = "Gerds",
                      role = "aut",
                      email = "tag@biostat.ku.dk"),
               person(given = c("Paul", "F."),
                      family = "Blanche",
                      role = "cre",
                      email = "paulfblanche@gmail.com"))
as necessary.
Maintainer: ‘Jonathon Love <jon@thon.cc>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jonathon",
                      family = "Love",
                      role = c("aut", "cre"),
                      email = "jon@thon.cc"),
               person(given = "Patrick",
                      family = "Mair",
                      role = "aut"))
as necessary.
Maintainer: ‘Harvinder Singh <harvindermaan4@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Harvinder",
                    family = "Singh",
                    role = c("aut", "cre"),
                    email = "harvindermaan4@gmail.com")
as necessary.
Maintainer: ‘Lu Mao <lmao@biostat.wisc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Lu",
                    family = "Mao",
                    role = c("aut", "cre"),
                    email = "lmao@biostat.wisc.edu")
as necessary.
Maintainer: ‘Emilie Devijver <emilie.devijver@kuleuven.be>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Emilie",
                      family = "Devijver",
                      role = c("aut", "cre"),
                      email = "emilie.devijver@kuleuven.be"),
               person(given = "Gerda",
                      family = "Claeskens",
                      role = "aut"),
               person(given = "Irene",
                      family = "Gijbels",
                      role = "aut"))
as necessary.
File ‘warp/libs/warp.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘SET_ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Maintainer: ‘Andrea Venturini <andrea.venturini@bancaditalia.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Andrea",
                    family = "Venturini",
                    role = c("aut", "cre"),
                    email = "andrea.venturini@bancaditalia.it")
as necessary.
'::' or ':::' import not declared from: ‘NPRED’
'library' or 'require' call not declared from: ‘NPRED’
Maintainer: ‘Hugh Parsonage <hugh.parsonage+waterfall@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Hugh",
                    family = "Parsonage",
                    role = c("aut", "cre"),
                    email = "hugh.parsonage+waterfall@gmail.com")
as necessary.
Maintainer: ‘Michael Stewart <michael.stewart@sydney.edu.au>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Marc",
                      family = "Raimondo",
                      role = "aut",
                      email = "marcr@maths.usyd.edu.au"),
               person(given = "Michael",
                      family = "Stewart",
                      role = c("aut", "cre"),
                      email = "michael.stewart@sydney.edu.au"))
as necessary.
Maintainer: ‘Dr. Ranjit Kumar Paul <ranjitstat@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Dr.", "Ranjit", "Kumar"),
                      family = "Paul",
                      role = c("aut", "cre"),
                      email = "ranjitstat@gmail.com"),
               person(given = "Sandipan",
                      family = "Samanta",
                      role = "aut"),
               person(given = "Ankit",
                      family = "Tanwar",
                      role = "aut"))
as necessary.
Maintainer: ‘Eric Aldrich <ealdrich@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Eric",
                    family = "Aldrich",
                    role = c("aut", "cre"),
                    email = "ealdrich@gmail.com")
as necessary.
Maintainer: ‘Olivia Cheronet <cheronetolivia@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Olivia",
                      family = "Cheronet",
                      role = c("aut", "cre"),
                      email = "cheronetolivia@gmail.com"),
               person(given = c("John", "A."),
                      family = "Finarelli",
                      role = "aut"))
as necessary.
Found the following files/directories:
  ‘ReconstructedData.txt’ ‘ReconstructedDataStDev.txt’
  ‘ResampledReconstructions.txt’
  ‘ResampledReconstructionsStandardVariation.txt’
Maintainer: ‘Brandon Whitcher <bwhitcher@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Brandon",
                    family = "Whitcher",
                    role = c("aut", "cre"),
                    email = "bwhitcher@gmail.com")
as necessary.
Maintainer: ‘Vicente J. Bolos <vicente.bolos@uv.es>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Vicente", "J."),
                      family = "Bolos",
                      role = c("aut", "cre"),
                      email = "vicente.bolos@uv.es"),
               person(given = "Rafael",
                      family = "Benitez",
                      role = "aut"))
as necessary.
Maintainer: ‘Pablo Rodríguez-Sánchez <pablo.rodriguez.sanchez@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Pablo",
                    family = "Rodríguez-Sánchez",
                    role = c("aut", "cre"),
                    email = "pablo.rodriguez.sanchez@gmail.com")
as necessary.
Maintainer: ‘Kevin R. Coombes <krc@silicovore.com>’

Strong dependencies not in the CRAN or BioC software repositories:
  org.Hs.eg.db
Maintainer: ‘David Preinerstorfer <david.preinerstorfer@ulb.be>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "David",
                    family = "Preinerstorfer",
                    role = c("aut", "cre"),
                    email = "david.preinerstorfer@ulb.be")
as necessary.

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

The Description field contains
  Heteroskedasticity Robust Tests?" <arXiv:2005.04089>. This diagnostic
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Karolos Korkas <kkorkas@yahoo.co.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Karolos",
                      family = "Korkas",
                      role = c("aut", "cre"),
                      email = "kkorkas@yahoo.co.uk"),
               person(given = "Piotr",
                      family = "Fryzlewicz",
                      role = "aut"))
as necessary.
Maintainer: ‘Ujjwal Singh <ujjwalrsmt@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Ujjwal", "Singh", "Prashant", "K", "Srivastava", "<prashant.just@gmail.com)>", "Dharmendra", "Kumar", "Pandey", "<Dkp@sac.isro.gov.in>", "Sumit", "Kumar", "Chaudhary", "<sumit.mathe@gmail.com>", "Dileep", "Kumar", "Gupta"),
                      family = "<dileepgupta85@gmail.com>",
                      role = "aut",
                      email = "dileepgupta85@gmail.com"),
               person(given = "Ujjwal",
                      family = "Singh",
                      role = "cre",
                      email = "ujjwalrsmt@gmail.com"))
as necessary.
Maintainer: ‘Lu Mao <lmao@biostat.wisc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Lu",
                    family = "Mao",
                    role = c("aut", "cre"),
                    email = "lmao@biostat.wisc.edu")
as necessary.
Problems with news in ‘NEWS.md’:
No news entries found.
Maintainer: ‘Brooke Anderson <brooke.anderson@colostate.edu>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Timothy Conwell <timconwell@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Timothy",
                    family = "Conwell",
                    role = c("aut", "cre"),
                    email = "timconwell@gmail.com")
as necessary.
Maintainer: ‘Gábor Csárdi <csardi.gabor@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Ariya",
                      family = "Hidayat",
                      role = "aut"),
               person(given = "Gábor",
                      family = "Csárdi",
                      role = c("aut", "cre"),
                      email = "csardi.gabor@gmail.com"),
               person(given = "Gabor",
                      family = "Torok",
                      role = "aut"),
               person(given = "Ivan",
                      family = "De Marino",
                      role = "aut"),
               person(given = "Robert",
                      family = "Gieseke",
                      role = "aut"),
               person(given = "Steven",
                      family = "Masala",
                      role = "aut"),
               person(given = "Winston",
                      family = "Chang",
                      role = "aut"),
               person(given = "Zack",
                      family = "Weinberg",
                      role = "aut"))
as necessary.
checkRd: (-1) Session.Rd:146: Lost braces
   146 | sQuote{page load} timeout specifies a time to wait for the page loading
       |       ^
Maintainer: ‘Richard Barnes <rijard.barnes@gmail.com>’

The BugReports field in DESCRIPTION has
  https://github.com/r-barnes/webglobe/
which should likely be
  https://github.com/r-barnes/webglobe/issues
instead.
Maintainer: ‘Oliver Keyes <ironholds@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Oliver",
                    family = "Keyes",
                    role = c("aut", "cre"),
                    email = "ironholds@gmail.com")
as necessary.
Author field differs from that derived from Authors@R
  Author:    ‘Winston Chang [aut, cre], Barret Schloerke [ctb] (<https://orcid.org/0000-0001-9986-114X>), Posit Software, PBC [cph, fnd] (03wc8by49)’
  Authors@R: ‘Winston Chang [aut, cre], Barret Schloerke [ctb] (ORCID: <https://orcid.org/0000-0001-9986-114X>), Posit Software, PBC [cph, fnd] (ROR: <https://ror.org/03wc8by49>)’
Maintainer: ‘Jodi Beggs <jodi@alum.mit.edu>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Rense Nieuwenhuis <rense.nieuwenhuis@sofi.su.se>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Rense",
                      family = "Nieuwenhuis",
                      role = c("aut", "cre"),
                      email = "rense.nieuwenhuis@sofi.su.se"),
               person(given = c("Manfred", "te"),
                      family = "Grotenhuis",
                      role = "aut"),
               person(given = "Ben",
                      family = "Pelzer",
                      role = "aut"),
               person(given = "Alexander",
                      family = "Schmidt",
                      role = "aut"),
               person(given = "Ruben",
                      family = "Konig",
                      role = "aut"),
               person(given = "Rob",
                      family = "Eisinga",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) busTrace.Rd:15: Lost braces
    15 | /href{https://crawdad.org/coppe-ufrj/RioBuses/20180319/}
       |      ^
Maintainer: ‘Matthias Studer <matthias.studer@unige.ch>’

Found the following (possibly) invalid URLs:
  URL: http:\www.graphviz.org
    From: inst/doc/WeightedClusterPreview.pdf
    Message: Invalid URL: missing authority part
Maintainer: ‘Abbas Parchami <parchami@uk.ac.ir>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Abbas",
                    family = "Parchami",
                    role = c("aut", "cre"),
                    email = "parchami@uk.ac.ir",
                    comment = "Department of Statistics, Faculty of Mathematics and Computer, Shahid Bahonar University of Kerman, Kerman, Iran")
as necessary.
Maintainer: ‘Toby Dylan Hocking <toby.hocking@r-project.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Toby", "Dylan"),
                    family = "Hocking",
                    role = c("aut", "cre"),
                    email = "toby.hocking@r-project.org")
as necessary.
checkRd: (-1) WeightedROC.Rd:10: Lost braces; missing escapes or markup?
    10 | integer/numeric with values all in {0=negative,1=positive} or
       |                                    ^
checkRd: (-1) WeightedROC.Rd:11: Lost braces; missing escapes or markup?
    11 | {1=negative,2=positive} or {-1=negative,1=positive}.}
       | ^
checkRd: (-1) WeightedROC.Rd:11: Lost braces; missing escapes or markup?
    11 | {1=negative,2=positive} or {-1=negative,1=positive}.}
       |                            ^
Maintainer: ‘Aristidis K. Nikoloulopoulos <a.nikoloulopoulos@uea.ac.uk>’

The Description field contains
  <arXiv:1510.07376>.
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) CLIC.Rd:149: Lost braces
   149 | Composite likelihood {E}{M} algorithm with applications to
       |                         ^
Maintainer: ‘Viviane Philipps <Viviane.Philipps@u-bordeaux.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Viviane",
                    family = "Philipps",
                    role = c("aut", "cre"),
                    email = "viviane.philipps@u-bordeaux.fr")
as necessary.
Maintainer: ‘Tianchen Xu <tx2155@columbia.edu>’

Found the following (possibly) invalid file URI:
  URI: tx2155@columbia.edu
    From: inst/doc/wsvmdoc.pdf
Maintainer: ‘William Asquith <william.asquith@ttu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "William",
                    family = "Asquith",
                    role = c("aut", "cre"),
                    email = "william.asquith@ttu.edu")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Pablo J. Villacorta <pjvi@decsai.ugr.es>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Pablo", "J."),
                    family = "Villacorta",
                    role = c("aut", "cre"),
                    email = "pjvi@decsai.ugr.es")
as necessary.
Maintainer: ‘Marco Colombo <mar.colombo13@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Han Yu <hyu9@buffalo.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Han",
                      family = "Yu",
                      role = c("aut", "cre"),
                      email = "hyu9@buffalo.edu"),
               person(given = c("Rachael", "Hageman"),
                      family = "Blair",
                      role = "aut"))
as necessary.
Maintainer: ‘Peter Langfelder <Peter.Langfelder@gmail.com>’

Strong dependencies not in the CRAN or BioC software repositories:
  GO.db
Maintainer: ‘Zihuai He <zihuai@stanford.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Zihuai",
                    family = "He",
                    role = c("aut", "cre"),
                    email = "zihuai@stanford.edu")
as necessary.
Package required but not available: ‘seqminer’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘coords_from_words.R’ ‘get_available_languages.R’
    ‘words_from_coords.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘define_characteristics.Rd’ ‘define_instances.Rd’ ‘export.R’
    ‘generate_table.Rd’ ‘get_attribute_definition_function.Rd’
    ‘get_day_part.Rd’ ‘get_level_attribute_names.Rd’ ‘get_level_names.Rd’
    ‘get_table.Rd’ ‘get_table_attribute_names.Rd’ ‘get_table_csv.Rd’
    ‘get_table_rdb.Rd’ ‘get_table_xlsx.Rd’ ‘select_date_levels.Rd’
    ‘select_day_level.Rd’ ‘select_month_level.Rd’
    ‘select_quarter_level.Rd’ ‘select_semester_level.Rd’
    ‘select_time_level.Rd’ ‘select_week_level.Rd’ ‘select_year_level.Rd’
    ‘set_attribute_definition_function.Rd’ ‘set_day_part.Rd’
    ‘set_table_attribute_names.Rd’ ‘week.R’
Maintainer: ‘Edwin de Jonge <edwindjonge@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Edwin",
                    family = "de Jonge",
                    role = c("aut", "cre"),
                    email = "edwindjonge@gmail.com")
as necessary.
Maintainer: ‘Korbinian Strimmer <strimmerlab@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Korbinian",
                      family = "Strimmer",
                      role = c("aut", "cre"),
                      email = "strimmerlab@gmail.com"),
               person(given = "Takoua",
                      family = "Jendoubi",
                      role = "aut"),
               person(given = "Agnan",
                      family = "Kessy",
                      role = "aut"),
               person(given = "Alex",
                      family = "Lewin",
                      role = "aut"))
as necessary.
Maintainer: ‘Jorge Lopez Perez <jorge@loperez.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Bhaskar Karambelkar <bhaskarvk@gmail.com>’

Found the following (possibly) invalid file URIs:
  URI: rmarkdown.rstudio.com
    From: inst/doc/Using_widgetframe.html
  URI: yihui.name/knitr/
    From: inst/doc/Using_widgetframe.html
Maintainer: ‘Joerg grosse Schlarmann (aka Produnis) <schlarmann@produnis.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Joerg", "grosse"),
                    family = "Schlarmann",
                    role = c("aut", "cre"),
                    email = "schlarmann@produnis.de",
                    comment = "aka Produnis")
as necessary.
checkRd: (-1) get_geo_box.Rd:37-38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_box.Rd:39-40: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_box.Rd:41: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_box.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_box.Rd:43-44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_entity.Rd:27-28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_entity.Rd:29-30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_entity.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_entity.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_geo_entity.Rd:33-34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) milakes.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) milakes.Rd:22: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Os Keyes <ironholds@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Os",
                      family = "Keyes",
                      role = c("aut", "cre"),
                      email = "ironholds@gmail.com"),
               person(given = "Brock",
                      family = "Tilbert",
                      role = "ctb"),
               person(given = "Clemens",
                      family = "Schmid",
                      role = "aut"))
as necessary.
Maintainer: ‘Bradley Shanrock-Solberg <greblosb@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Bradley",
                    family = "Shanrock-Solberg",
                    role = c("aut", "cre"),
                    email = "greblosb@gmail.com")
as necessary.
checkRd: (-1) secondDerivative.Rd:14: Lost braces
    14 | This must be a function of the form FUN <- function(x, ...){...}
       |                                                            ^
checkRd: (-1) windAC.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) windAC.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) windAC.Rd:33: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Neeraj Bokde <neerajdhanraj@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Neeraj",
                      family = "Bokde",
                      role = c("aut", "cre"),
                      email = "neerajdhanraj@gmail.com"),
               person(given = "Andres",
                      family = "Feijoo",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Novica Nakov <nnovica@gmail.com>’

The BugReports field in DESCRIPTION has
  https://github.com/windsor-ai/windsoraiR/
which should likely be
  https://github.com/windsor-ai/windsoraiR/issues
instead.
Maintainer: ‘Kevin Duarte <k.duarte@chru-nancy.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Kevin",
                      family = "Duarte",
                      role = c("aut", "cre"),
                      email = "k.duarte@chru-nancy.fr"),
               person(given = c("Joao", "Pedro"),
                      family = "Ferreira",
                      role = "aut"))
as necessary.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘WinRatio-package.Rd’:
    https://doi.org/10.1093/eurheartj/ehr352
    https://doi.org/10.1093/biostatistics/kxv032
Maintainer: ‘Robert W. Cort <rcorty@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Robert", "W."),
                    family = "Cort",
                    role = c("aut", "cre"),
                    email = "rcorty@gmail.com")
as necessary.
Maintainer: ‘Ian Cook <ianmcook@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("TIBCO", "Software"),
                      family = "Inc.",
                      role = "aut"),
               person(given = "Ian",
                      family = "Cook",
                      role = "cre",
                      email = "ianmcook@gmail.com"))
as necessary.
Maintainer: ‘Wencan Zhu <wencan.zhu@yahoo.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Wencan",
                    family = "Zhu",
                    role = c("aut", "cre"),
                    email = "wencan.zhu@yahoo.com")
as necessary.
Maintainer: ‘Ilana Trumble <ilana.trumble@cuanschutz.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Ilana",
                      family = "Trumble",
                      role = c("aut", "cre"),
                      email = "ilana.trumble@cuanschutz.edu"),
               person(given = "Orlando",
                      family = "Ferrer",
                      role = "aut"),
               person(given = "Camden",
                      family = "Bay",
                      role = "aut"),
               person(given = "Katie",
                      family = "Mollan",
                      role = "aut"))
as necessary.

The Description field contains
  <doi:10.1080/10543406.2020.1730866> <arXiv:1901.04597>, (Mann and
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Shahla Faisal <shahla_ramzan@yahoo.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Shahla",
                    family = "Faisal",
                    role = c("aut", "cre"),
                    email = "shahla_ramzan@yahoo.com")
as necessary.
Maintainer: ‘Jeffrey B. Lewis <jblewis@ucla.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Keith",
                      family = "Poole",
                      role = "aut",
                      email = "ktpoole@uga.edu"),
               person(given = "Jeffrey",
                      family = "Lewis",
                      role = "aut",
                      email = "jblewis@ucla.edu"),
               person(given = "James",
                      family = "Lo",
                      role = "aut",
                      email = "lojames@usc.edu"),
               person(given = "Royce",
                      family = "Carroll",
                      role = "aut",
                      email = "rcarroll@rice.edu"),
               person(given = c("Jeffrey", "B."),
                      family = "Lewis",
                      role = "cre",
                      email = "jblewis@ucla.edu"))
as necessary.
Maintainer: ‘Thilo Eichenberg <te.r@gmx.net>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Thilo",
                    family = "Eichenberg",
                    role = c("aut", "cre"),
                    email = "te.r@gmx.net")
as necessary.
Maintainer: ‘Sudarson Mothilal Thoppay <sudarson@outlook.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Sudarson", "Mothilal"),
                    family = "Thoppay",
                    role = c("aut", "cre"),
                    email = "sudarson@outlook.com")
as necessary.
Maintainer: ‘Neda Daneshgar<ne_da978@stu-mail.um.ac.ir>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Neda",
                      family = "Daneshagr",
                      role = "aut"),
               person(given = "Majid",
                      family = "Sarmad.",
                      role = "aut"),
               person(given = "Neda",
                      family = "Daneshgar",
                      role = "cre",
                      email = "ne_da978@stu-mail.um.ac.ir"))
as necessary.
Maintainer: ‘Dawei Lang <chiffonlang@icloud.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Dawei",
                      family = "Lang",
                      role = c("aut", "cre"),
                      email = "chiffonlang@icloud.com"),
               person(given = "Guan-tin",
                      family = "Chien",
                      role = "aut"))
as necessary.
Maintainer: ‘Ian Fellows <ian@fellstat.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Ian",
                    family = "Fellows",
                    role = c("aut", "cre"),
                    email = "ian@fellstat.com")
as necessary.
Maintainer: ‘Jonathan Bratt <jonathan.bratt@macmillan.com>’

The Description field contains
  Apply 'Wordpiece' (<arXiv:1609.08144>) tokenization to input text,
  given an appropriate vocabulary. The 'BERT' (<arXiv:1810.04805>)
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
checkRd: (-1) wordpiece_cache_dir.Rd:16-17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) wordpiece_cache_dir.Rd:18-19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) wordpiece_cache_dir.Rd:20-21: Lost braces in \itemize; meant \describe ?
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘TWP.Rd’
'library' or 'require' call not declared from: ‘shiny’
Maintainer: ‘Tomas Hovorka <tomashovorka@seznam.cz>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tomas",
                    family = "Hovorka",
                    role = c("aut", "cre"),
                    email = "tomashovorka@seznam.cz")
as necessary.
Maintainer: ‘Neil A. Weiss <neil.a.weiss@asu.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Neil", "A."),
                    family = "Weiss",
                    role = c("aut", "cre"),
                    email = "neil.a.weiss@asu.edu")
as necessary.

Found the following \keyword or \concept entries
which likely give several index terms:
  File ‘wPerm-package.Rd’:
    \keyword{ package, datasets, graphs }
Maintainer: ‘Hana Sevcikova <hanas@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hana",
                      family = "Sevcikova",
                      role = c("aut", "cre"),
                      email = "hanas@uw.edu"),
               person(given = "Patrick",
                      family = "Gerland",
                      role = "aut",
                      email = "gerland@un.org"))
as necessary.
Malformed Description field: should contain one or more complete sentences.
Maintainer: ‘Hana Sevcikova <hanas@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hana",
                      family = "Sevcikova",
                      role = c("aut", "cre"),
                      email = "hanas@uw.edu"),
               person(given = "Patrick",
                      family = "Gerland",
                      role = "aut",
                      email = "gerland@un.org"))
as necessary.
Malformed Description field: should contain one or more complete sentences.
Maintainer: ‘Hana Sevcikova <hanas@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hana",
                      family = "Sevcikova",
                      role = c("aut", "cre"),
                      email = "hanas@uw.edu",
                      comment = "hanas@uw.edu"),
               person(given = "Patrick",
                      family = "Gerland",
                      role = "aut",
                      comment = "gerland@un.org"),
               person(given = "Kirill",
                      family = "Andreev",
                      role = "aut",
                      comment = "andreev@un.org"),
               person(given = "Nan",
                      family = "Li",
                      role = "aut",
                      comment = "li32@un.org"),
               person(given = "Danan",
                      family = "Gu",
                      role = "aut",
                      comment = "gud@un.org"),
               person(given = "Thomas",
                      family = "Spoorenberg",
                      role = "aut",
                      comment = "spoorenberg@un.org"))
as necessary.
Malformed Description field: should contain one or more complete sentences.
Maintainer: ‘Hana Sevcikova <hanas@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("United", "Nations", "Population"),
                      family = "Division",
                      role = "aut"),
               person(given = "Hana",
                      family = "Sevcikova",
                      role = "cre",
                      email = "hanas@uw.edu"))
as necessary.
Maintainer: ‘Hana Sevcikova <hanas@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("United", "Nations", "Population"),
                      family = "Division",
                      role = "aut"),
               person(given = "Hana",
                      family = "Sevcikova",
                      role = "cre",
                      email = "hanas@uw.edu"))
as necessary.
Maintainer: ‘Hana Sevcikova <hanas@uw.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Hana",
                    family = "Sevcikova",
                    role = c("aut", "cre"),
                    email = "hanas@uw.edu")
as necessary.
Maintainer: ‘Tim Bergsma <bergsmat@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tim",
                    family = "Bergsma",
                    role = c("aut", "cre"),
                    email = "bergsmat@gmail.com")
as necessary.
Maintainer: ‘Lu Mao <lmao@biostat.wisc.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Lu",
                      family = "Mao",
                      role = c("aut", "cre"),
                      email = "lmao@biostat.wisc.edu"),
               person(given = "Tuo",
                      family = "Wang",
                      role = "aut"))
as necessary.
Maintainer: ‘Rezgar Arabzadeh <rezgararabzadeh@ut.ac.ir>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Rezgar", "Arabzadeh;", "Parisa", "Aberi;", "Kaveh", "Panaghi;", "Shahab", "Araghinejad;", "Majid"),
                      family = "Montaseri",
                      role = "aut"),
               person(given = "Rezgar",
                      family = "Arabzadeh",
                      role = "cre",
                      email = "rezgararabzadeh@ut.ac.ir"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) addObjectToArea.Rd:31: height/width attributes should be in pixels
checkRd: (-1) createDemandSite.Rd:26: Lost braces
    26 |   \item{suppliers}{(optional) A list of object(s) inherited from the folowing classes: \code{\link[WRSS]{createAquifer}}, \code{\link[WRSS]{createRiver}}, \code{\link[WRSS]{createReservoir}}, code{\link[WRSS]{createDiversion}}.}
       |                                                                                                                                                                                                     ^
checkRd: (-1) createDemandSite.base.Rd:26: Lost braces
    26 |   \item{suppliers}{(optional) A list of object(s) inherited from the folowing classes: \code{\link[WRSS]{createAquifer}}, \code{\link[WRSS]{createRiver}}, \code{\link[WRSS]{createReservoir}}, code{\link[WRSS]{createDiversion}}.}
       |                                                                                                                                                                                                     ^
checkRd: (-1) createDemandSite.default.Rd:32: Lost braces
    32 |   \item{suppliers}{(optional) A list of object(s) inherited from the folowing classes: \code{\link[WRSS]{createAquifer}}, \code{\link[WRSS]{createRiver}}, \code{\link[WRSS]{createReservoir}}, code{\link[WRSS]{createDiversion}}.}
       |                                                                                                                                                                                                     ^
checkRd: (-1) sim.Rd:19: height/width attributes should be in pixels
Maintainer: ‘Rui Sun <rsunzju@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Rui",
                      family = "Sun",
                      role = c("aut", "cre"),
                      email = "rsunzju@gmail.com"),
               person(given = c("Maggie", "Haitian"),
                      family = "Wang",
                      role = "aut"))
as necessary.
checkRd: (-1) wtest.Rd:61-64: Lost braces
    61 | {When \code{w.order} =2, the \code{wtest()} will automatically calculate the main effect first and then do a pre-filter before calculating interactions.
       | ^
checkRd: (-1) wtest.high.Rd:61-64: Lost braces
    61 | {When \code{w.order} > 2, the \code{wtest()} will automatically calculate the main effect first and then do a pre-filter before calculating interactions.
       | ^
Maintainer: ‘Deisy Morselli Gysi <deisy.ccnr@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Deisy", "Morselli"),
                      family = "Gysi",
                      role = c("aut", "cre"),
                      email = "deisy.ccnr@gmail.com"),
               person(given = "Andre",
                      family = "Voigt",
                      role = "aut"),
               person(given = c("Tiago", "Miranda"),
                      family = "Fragoso",
                      role = "aut"),
               person(given = "Eivind",
                      family = "Almaas",
                      role = "aut"),
               person(given = "Katja",
                      family = "Nowick.",
                      role = "aut"))
as necessary.
Maintainer: ‘Shu Chen <chenshu@umich.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Shu",
                      family = "Chen",
                      role = c("aut", "cre"),
                      email = "chenshu@umich.edu"),
               person(given = "Andrzej",
                      family = "Galecki",
                      role = "aut",
                      email = "agalecki@umich.edu"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Fabien Gelineau <neonira@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Fabien",
                    family = "Gelineau",
                    role = c("aut", "cre"),
                    email = "neonira@gmail.com")
as necessary.
checkRd: (-1) exploreSignatures.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:49-50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:58-59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:65-66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) exploreSignatures.Rd:67-69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generateData.Rd:47: Lost braces
    47 | \bold{code{data}} \tab the generated data \cr
       |           ^
checkRd: (-1) generateData.Rd:53: Lost braces
    53 | Refer to \bold{\emph{code{\link{retrieveDataFactory}}}} and to
       |                          ^
checkRd: (-1) qualifyFunctionArguments.Rd:14: Lost braces
    14 | A emph{\code{list}} with following names
       |       ^
checkRd: (-1) qualifyFunctionArguments.Rd:26: Lost braces
    26 | \item{code{arguments}}{a \code{pairList} of argument names and values.
       |           ^
Maintainer: ‘Fabien Gelineau <neonira@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Fabien",
                    family = "Gelineau",
                    role = c("aut", "cre"),
                    email = "neonira@gmail.com")
as necessary.
Maintainer: ‘Fabien Gelineau <neonira@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Fabien",
                    family = "Gelineau",
                    role = c("aut", "cre"),
                    email = "neonira@gmail.com")
as necessary.
checkRd: (-1) completeManualPage.Rd:12: Lost braces
    12 | See \emph{\bold{code{\link{ProcessingContext}}}}. Only
       |                     ^
checkRd: (-1) produceAllManualPagesFromObject.Rd:14: Lost braces
    14 | See \emph{\bold{\\code{\link{ProcessingContext}}}}.}
       |                       ^
Maintainer: ‘Fabien Gelineau <neonira@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Fabien",
                    family = "Gelineau",
                    role = c("aut", "cre"),
                    email = "neonira@gmail.com")
as necessary.
Maintainer: ‘Philip Leifeld <philip.leifeld@essex.ac.uk>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘chemnet.Rd’:
    http://dx.doi.org/10.1111/j.1540-5907.2011.00580.x
    http://dx.doi.org/10.1007%2F978-3-531-91883-9_6
  File ‘knecht.Rd’:
    http://dx.doi.org/10.1111/j.1467-9507.2009.00564.x
    http://dx.doi.org/10.1016/j.socnet.2009.02.004
checkRd: (-1) chemnet.Rd:111: Lost braces in \itemize; meant \describe ?
checkRd: (-1) chemnet.Rd:112: Lost braces in \itemize; meant \describe ?
checkRd: (-1) knecht.Rd:103: Lost braces in \itemize; meant \describe ?
checkRd: (-1) knecht.Rd:104: Lost braces in \itemize; meant \describe ?
checkRd: (-1) knecht.Rd:105: Lost braces in \itemize; meant \describe ?
Maintainer: ‘Juste Goungounga <juste.goungounga@ehesp.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Juste",
                      family = "Goungounga",
                      role = c("aut", "cre"),
                      email = "juste.goungounga@ehesp.fr",
                      comment = c(ORCID = "0000-0002-9039-2639")),
               person(given = "Hadrien",
                      family = "Charvat",
                      role = "aut",
                      comment = c(ORCID = "0000-0003-3624-1394")),
               person(given = "Darlin",
                      family = "Mba",
                      role = "aut",
                      comment = c(ORCID = "0000-0001-9768-0230")),
               person(given = "Nathalie",
                      family = "Graffeo",
                      role = "aut",
                      comment = c(ORCID = "0000-0001-7227-7525")),
               person(given = "Roch",
                      family = "Giorgi",
                      role = "aut",
                      comment = c(ORCID = "0000-0001-6135-3078")))
as necessary.
Maintainer: ‘Susan Holmes <sp.holmes@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Susan",
                      family = "Holmes",
                      role = c("aut", "cre"),
                      email = "sp.holmes@gmail.com"),
               person(given = "Sourav",
                      family = "Chatterjee",
                      role = "aut"))
as necessary.

The Description field contains
  Chatterjee, Sourav (2020) <arXiv:1909.10140> This package includes the
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Thomas Lumley <t.lumley@auckland.ac.nz>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Thomas",
                      family = "Lumley",
                      role = c("aut", "cre"),
                      email = "t.lumley@auckland.ac.nz"),
               person(given = c("using", "data", "from", "Randall"),
                      family = "Munroe",
                      role = "aut"),
               person(given = c("about", "2.2e5", "survey"),
                      family = "participants",
                      role = "aut"))
as necessary.
Maintainer: ‘Emeline Perthame <emeline.perthame@pasteur.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Emeline",
                      family = "Perthame",
                      role = c("aut", "cre"),
                      email = "emeline.perthame@pasteur.fr",
                      comment = "emeline.perthame@inria.fr"),
               person(given = "Florence",
                      family = "Forbes",
                      role = "aut",
                      comment = "florence.forbes@inria.fr"),
               person(given = "Antoine",
                      family = "Deleforge",
                      role = "aut",
                      comment = "antoine.deleforge@inria.fr"),
               person(given = "Emilie",
                      family = "Devijver",
                      role = "aut",
                      comment = "emilie.devijver@kuleuven.be"),
               person(given = "Melina",
                      family = "Gallopin",
                      role = "aut",
                      comment = "melina.gallopin@u-psud.fr"))
as necessary.

The Description field contains
  al (2017) <arXiv:1701.07899>) which is an extension of GLLiM with a
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Unknown package ‘shock’ in Rd xrefs
checkRd: (-1) xml_to_df.Rd:144: Lost braces; missing escapes or markup?
   144 | Default {NULL} means the workbook will not be protected with a password}
       |         ^
Maintainer: ‘Gábor Csárdi <csardi.gabor@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Gábor",
                    family = "Csárdi",
                    role = c("aut", "cre"),
                    email = "csardi.gabor@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘add_frag.R’ ‘data_frag.R’ ‘elem.Rd’ ‘list_as_xml_document.R’
    ‘read_fragment.R’ ‘tag.R’ ‘write_xml.R’ ‘xml_fragment.R’
    ‘xmlbuilder.R’ ‘xmlbuilder.Rd’
Maintainer: ‘Joris Meys <Joris.Meys@UGent.be>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘drugTargetInteraction.Rd’:
    https://doi.org/10.1093/bioinformatics/btn162
  File ‘loo.Rd’:
    http://doi.org/10.1093/bib/bby095
  File ‘proteinInteraction.Rd’:
    https://doi.org/10.1093/bioinformatics/bth910
  File ‘xnet-package.Rd’:
    http://doi.org/10.1093/bib/bby095
Maintainer: ‘John Chambers <jmc@r-project.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("John", "M."),
                      family = "Chambers",
                      role = "aut"),
               person(given = "John",
                      family = "Chambers",
                      role = "cre",
                      email = "jmc@r-project.org"))
as necessary.
Found the following (possibly) invalid URL:
  URL: ../doc/Chapter_XR.pdf
    From: man/noscalar.Rd
Maintainer: ‘John Chambers <jmc@r-project.org>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("John", "M."),
                      family = "Chambers",
                      role = "aut"),
               person(given = "John",
                      family = "Chambers",
                      role = "cre",
                      email = "jmc@r-project.org"))
as necessary.
Maintainer: ‘Hitoshi Iuchi <hiuchi@sfc.keio.ac.jp>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hitoshi",
                      family = "Iuchi",
                      role = c("aut", "cre"),
                      email = "hiuchi@sfc.keio.ac.jp"),
               person(given = c("Rikuhiro", "G."),
                      family = "Yamada",
                      role = "aut"))
as necessary.
Found the following files/directories:
  ‘xtable.html’ ‘xtable.tex’
File ‘xts/libs/xts.so’:
  Found non-API call to R: ‘ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Maintainer: ‘Joao Claudio Macosso <joaoclaudiomacosso@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Joao", "Claudio"),
                    family = "Macosso",
                    role = c("aut", "cre"),
                    email = "joaoclaudiomacosso@gmail.com")
as necessary.
checkRd: (-1) xwfGridsearch.Rd:27: Lost braces; missing escapes or markup?
    27 | \item{iter}{Number of levels in the adaptive grid search. The resolution in b obtained is 2^{-1-iter}.}
       |                                                                                             ^
checkRd: (-1) cat_sim.Rd:110: Lost braces; missing escapes or markup?
   110 | \code{min} and {max} are mandatory for setting limits on the test length. User-defined
       |                ^
Maintainer: ‘Enrico Glaab <enrico.glaab@uni.lu>’

Strong dependencies not in the CRAN or BioC software repositories:
  org.Hs.eg.db
Maintainer: ‘Carter T. Butts <buttsc@uci.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Carter", "T."),
                    family = "Butts",
                    role = c("aut", "cre"),
                    email = "buttsc@uci.edu")
as necessary.
Maintainer: ‘WenSui Liu <liuwensui@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "WenSui",
                    family = "Liu",
                    role = c("aut", "cre"),
                    email = "liuwensui@gmail.com")
as necessary.
Maintainer: ‘John W. Emerson <john.emerson@yale.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("John", "W."),
                      family = "Emerson",
                      role = c("aut", "cre"),
                      email = "john.emerson@yale.edu"),
               person(given = c("Walton", "A."),
                      family = "Green",
                      role = "aut"))
as necessary.
Maintainer: ‘Somjit Roy <somjit.roy2001@gmail.com>’

No Authors@R field in DESCRIPTION.
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  Authors@R: person(given = "Somjit",
                    family = "Roy",
                    role = c("aut", "cre"),
                    email = "somjit.roy2001@gmail.com")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘exhaustive_lhl.Rd’ ‘gaussian_fit.Rd’ ‘hyperbolic_fit.Rd’
Maintainer: ‘Greg Lamp <greg@yhathq.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Greg",
                      family = "Lamp",
                      role = c("aut", "cre"),
                      email = "greg@yhathq.com"),
               person(given = "Stevie",
                      family = "Smith",
                      role = "aut",
                      email = "dev@yhathq.com"),
               person(given = "Ross",
                      family = "Kippenbrock",
                      role = "aut",
                      email = "ross@yhathq.com"))
as necessary.
'library' or 'require' calls not declared from:
  ‘plyr’ ‘randomForest’
Maintainer: ‘Sergio Salvino Guirreri <sergioguirreri@gmail.com>’

No Authors@R field in DESCRIPTION.
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  Authors@R: person(given = c("Sergio", "Salvino"),
                    family = "Guirreri",
                    role = c("aut", "cre"),
                    email = "sergioguirreri@gmail.com")
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Tinniam V Ganesh <tvganesh.85@gmail.com>’

No Authors@R field in DESCRIPTION.
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  Authors@R: person(given = c("Tinniam", "V"),
                    family = "Ganesh",
                    role = c("aut", "cre"),
                    email = "tvganesh.85@gmail.com")
as necessary.
Maintainer: ‘Matías Castillo Aguilar <matcasti@umag.cl>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Fabio Demarqui <fndemarqui@est.ufmg.br>’

The Description field contains
  et al. (2019) <arXiv:1910.04475>. Model fitting can be carried out via
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Daewoo Pak <heavyrain.pak@gmail.com>’

No Authors@R field in DESCRIPTION.
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  Authors@R: c(person(given = "Daewoo",
                      family = "Pak",
                      role = c("aut", "cre"),
                      email = "heavyrain.pak@gmail.com"),
               person(given = "Song",
                      family = "Yang",
                      role = "aut"))
as necessary.
Maintainer: ‘Junlong Sun <junlong.sun@gmail.com>’

No Authors@R field in DESCRIPTION.
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  Authors@R: c(person(given = "Junlong",
                      family = "Sun",
                      role = c("aut", "cre"),
                      email = "junlong.sun@gmail.com"),
               person(given = "Song",
                      family = "Yang",
                      role = "aut"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following (possibly) invalid URLs:
  URL: http: //cran.r-project.org/
    From: inst/doc/read_me_first.pdf
    Message: Invalid URL: missing authority part
Maintainer: ‘Fabio Demarqui <fndemarqui@est.ufmg.br>’

The Description field contains
  Mayrink (2019) <arXiv:1910.02406>. Model fitting carried out via
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Xuanhua (Peter) Yin <peteryin.sju@hotmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Manuel",
                      family = "Russon",
                      role = "aut",
                      email = "RUSSONM@stjohns.edu"),
               person(given = "Xuanhua",
                      family = "Yin",
                      role = "aut",
                      email = "peteryin.sju@hotmail.com",
                      comment = "Peter"),
               person(given = "Xuanhua",
                      family = "Yin",
                      role = "cre",
                      email = "peteryin.sju@hotmail.com",
                      comment = "Peter"))
as necessary.
Maintainer: ‘Emanuele Guidotti <emanuele.guidotti@hotmail.it>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("YUIMA", "Project"),
                      family = "Team",
                      role = "aut"),
               person(given = "Emanuele",
                      family = "Guidotti",
                      role = "cre",
                      email = "emanuele.guidotti@hotmail.it"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Robert Lee <rhlee@colorado.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Robert",
                    family = "Lee",
                    role = c("aut", "cre"),
                    email = "rhlee@colorado.edu")
as necessary.
Maintainer: ‘Clare Horscroft <chorscroft@aol.co.uk>’

No Authors@R field in DESCRIPTION.
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  Authors@R: person(given = "Clare",
                    family = "Horscroft",
                    role = c("aut", "cre"),
                    email = "chorscroft@aol.co.uk")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘zcta.R’
Maintainer: ‘Francois Brun <francois.brun@acta.asso.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Francois",
                      family = "Brun",
                      role = c("aut", "cre"),
                      email = "francois.brun@acta.asso.fr",
                      comment = "ACTA"),
               person(given = "David",
                      family = "Makowski",
                      role = "aut",
                      comment = "INRA"),
               person(given = "Daniel",
                      family = "Wallach",
                      role = "aut",
                      comment = "INRA"),
               person(given = c("James", "W."),
                      family = "Jones.",
                      role = "aut",
                      comment = "U.of Florida"))
as necessary.
'library' or 'require' calls not declared from:
  ‘coda’ ‘dlm’ ‘maps’ ‘mgcv’ ‘mnormt’ ‘mvtnorm’ ‘randomForest’ ‘rpart’
  ‘rpart.plot’ ‘sensitivity’ ‘sp’ ‘spatial’ ‘tseries’
Maintainer: ‘Tanya Cashorali <tanyacash@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Tanya",
                    family = "Cashorali",
                    role = c("aut", "cre"),
                    email = "tanyacash@gmail.com")
as necessary.
Malformed Description field: should contain one or more complete sentences.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘cache_report.R’ ‘list_deposit.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘deposit_stats.R’ ‘scrap_stats.R’
Maintainer: ‘Magnus Thor Torfason <m@zulutime.net>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Magnus", "Thor"),
                    family = "Torfason",
                    role = c("aut", "cre"),
                    email = "m@zulutime.net")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘external_fitters.Rd’ ‘zfunction.Rd’ ‘zlm.Rd’ ‘zprint.Rd’
Maintainer: ‘Markus Jochmann <markus.jochmann@ncl.ac.uk>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Markus",
                    family = "Jochmann",
                    role = c("aut", "cre"),
                    email = "markus.jochmann@ncl.ac.uk")
as necessary.
Maintainer: ‘Gavin Rozzi <gr@gavinrozzi.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
Maintainer: ‘Tianchen Xu <tx2155@columbia.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Tianchen",
                      family = "Xu",
                      role = c("aut", "cre"),
                      email = "tx2155@columbia.edu",
                      comment = c(ORCID = "0000-0002-0102-7630")),
               person(given = c("Ryan", "T."),
                      family = "Demmer",
                      role = "aut"),
               person(given = "Gen",
                      family = "Li",
                      role = "aut"))
as necessary.
Maintainer: ‘Ariel Duarte-López <aduarte@ac.upc.edu>’

The Description field contains
  (2013) <arXiv:1304.4540>, the Zipf-Poisson Extreme (Zipf-PE), the
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.
Maintainer: ‘Stefan Evert <stefan.evert@fau.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Stefan",
                      family = "Evert",
                      role = c("aut", "cre"),
                      email = "stefan.evert@fau.de"),
               person(given = "Marco",
                      family = "Baroni",
                      role = "aut",
                      email = "marco.baroni@unitn.it"))
as necessary.

Found the following URLs which should use \doi (with the DOI name only):
  File ‘productivity_measures.Rd’:
    http://dx.doi.org/10.18419/opus-2556
  File ‘zipfR_package.Rd’:
    http://dx.doi.org/10.18419/opus-2556
Maintainer: ‘Melina Ribaud <melina.ribaud@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Melina",
                    family = "Ribaud",
                    role = c("aut", "cre"),
                    email = "melina.ribaud@gmail.com")
as necessary.
Maintainer: ‘Magnus Thor Torfason <m@zulutime.net>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Magnus", "Thor"),
                    family = "Torfason",
                    role = c("aut", "cre"),
                    email = "m@zulutime.net")
as necessary.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘notate.R’
checkRd: (-1) ZIClass.Rd:87: Escaped LaTeX specials: \_
checkRd: (-1) ZITrain.Rd:72: Escaped LaTeX specials: \_
checkRd: (-1) ZITrain.Rd:74: Escaped LaTeX specials: \_
checkRd: (-1) zid.Rd:45: Escaped LaTeX specials: \_
checkRd: (-1) zim.Rd:63: Escaped LaTeX specials: \_
checkRd: (-1) zim.Rd:182: Lost braces
   182 |   dQuote{tab-delimited text file} when you have done and close the spreadsheet
       |         ^
Maintainer: ‘Jose M Pozo <josmpozo@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.
checkRd: (-1) in.zoom.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) in.zoom.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) in.zoom.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) in.zoom.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) in.zoom.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) in.zoom.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) zm.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) zm.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) zm.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) zm.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) zm.Rd:13: Lost braces in \itemize; meant \describe ?
Maintainer: ‘David Beiner <zra.r.package@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "David",
                    family = "Beiner",
                    role = c("aut", "cre"),
                    email = "zra.r.package@gmail.com")
as necessary.
Maintainer: ‘Ernest Guevarra <ernestgmd@gmail.com>’

Found the following URLs which should use \doi (with the DOI name only):
  File ‘anthro4.Rd’:
    https://doi.org/10.1136/bmj.j3423
checkRd: (-1) update_ztable.Rd:75: Lost braces; missing escapes or markup?
    75 | must be NULL or contain only elements of {"h","t","b","p","!","H"}.}
       |                                          ^
checkRd: (-1) ztable_sub.Rd:78: Lost braces; missing escapes or markup?
    78 | must be NULL or contain only elements of {"h","t","b","p","!","H"}.
       |                                          ^
Maintainer: ‘Oliver Kirchkamp <oliver@kirchkamp.de>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Oliver",
                    family = "Kirchkamp",
                    role = c("aut", "cre"),
                    email = "oliver@kirchkamp.de")
as necessary.
Maintainer: ‘Vincent Guyader <vincent@thinkr.fr>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Vincent",
                    family = "Guyader",
                    role = c("aut", "cre"),
                    email = "vincent@thinkr.fr")
as necessary.
Maintainer: ‘Frederik Kok Hansen <frederik_kok@icloud.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = c("Frederik", "Kok"),
                    family = "Hansen",
                    role = c("aut", "cre"),
                    email = "frederik_kok@icloud.com")
as necessary.
Running examples in ‘abclass-Ex.R’ failed
The error most likely occurred in:

> ### Name: supclass
> ### Title: Multi-Category Classifiers with Sup-Norm Regularization
> ### Aliases: supclass supclass.control
> 
> ### ** Examples
> 
> library(abclass)
> set.seed(123)
> 
> ## toy examples for demonstration purpose
> ## reference: example 1 in Zhang and Liu (2014)
> ntrain <- 100 # size of training set
> ntest <- 1000 # size of testing set
> p0 <- 2       # number of actual predictors
> p1 <- 2       # number of random predictors
> k <- 3        # number of categories
> 
> n <- ntrain + ntest; p <- p0 + p1
> train_idx <- seq_len(ntrain)
> y <- sample(k, size = n, replace = TRUE)         # response
> mu <- matrix(rnorm(p0 * k), nrow = k, ncol = p0) # mean vector
> ## normalize the mean vector so that they are distributed on the unit circle
> mu <- mu / apply(mu, 1, function(a) sqrt(sum(a ^ 2)))
> x0 <- t(sapply(y, function(i) rnorm(p0, mean = mu[i, ], sd = 0.25)))
> x1 <- matrix(rnorm(p1 * n, sd = 0.3), nrow = n, ncol = p1)
> x <- cbind(x0, x1)
> train_x <- x[train_idx, ]
> test_x <- x[- train_idx, ]
> y <- factor(paste0("label_", y))
> train_y <- y[train_idx]
> test_y <- y[- train_idx]
> 
> ## regularization with the supnorm lasso penalty
> options("mc.cores" = 1)
> model <- supclass(train_x, train_y, model = "psvm", penalty = "lasso")
Error: The package 'qpmadr' is needed but not available.
Execution halted
Namespace in Imports field not imported from: ‘MASS’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
Namespace in Imports field not imported from: ‘tibble’
  All declared Imports should be used.
checkRd: (-1) bind_tweets.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bind_tweets.Rd:22: Lost braces in \itemize; meant \describe ?
File ‘acc/libs/acc.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘acep_load_base.Rd’ ‘acep_rst.Rd’ ‘acep_token_plot.R’
    ‘acep_token_table.R’
Namespace in Imports field not imported from: ‘testthat’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘lifecycle’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘acoRn.R’ ‘clean_input.R’ ‘create_mock_dataset.R’
    ‘exclude_duplicates.R’ ‘find_parents.R’ ‘identify_duplicates.R’
Namespace in Imports field not imported from: ‘hunspell’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
checkRd: (-1) Ehrenfest.Rd:19: Lost braces
    19 | In this experiment there are i balls in Urn I, and remaining 2n-i balls in Urn II. Then at any instance, the probability of selecting a ball from Urn I and placing it in Urn II is i/2n, and the other way of placing a ball from Urn II to Urn I is (2n-i)/2n. At each instant we let the number i of balls in the Urn I to be the state of the system. Thus, the state space is S = { 0, 1, 2, \ldots, 2n }. Then we can pass from state i only to either of the states i-1 or i+1.
       |                                                                                                                                                                                                                                                                                                                                                                                        ^
checkRd: (-1) Ehrenfest.Rd:20: Lost braces
    20 | Here, S = {0, 1, \ldots, 2n}. 
       |           ^
Problems with news in ‘NEWS.md’:
No news entries found.
Namespace in Imports field not imported from: ‘svglite’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
Namespace in Imports field not imported from: ‘tidyr’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘compute_accumulation_metrics.R’
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘-std=c++14 -llapacke -llapack -lblas’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/activegp.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Namespaces in Imports field not imported from:
  ‘MASS’ ‘RcppProgress’
  All declared Imports should be used.
Found the following files/directories:
  ‘Example.jpeg’
checkRd: (-1) est_S_Plus_Plus_MethodA.Rd:31: Lost braces; missing escapes or markup?
    31 |   \item{trt_diff}{Estimate of treatment difference for S_{++} using Method A}
       |                                                          ^
checkRd: (-1) est_S_Plus_Plus_MethodB.Rd:31: Lost braces; missing escapes or markup?
    31 |   \item{trt_diff}{Estimate of treatment difference for S_{++} using Method B}
       |                                                          ^
checkRd: (-1) est_S_Star_Plus_MethodA.Rd:29: Lost braces; missing escapes or markup?
    29 |   \item{trt_diff}{Estimate of treatment difference for S_{++} using Method A}
       |                                                          ^
checkRd: (-1) est_S_Star_Plus_MethodB.Rd:29: Lost braces; missing escapes or markup?
    29 |   \item{trt_diff}{Estimate of treatment difference for S_{*+} using Method B}
       |                                                          ^
checkRd: (-1) adana.Rd:25: Lost braces; missing escapes or markup?
    25 |   \item{gatype}{Type of GA. \itemize{\item{"gga": generational GA}  \item{"ssga": steady state GA} } {Default value is "gga"}}
       |                                                                                                      ^
checkRd: (-1) adana.Rd:26: Lost braces; missing escapes or markup?
    26 |   \item{objective}{Type of optimization. \itemize{\item{"min": minimization}  \item{"max": maximization} } {Default value is "max"}}
       |                                                                                                            ^
checkRd: (-1) adana.Rd:34: Lost braces; missing escapes or markup?
    34 |                  {Default value is "initbin"}}
       |                  ^
checkRd: (-1) adana.Rd:56: Lost braces; missing escapes or markup?
    56 |                \itemize{\item{"integer"}  \item{"real"} } {Default value is "real"}}
       |                                                           ^
checkRd: (-1) adana.Rd:185: Lost braces; missing escapes or markup?
   185 |     {Default value is "w"}
       |     ^
Namespaces in Imports field not imported from:
  ‘lefko3’ ‘rlang’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
checkRd: (-1) adapt.Rd:46: Lost braces
    46 | \item{qvals}{a vector of values in [0, 1]U{Inf}. Q-values. See Details}
       |                                           ^
checkRd: (-1) corr_lfdr.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) corr_lfdr.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) corr_lfdr.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) corr_lfdr.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) corr_lfdr.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ctgm_lfdr.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ctgm_lfdr.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) plot_2d.Rd:40: Lost braces; missing escapes or markup?
    40 | \code{plot_2d_lfdr} gives the contour plot of local FDR estimates when all p-values are equal to \code{targetp}. It is recommended to run \code{plot_2d_lfdr} for multiple \code{targetp}'s ranging from {0.001, 0.005, 0.01, 0.05}.
       |                                                                                                                                                                                                          ^
checkRd: (-1) SVMDECON.Rd:23: Lost braces; missing escapes or markup?
    23 | and the best result from three values of v = {0.25, 0.5, 0.75}
       |                                              ^
checkRd: (-1) ada.Rd:171: Escaped LaTeX specials: \&
Namespace in Imports field not imported from: ‘sp’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘IntervalEstimator-class.Rd’ ‘PValue-class.Rd’
    ‘PointEstimator-class.Rd’ ‘analyze.R’ ‘estimators.R’
    ‘evaluate_estimator.R’ ‘fisher_information.R’
    ‘integrate_over_sample_space.R’ ‘mle_distribution.R’ ‘n2c2_helpers.R’
    ‘plot.R’ ‘print.R’ ‘reference_implementation.R’
Malformed Description field: should contain one or more complete sentences.
checkRd: (-1) med.groups.Rd:20: Lost braces; missing escapes or markup?
    20 | medication groups using the construction \emph{"{NAME}"}.
       |                                                 ^
checkRd: (-1) med.groups.Rd:26: Lost braces; missing escapes or markup?
    26 | Another example is "NotVita" defined as "(!{Vitamines})", which selects all
       |                                            ^
Namespace in Imports field not imported from: ‘Rdpack’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘cm_formula.R’ ‘tag_add.R’
Namespaces in Imports field not imported from:
  ‘fields’ ‘knitr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘BayesFactor’ ‘GGally’ ‘Hmisc’ ‘WRS2’ ‘boot’ ‘car’ ‘dplyr’ ‘effects’
  ‘effsize’ ‘forcats’ ‘ggplot2’ ‘lm.beta’ ‘nlme’ ‘readr’ ‘robust’
  ‘sandwich’ ‘sjstats’ ‘tidyr’
  All declared Imports should be used.
checkRd: (-1) count_cases.Rd:49: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) count_cases.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) count_cases.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) count_cases.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) count_cases.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) enrich.Rd:75: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) enrich.Rd:76: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) enrich.Rd:77: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) enrich.Rd:78: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) enrich.Rd:83: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) enrich.Rd:84: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) enrich.Rd:85: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) enrich.Rd:86: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) enrich.Rd:87: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) enrich.Rd:88: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fitaep.Rd:14: Lost braces
    14 | \item A sequence of goodness-of-fit measures consist of Akaike Information Criterion (\code{AIC}), Consistent Akaike Information Criterion (\code{CAIC}), Bayesian Information Criterion (\code{BIC}), Hannan-Quinn information criterion (\code{HQIC}), Anderson-Darling (\code{AD}), Cram\'{e}er-von Misses (\code{CVM}), Kolmogorov-Smirnov (\code{KS}), and log-likelihood (\code{log-likelihood}) statistics.
       |                                                                                                                                                                                                                                                                                              ^
Found the following files/directories:
  ‘table_AeRobiology’
Namespace in Imports field not imported from: ‘flextable’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘colour_table.R’ ‘save_govuk.Rd’
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) estimate.affinity.matrix.Rd:31: Lost braces; missing escapes or markup?
    31 | than \code{Y}, then those variables that appear in \code{X} but no in {Y}
       |                                                                       ^
checkRd: (-1) estimate.affinity.matrix.lowrank.Rd:36: Lost braces; missing escapes or markup?
    36 | \code{Y}, then those variables that appear in \code{X} but no in {Y} should
       |                                                                  ^
checkRd: (-1) show.correlations.Rd:47: Lost braces
    47 | code{ndims} dimensions. Defaults to all dimensions unless the latter are
       |     ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘am_data.Rd’
Found the following significant warnings:
  Warning: SystemRequirements: invalid C++ specification ‘C++’
See ‘/data/gannet/ripley/R/packages/tests-clang/AFR.Rcheck/00install.out’ for details.
Namespaces in Imports field not imported from:
  ‘mFilter’ ‘regclass’ ‘writexl’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘generate_workbook.Rd’
Namespace in Imports field not imported from: ‘mathjaxr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘docstring’
  All declared Imports should be used.
File ‘ahaz/libs/ahaz.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘devtools’ ‘mixexp’
  All declared Imports should be used.
checkRd: (-1) AEHMLE.Rd:42-45: Lost braces
    42 | \item{basehaz}{: {baseline hazard structure including baseline
       |                  ^
checkRd: (-1) AHMLE.Rd:41-43: Lost braces
    41 | \item{basehaz}{: {baseline hazard structure including baseline
       |                  ^
checkRd: (-1) aimPlot.Rd:39: Lost braces; missing escapes or markup?
    39 |  \item \code{Variable} {1st column: The various aims to be completed}
       |                        ^
checkRd: (-1) aimPlot.Rd:40: Lost braces; missing escapes or markup?
    40 |  \item \code{Percentage} {2nd column: The percentage of completeness}
       |                          ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘plot.GRiwrm.R’
checkRd: (-1) get_airnow_area.Rd:25: Lost braces; missing escapes or markup?
    25 | \item{parameters}{Parameter(s) to return data for. Choices are PM_{2.5}
       |                                                                   ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘airship.R’
Requires (indirectly) orphaned package: ‘extraDistr’
checkRd: (-1) ALF.Rd:47: Escaped LaTeX specials: \&
checkRd: (-1) APEXMS.Rd:14: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) APEXMS.Rd:15: Lost braces in \enumerate; meant \describe ?
File ‘AlgDesign/libs/AlgDesign.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) optimalfrequency.Rd:29: Escaped LaTeX specials: \$
checkRd: (-1) optimalfrequency.Rd:30: Escaped LaTeX specials: \$
checkRd: (-1) optimalfrequency.Rd:31: Escaped LaTeX specials: \$
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘lambda_functions.R’ ‘likelihood-space.R’ ‘snc.R’
checkRd: (-1) allestimates.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) allestimates.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) allestimates.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) allestimates.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) compare_cohorts.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) compare_cohorts.Rd:36: Lost braces in \itemize; meant \describe ?
File ‘alphabetr/libs/alphabetr.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) UN1.Rd:16: Escaped LaTeX specials: \$
checkRd: (-1) rateprof.Rd:64: Escaped LaTeX specials: \&
Malformed Title field: should not end in a period.
checkRd: (-1) altopt.ic.Rd:63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.ic.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.ic.Rd:65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.ic.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.ic.Rd:67: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.ic.Rd:68: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.ic.Rd:69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.rc.Rd:60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.rc.Rd:61: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.rc.Rd:62: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.rc.Rd:63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.rc.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.rc.Rd:65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) altopt.rc.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
Namespaces in Imports field not imported from:
  ‘magrittr’ ‘tidyverse’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘jsonlite’
  All declared Imports should be used.
checkRd: (-1) convertCoord.Rd:32: Lost braces
    32 | Please check here{https://lbs.amap.com/faq/account/key/72}}
       |                  ^
checkRd: (-1) convertCoord.individual.Rd:33: Lost braces
    33 | Please check here{https://lbs.amap.com/faq/account/key/72}}
       |                  ^
checkRd: (-1) getCoord.Rd:39: Lost braces
    39 | Please check here{https://lbs.amap.com/faq/account/key/72}}
       |                  ^
checkRd: (-1) getCoord.individual.Rd:39: Lost braces
    39 | here{https://lbs.amap.com/faq/account/key/72}}
       |     ^
checkRd: (-1) getLocation.Rd:60: Lost braces; missing escapes or markup?
    60 | {https://lbs.amap.com/faq/account/key/72}}
       | ^
checkRd: (-1) getLocation.individual.Rd:60: Lost braces
    60 | Please check here{https://lbs.amap.com/faq/account/key/72}}
       |                  ^
Package required but not available: ‘tidyjson’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Found the following HTML validation problems:
ammistability.html:306:1 (ASI.AMMI.Rd:37): Warning: <script> anchor "MathJax-script" already defined
ammistability.html:444:52 (ASTAB.AMMI.Rd:42): Warning: <script> anchor "MathJax-script" already defined
ammistability.html:590:52 (AVAMGE.AMMI.Rd:43): Warning: <script> anchor "MathJax-script" already defined
ammistability.html:741:39 (DA.AMMI.Rd:45): Warning: <script> anchor "MathJax-script" already defined
ammistability.html:890:26 (DZ.AMMI.Rd:46): Warning: <script> anchor "MathJax-script" already defined
ammistability.html:1033:63 (EV.AMMI.Rd:42): Warning: <script> anchor "MathJax-script" already defined
ammistability.html:1177:52 (FA.AMMI.Rd:42): Warning: <script> anchor "MathJax-script" already defined
ammistability.html:1345:52 (MASI.AMMI.Rd:45): Warning: <script> anchor "MathJax-script" already defined
ammistability.html:1506:39 (MASV.AMMI.Rd:45): Warning: <script> anchor "MathJax-script" already defined
ammistability.html:1689:63 (SIPC.AMMI.Rd:42): Warning: <script> anchor "MathJax-script" already defined
ammistability.html:1841:1 (SSI.Rd:35): Warning: <script> anchor "MathJax-script" already defined
ammistability.html:2019:26 (ZA.AMMI.Rd:44): Warning: <script> anchor "MathJax-script" already defined
Namespaces in Imports field not imported from:
  ‘devtools’ ‘dplyr’ ‘gridExtra’
  All declared Imports should be used.
checkRd: (-1) aMNLFA.prune.Rd:15: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aMNLFA.prune.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aMNLFA.prune.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aMNLFA.prune.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aMNLFA.prune.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aMNLFA.prune.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aMNLFA.prune.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aMNLFA.prune.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
Namespace in Imports field not imported from: ‘kernlab’
  All declared Imports should be used.
checkRd: (-1) AmpliconDuo-package.Rd:37-39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) AmpliconDuo-package.Rd:40-42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) AmpliconDuo-package.Rd:43-46: Lost braces in \itemize; meant \describe ?
checkRd: (-1) AmpliconDuo-package.Rd:47-49: Lost braces in \itemize; meant \describe ?
checkRd: (-1) AmpliconDuo-package.Rd:50-52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) AmpliconDuo-package.Rd:53-55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) AmpliconDuo-package.Rd:56-58: Lost braces in \itemize; meant \describe ?
Found the following files/directories:
  ‘RtmpnlCm5S\amCluster_7TB90LEP.htm’
  ‘RtmpnlCm5S\amPairwise_CQBN03XH.htm’
  ‘RtmpnlCm5S\amUnique_Z9FUCT1W.htm’
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/AnaCoDa.Rcheck/00install.out’ for details.
checkRd: (-1) AncestryMapper2.0-package.Rd:33: Escaped LaTeX specials: \~
checkRd: (-1) AncestryMapper2.0-package.Rd:38: Escaped LaTeX specials: \~
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘app.R’
checkRd: (-1) animate.Rd:625-627: Lost braces
   625 | group = function(...) {
       |                       ^
checkRd: (-1) PV_post_triang_3.Rd:7: Escaped LaTeX specials: \_ \_
checkRd: (-1) PV_post_triang_3.Rd:22: Escaped LaTeX specials: \_ \_
checkRd: (-1) PV_pre_triang_3.Rd:7: Escaped LaTeX specials: \_ \_
checkRd: (-1) PV_pre_triang_3.Rd:22: Escaped LaTeX specials: \_ \_
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘ANOFA-contrastFrequencies.R’ ‘ANOFA-emFrequencies.R’
Namespace in Imports field not imported from: ‘class’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘car’ ‘datasets’ ‘dplyr’ ‘ggplot2’ ‘plotly’ ‘shiny’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DescTools’ ‘HH’ ‘datasets’ ‘dplyr’ ‘rhandsontable’ ‘shiny’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DescTools’ ‘HH’ ‘datasets’ ‘dplyr’ ‘rhandsontable’ ‘shiny’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘curl’ ‘httr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘RcppParallel’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘pls’
  All declared Imports should be used.
Obsolete C++11 standard request will be ignored
checkRd: (-1) predict_adjust.Rd:77: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict_adjust.Rd:78: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict_adjust.Rd:79: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict_adjust.Rd:80: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) print.predict_adjust.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) print.predict_adjust.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) print.predict_adjust.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) print.predict_adjust.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) iconplot.Rd:172: Lost braces
   172 |     the height of the area containing the panels and a margin of size code{100 * 0.1} 
       |                                                                           ^
Namespace in Imports field not imported from: ‘testthat’
  All declared Imports should be used.
Found the following files/directories:
  ‘APBinary_PPV.csv’ ‘APBinary_TPF.csv’
  ‘APBinary_ap_summary(method=perturbation,B=1500).csv’
  ‘APBinary_auc_summary(method=perturbation,B=1500).csv’
  ‘APSurv_PPV.csv’ ‘APSurv_TPF.csv’
  ‘APSurv_ap_summary(method=bootstrap,B=500).csv’
  ‘APSurv_auc_summary(method=bootstrap,B=500).csv’
  ‘CompareAP_Binary_dap_summary(method=none).csv’
  ‘CompareAP_Survival_dap_summary(method=bootstrap,B=500).csv’
checkRd: (-1) getages.Rd:11: Lost braces; missing escapes or markup?
    11 | containing the amalgamated $^{40}$Ar$^*$/$^{39}$Ar$_K$-ratios and
       |                              ^
checkRd: (-1) getages.Rd:11: Lost braces; missing escapes or markup?
    11 | containing the amalgamated $^{40}$Ar$^*$/$^{39}$Ar$_K$-ratios and
       |                                            ^
Namespaces in Imports field not imported from:
  ‘bannerCommenter’ ‘config’ ‘feather’ ‘here’ ‘knitr’ ‘log4r’ ‘ps’
  ‘rmarkdown’ ‘skimr’ ‘snakecase’ ‘testthat’ ‘tidyverse’
  All declared Imports should be used.
checkRd: (-1) estimate_t0.Rd:41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) estimate_t0.Rd:42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) estimate_t0.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) fitArCo.Rd:73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) fitArCo.Rd:74: Lost braces in \itemize; meant \describe ?
checkRd: (-1) fitArCo.Rd:75: Lost braces in \itemize; meant \describe ?
checkRd: (-1) recm.Rd:55: Lost braces; missing escapes or markup?
    55 | {In all cases,} \eqn{x_{j,t-1}} {in} \eqn{ECT} {is replaced by} \eqn{x_{j,t} \;\;\;\;\; \forall \;\; q_{j} = 0}
       | ^
checkRd: (-1) recm.Rd:55: Lost braces; missing escapes or markup?
    55 | {In all cases,} \eqn{x_{j,t-1}} {in} \eqn{ECT} {is replaced by} \eqn{x_{j,t} \;\;\;\;\; \forall \;\; q_{j} = 0}
       |                                 ^
checkRd: (-1) recm.Rd:55: Lost braces; missing escapes or markup?
    55 | {In all cases,} \eqn{x_{j,t-1}} {in} \eqn{ECT} {is replaced by} \eqn{x_{j,t} \;\;\;\;\; \forall \;\; q_{j} = 0}
       |                                                ^
checkRd: (-1) uecm.Rd:76: Lost braces; missing escapes or markup?
    76 |   {In addition,} \eqn{x_{j,t-1}} {and} \eqn{\Delta x_{j,t}} {cancel out
       |   ^
checkRd: (-1) uecm.Rd:76: Lost braces; missing escapes or markup?
    76 |   {In addition,} \eqn{x_{j,t-1}} {and} \eqn{\Delta x_{j,t}} {cancel out
       |                                  ^
checkRd: (-1) uecm.Rd:76-77: Lost braces
    76 |   {In addition,} \eqn{x_{j,t-1}} {and} \eqn{\Delta x_{j,t}} {cancel out
       |                                                             ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘adb_archive.R’ ‘adb_backup.R’ ‘adb_querry.R’ ‘helpers.R’
    ‘normGeometry.R’
Requires (indirectly) orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘sp’
  All declared Imports should be used.
Package has both ‘src/Makevars.in’ and ‘src/Makevars’.
Installation with --no-configure' is unlikely to work.  If you intended
‘src/Makevars’ to be used on Windows, rename it to ‘src/Makevars.win’
otherwise remove it.  If ‘configure’ created ‘src/Makevars’, you need a
‘cleanup’ script.
File ‘arrow/libs/arrow.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘SET_ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
checkRd: (-1) breast_cancer_clean_features.Rd:45: Escaped LaTeX specials: \&
Namespace in Imports field not imported from: ‘methods’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘purrr’
  All declared Imports should be used.
File ‘ash/libs/ash.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) plot.AssetPricing.Rd:199-200: Lost braces
   199 |   yakka. (Note that \code{flap} stands for dQuote{function list
       |                                                  ^
Namespaces in Imports field not imported from:
  ‘DHARMa’ ‘DT’ ‘MASS’ ‘MVN’ ‘bestNormalize’ ‘brglm2’ ‘broom’
  ‘broom.mixed’ ‘bslib’ ‘car’ ‘coin’ ‘compositions’ ‘correlation’
  ‘dplyr’ ‘effectsize’ ‘fontawesome’ ‘ggpubr’ ‘glmmTMB’ ‘htmltools’
  ‘kableExtra’ ‘knitr’ ‘lme4’ ‘lmerTest’ ‘modelbased’ ‘nnet’
  ‘patchwork’ ‘performance’ ‘rstatix’ ‘see’ ‘shinyBS’ ‘shinyjs’
  ‘shinyscreenshot’ ‘sjPlot’ ‘tidyverse’
  All declared Imports should be used.
checkRd: (-1) ataCoKriging.Rd:52: Lost braces; missing escapes or markup?
    52 | only one contrained condition for all points and all variables, \\sum_{i=1}^n\\lambda_i +\\sum_{j=1}^m\\beta_j =1, assuming expected means of variables known and constant with the study area.
       |                                                                       ^
checkRd: (-1) ataCoKriging.Rd:52: Lost braces; missing escapes or markup?
    52 | only one contrained condition for all points and all variables, \\sum_{i=1}^n\\lambda_i +\\sum_{j=1}^m\\beta_j =1, assuming expected means of variables known and constant with the study area.
       |                                                                                                ^
checkRd: (-1) simulation_dgp.Rd:14: Lost braces; missing escapes or markup?
    14 | \item{x_discrete}{TRUE if the distribution of the covariate is uniform on {-3.0, -2.9, ..., 3.0} and
       |                                                                           ^
checkRd: (-1) simulation_dgp.Rd:23: Lost braces
    23 | \item{att_oracle}{the sample analog of E[D{Y(1) - Y(0)}|D=1]}
       |                                           ^
Namespace in Imports field not imported from: ‘testthat’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘R.rsp’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘atpol_grids.R’ ‘miscRscript.r’ ‘plot_points_on_atpol.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘catchment_sim.R’ ‘elementary_pop.R’
Namespaces in Imports field not imported from:
  ‘dlnm’ ‘ggplot2’ ‘mvmeta’ ‘pbs’ ‘tsModel’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘tidyr’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘gg_freiburg.Rd’
Namespace in Imports field not imported from: ‘abind’
  All declared Imports should be used.
checkRd: (-1) get_candidate_covariates.Rd:50: Lost braces
    50 | \item \code{covars_data}   {The \code{data.frame} that is filtered out of \code{df} with only the selected \code{covars}}. The values of the
       |                            ^
checkRd: (-1) get_candidate_covariates.Rd:53: Lost braces
    53 | \item \code{patientIds}   {The list of patient ids present in the original input \code{df}. This is exactly the same as the input \code{patientIdVector}}
       |                           ^
checkRd: (-1) get_prioritised_covariates.Rd:40: Lost braces
    40 | \item \code{multiplicative_bias}{The absolute log of the multiplicative bias term for each of the auto-selected prioritised covariates}
       |                                 ^
checkRd: (-1) get_recurrence_covariates.Rd:34: Lost braces
    34 | \item \code{patientIds}   {The list of patient ids present in the original input \code{df}. This is exactly the same as the input \code{patientIdVector}}
       |                           ^
Requires (indirectly) orphaned package: ‘extraDistr’
checkRd: (-1) Autoplotprotein-package.Rd:27: Lost braces
    27 | code{\link{help}}
       |     ^
checkRd: (-1) Autoplotprotein.Rd:25: Lost braces
    25 | code{\link{help}}
       |     ^
checkRd: (-1) data.Rd:22: Lost braces
    22 | code{\link{help}}
       |     ^
checkRd: (-1) domain_data.Rd:29: Lost braces
    29 | code{\link{help}}
       |     ^
checkRd: (-1) length_data.Rd:32: Lost braces
    32 | code{\link{help}}
       |     ^
checkRd: (-1) plotdomain.Rd:30: Lost braces
    30 | code{\link{help}}
       |     ^
checkRd: (-1) plotmutagensis.Rd:30: Lost braces
    30 | code{\link{help}}
       |     ^
checkRd: (-1) plotsite.Rd:30: Lost braces
    30 | code{\link{help}}
       |     ^
checkRd: (-1) site_data.Rd:30: Lost braces
    30 | code{\link{help}}
       |     ^
checkRd: (-1) noauto_scorecard.Rd:20: Lost braces; missing escapes or markup?
    20 | \item{fit}{See glm {stats}.}
       |                    ^
checkRd: (-1) noauto_scorecard2.Rd:21: Lost braces; missing escapes or markup?
    21 | \item{fit}{See glm {stats}.}
       |                    ^
Namespaces in Imports field not imported from:
  ‘Ckmeans.1d.dp’ ‘broom.mixed’ ‘igraph’
  All declared Imports should be used.
Running examples in ‘autostats-Ex.R’ failed
The error most likely occurred in:

> ### Name: auto_variable_contributions
> ### Title: Plot Variable Contributions
> ### Aliases: auto_variable_contributions
> 
> ### ** Examples
> 
> 
> iris %>%
+ framecleaner::create_dummies() %>%
+ auto_variable_contributions(
+  tidy_formula(., target = Petal.Width)
+  )
1 column(s) have become 3 dummy columns
Error in if (validate & xgb_obj != "multi:softprob") { : 
  argument is of length zero
Calls: %>% -> auto_variable_contributions
Execution halted
Error(s) in re-building vignettes:
--- re-building ‘autostats.Rmd’ using rmarkdown

Quitting from autostats.Rmd:40-43 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `if (validate & xgb_obj != "multi:softprob") ...`:
! argument is of length zero
---
Backtrace:
    ▆
 1. ├─iris %>% auto_variable_contributions(species_formula)
 2. ├─autostats::auto_variable_contributions(., species_formula)
 3. │ ├─base::suppressWarnings(...)
 4. │ │ └─base::withCallingHandlers(...)
 5. │ └─data %>% tidy_xgboost(formula, validate = FALSE)
 6. └─autostats::tidy_xgboost(., formula, validate = FALSE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'autostats.Rmd' failed with diagnostics:
argument is of length zero
--- failed re-building ‘autostats.Rmd’

--- re-building ‘tidyXgboost.Rmd’ using rmarkdown

Quitting from tidyXgboost.Rmd:78-89 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `xgb$feature_names <- nms`:
! ALTLIST classes must provide a Set_elt method [class: XGBAltrepPointerClass, pkg: xgboost]
---
Backtrace:
    ▆
 1. ├─xgb_tuned_fit_grid %>% visualize_model()
 2. ├─autostats::visualize_model(.)
 3. └─autostats:::visualize_model.xgb.Booster(.)
 4.   └─autostats:::plot_varimp_xgboost(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'tidyXgboost.Rmd' failed with diagnostics:
ALTLIST classes must provide a Set_elt method [class: XGBAltrepPointerClass, pkg: xgboost]
--- failed re-building ‘tidyXgboost.Rmd’

SUMMARY: processing the following files failed:
  ‘autostats.Rmd’ ‘tidyXgboost.Rmd’

Error: Vignette re-building failed.
Execution halted
Requires (indirectly) orphaned package: ‘extraDistr’
Namespaces in Imports field not imported from:
  ‘plotly’ ‘shinycssloaders’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘Hmisc’
  All declared Imports should be used.
checkRd: (-1) avar_mo_cpp.Rd:15: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) avar_mo_cpp.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) avar_mo_cpp.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) avar_to_cpp.Rd:15: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) avar_to_cpp.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) avar_to_cpp.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
Namespaces in Imports field not imported from:
  ‘readxl’ ‘reshape2’ ‘stringr’ ‘tidyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘bslib’ ‘rclipboard’ ‘rmarkdown’
  All declared Imports should be used.
checkRd: (-1) ec2_create_security_group.Rd:66: Escaped LaTeX specials: \#
checkRd: (-1) ec2_create_security_group.Rd:66: Escaped LaTeX specials: \$
checkRd: (-1) ec2_create_security_group.Rd:79: Escaped LaTeX specials: \#
checkRd: (-1) ec2_create_security_group.Rd:79: Escaped LaTeX specials: \$
Requires orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘openssl’
  All declared Imports should be used.
checkRd: (-1) cosmos_mongo.Rd:21: Lost braces; missing escapes or markup?
    21 | \item{host}{For \code{cosmos_mongo_endpoint}, the URL of the Cosmos DB MongoDB endpoint. Usually of the form "https://{account-name}.mongo.cosmos.azure.com:443/".}
       |                                                                                                                       ^
Namespace in Imports field not imported from: ‘curl’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘jose’ ‘openssl’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘httr’ ‘openssl’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘round_rect.r’ ‘waffle.r’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘get_cyclone.R’
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘testthat’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘crosstalk’ ‘plotly’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘dexpfit.R’ ‘expfit.R’ ‘icarfit.R’ ‘logisticfit.R’
checkRd: (-1) barcoding.spe.identify2.Rd:27: Lost braces; missing escapes or markup?
    27 | read.dna() from package {ape} was used to obtain DNAbin object for unaligned non-coding barcodes.
       |                         ^
File ‘Barnard/libs/Barnard.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘base64enc/libs/base64enc.so’:
  Found non-API call to R: ‘SETLENGTH’
File ‘base64enc/libs/base64enc.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

Compiled code should not call non-API entry points in R.
It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘chadwick_installation.R’
Namespace in Imports field not imported from: ‘splines’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘ggplot2’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘vtable’
  All declared Imports should be used.
File ‘batman/libs/batman.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) simdata.Rd:50: height/width attributes should be in pixels
checkRd: (-1) simdata.Rd:66: height/width attributes should be in pixels
checkRd: (-1) simdata.Rd:78: height/width attributes should be in pixels
checkRd: (-1) simdata.Rd:89: height/width attributes should be in pixels
checkRd: (-1) simdata.Rd:103: height/width attributes should be in pixels
checkRd: (-1) simdata.Rd:113: height/width attributes should be in pixels
checkRd: (-1) simdata.Rd:119: height/width attributes should be in pixels
checkRd: (-1) coupledMetropolis.Rd:83-85: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:86-88: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:89-91: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:92-94: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:95-97: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:98-100: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:101-103: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:104-106: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:107-109: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:110-112: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:113-115: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:116-118: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:119-121: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:122-124: Lost braces in \itemize; meant \describe ?
checkRd: (-1) coupledMetropolis.Rd:125-127: Lost braces in \itemize; meant \describe ?
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘CXX’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/BayesChange.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Requires orphaned package: ‘extraDistr’
checkRd: (-1) dilution.Rd:13: Escaped LaTeX specials: \$
checkRd: (-1) dilution.Rd:15: Escaped LaTeX specials: \$
checkRd: (-1) dilution.Rd:16: Escaped LaTeX specials: \$
checkRd: (-1) dilution.Rd:17: Escaped LaTeX specials: \$
checkRd: (-1) personality.Rd:15: Escaped LaTeX specials: \$
checkRd: (-1) personality.Rd:16: Escaped LaTeX specials: \$
checkRd: (-1) personality.Rd:17: Escaped LaTeX specials: \$
checkRd: (-1) bayesDccGarch.Rd:91: Lost braces; missing escapes or markup?
    91 | \item{$H_n1 }{ Bayesian prediction of volatilities and co-volatilities for y_{n+1}.}
       |                                                                              ^
checkRd: (-1) bayesDccGarch.Rd:92: Lost braces; missing escapes or markup?
    92 | \item{$R_n1 }{ Bayesian prediction of coditional correlation for y_{n+1}.}
       |                                                                    ^
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) GroupSingleVoxelFETS.Rd:53: Lost braces
    53 | online trajectories related to the state parameter, the simulated BOLD responses, \mjseqn{\hat{Y}}{ascii}.
       |                                                                                                   ^
Found the following HTML validation problems:
BayesDLMfMRI.html:1160:1 (GroupSingleVoxelFFBS.Rd:54): Warning: <script> anchor "MathJax-script" already defined
BayesDLMfMRI.html:1286:1 (GroupSingleVoxelFSTS.Rd:54): Warning: <script> anchor "MathJax-script" already defined
BayesDLMfMRI.html:1412:1 (SingleVoxelFETS.Rd:62): Warning: <script> anchor "MathJax-script" already defined
BayesDLMfMRI.html:1553:1 (SingleVoxelFFBS.Rd:59): Warning: <script> anchor "MathJax-script" already defined
BayesDLMfMRI.html:1689:1 (SingleVoxelFSTS.Rd:59): Warning: <script> anchor "MathJax-script" already defined
BayesDLMfMRI.html:1852:1 (ffdEvidenceFETS.Rd:62): Warning: <script> anchor "MathJax-script" already defined
BayesDLMfMRI.html:1993:1 (ffdEvidenceFFBS.Rd:58): Warning: <script> anchor "MathJax-script" already defined
BayesDLMfMRI.html:2127:1 (ffdEvidenceFSTS.Rd:58): Warning: <script> anchor "MathJax-script" already defined
BayesDLMfMRI.html:2261:1 (ffdGroupEvidenceFETS.Rd:60): Warning: <script> anchor "MathJax-script" already defined
BayesDLMfMRI.html:2400:1 (ffdGroupEvidenceFFBS.Rd:56): Warning: <script> anchor "MathJax-script" already defined
BayesDLMfMRI.html:2533:1 (ffdGroupEvidenceFSTS.Rd:56): Warning: <script> anchor "MathJax-script" already defined
Namespaces in Imports field not imported from:
  ‘MASS’ ‘MatrixModels’
  All declared Imports should be used.
Requires (indirectly) orphaned package: ‘extraDistr’
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’
  All declared Imports should be used.
checkRd: (-1) gMLE.bb.Rd:18: Lost braces
    18 |   \item{optim.method}{optimization method in \code{optim()}{stats}.}
       |                                                            ^
Namespace in Imports field not imported from: ‘plyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘gridExtra’ ‘loo’ ‘stringr’ ‘xlsx’
  All declared Imports should be used.
checkRd: (-1) bma.bx.cy.Rd:69: Lost braces
    69 | the initial values for parameters in models. For example, inits<-function(){list(alpha=0,beta=0,c=0,var1=0.5,r=1,lamda=0.01)}.
       |                                                                            ^
checkRd: (-1) DE.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) DE.Rd:44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) DE.Rd:45: Lost braces in \itemize; meant \describe ?
checkRd: (-1) DE.Rd:46: Lost braces in \itemize; meant \describe ?
checkRd: (-1) DEzs.Rd:58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) DEzs.Rd:59: Lost braces in \itemize; meant \describe ?
checkRd: (-1) DEzs.Rd:60: Lost braces in \itemize; meant \describe ?
checkRd: (-1) DEzs.Rd:61: Lost braces in \itemize; meant \describe ?
Problems with news in ‘NEWS.md’:
No news entries found.
Namespace in Imports field not imported from: ‘FastGP’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘helper_functions.R’
Requires orphaned package: ‘extraDistr’
Namespaces in Imports field not imported from:
  ‘HDInterval’ ‘carData’ ‘rjags’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) pulse_of_the_nation.Rd:10: Escaped LaTeX specials: \$
Namespaces in Imports field not imported from:
  ‘MASS’ ‘Matrix’ ‘matrixcalc’ ‘stats’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
checkRd: (-1) BayesTreePrior.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) BayesTreePrior.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) BayesTreePrior.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) BayesTreePrior.Rd:41: Lost braces in \itemize; meant \describe ?
File ‘BayesTree/libs/BayesTree.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/BayesXsrc.Rcheck/00install.out’ for details.
checkRd: (-1) runUI.Rd:11: Lost braces
    11 | Runs a \bold{Shiny} application. This function normally does not return; interrupt bold{R} to stop the application (usually by pressing Ctrl+C or Esc).
       |                                                                                        ^
checkRd: (-1) getOperatingSystem.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) getOperatingSystem.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) getOperatingSystem.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) getOperatingSystem.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) getOperatingSystem.Rd:30: Lost braces in \itemize; meant \describe ?
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘boot_bw.R’ ‘boot_bw_estimate.R’ ‘post_strat_estimation.R’
File ‘BCBCSF/libs/BCBCSF.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following files/directories:
  ‘.fitbcbcsf_alpha1_mu_3_n_31_p_4026_nfsel_20_biascor_1.RData’
  ‘.fitbcbcsf_alpha1_mu_3_n_31_p_4026_nfsel_50_biascor_1.RData’
  ‘.fitbcbcsf_alpha1_mu_3_n_53_p_4026_nfsel_20_biascor_1.RData’
  ‘.fitbcbcsf_alpha1_mu_3_n_53_p_4026_nfsel_50_biascor_1.RData’
checkRd: (-1) goftype1.Rd:4: Lost braces
     4 | \description{The goodness-of-fit (GOF) measures consist of Anderson-Darling (\code{AD}) and Cram\'{e}er-von Misses (\code{CVM}) statistics for progressive type-I interval censoring scheme are given, respectively, by
       |                                                                                                   ^
Running examples in ‘BcDiag-Ex.R’ failed
The error most likely occurred in:

> ### Name: anomedOnlybic
> ### Title: The anomedOnlybic function
> ### Aliases: anomedOnlybic
> ### Keywords: anomedOnlybic
> 
> ### ** Examples
> 
> data(breastc)
> library(biclust)
Error in library(biclust) : there is no package called ‘biclust’
Execution halted
Namespaces in Imports field not imported from:
  ‘coda’ ‘knitr’ ‘plyr’
  All declared Imports should be used.
checkRd: (-1) WindowSweep.Rd:32: Lost braces
    32 | `code{\link{GetVT}}`.   Otherwise, any column (e.g. \code{"Depth"}) in the 
       |      ^
checkRd: (-1) WindowSweep.Rd:36: Lost braces
    36 | \code{T.mid}  from the output of the `code{\link{GetVT}}`.}
       |                                           ^
Namespaces in Imports field not imported from:
  ‘knitr’ ‘rlang’
  All declared Imports should be used.
checkRd: (-1) bde.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:47: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:48: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:49: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) bde.Rd:56: Lost braces in \itemize; meant \describe ?
Found the following files/directories:
  ‘dump.txt’
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘chron’ ‘colorspace’ ‘gtable’ ‘htmltools’ ‘htmlwidgets’
  ‘httpuv’ ‘magrittr’ ‘munsell’ ‘plyr’ ‘scales’ ‘stringi’ ‘xtable’
  ‘yaml’
  All declared Imports should be used.
Found the following files/directories:
  ‘beast_plot_toy.pdf’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘apply_contrast.R’ ‘apply_contrast.Rd’ ‘average_predictions.Rd’
    ‘estimate_varcov.R’ ‘estimate_varcov.Rd’ ‘get_marginal_effect.R’
    ‘get_marginal_effect.Rd’ ‘predict_counterfactuals.R’
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘fitting.R’
Requires orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘rstantools’
  All declared Imports should be used.
File ‘BenfordTests/libs/BenfordTests.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) sockeye.Rd:13-14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) sockeye.Rd:15-16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) stagnant.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) stagnant.Rd:14: Lost braces in \itemize; meant \describe ?
Namespace in Imports field not imported from: ‘BiDAG’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘compiler’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘dplyr’ ‘ggplot2’ ‘readxl’ ‘rlist’ ‘shinyBS’ ‘shinyWidgets’
  ‘shinydashboard’ ‘shinyjs’ ‘shinythemes’ ‘stringr’ ‘tidyr’
  All declared Imports should be used.
Malformed Title field: should not end in a period.
checkRd: (-1) BETSsearch.Rd:56: Lost braces
    56 |        \item{To exclude whole expressions from the search, surround them with code{' '} and insert a \code{~} before each of them.
       |                                                                                   ^
checkRd: (-1) dummy.Rd:23: Lost braces; missing escapes or markup?
    23 | \item{date}{a \code{list}. The periods for which the dummy must be set to one. Periods must be represented as {integer vectors}, as described for \code{start} and \code{end}.}
       |                                                                                                               ^
checkRd: (-1) dummy.Rd:25: Lost braces; missing escapes or markup?
    25 | \item{from}{An \code{integer vector} The starting period of a sequence of perids for which the dummy must be set to one. Periods must be represented as {integer vectors}, as described for \code{start} and \code{end}.}
       |                                                                                                                                                         ^
checkRd: (-1) dummy.Rd:27: Lost braces; missing escapes or markup?
    27 | \item{to}{The ending period of a sequence of perids for which the dummy must be set to one. Periods must be represented as {integer vectors}, as described for \code{start} and \code{end}.}
       |                                                                                                                            ^
Requires orphaned package: ‘extraDistr’
Requires (indirectly) orphaned package: ‘extraDistr’
checkRd: (-1) bgmm-package.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) sp_bgsmtr.Rd:42: Lost braces; missing escapes or markup?
    42 | \item{c.star}{The threshold for computing posterior tail probabilities p_{ij} for Bayesian FDR as defined in Section 3.2 of  Song, Ge et al.(2019). If not specified the default is to set this threshold as the minimum posterior standard deviation, where the minimum is taken over all regression coefficients in the model.}
       |                                                                          ^
checkRd: (-1) dotPlot.Rd:56: Escaped LaTeX specials: \&
File ‘BiasedUrn/libs/BiasedUrn.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) Jeffreysbs.Rd:17: Escaped LaTeX specials: \&
Namespace in Imports field not imported from: ‘RBGL’
  All declared Imports should be used.
checkRd: (-1) BiDimRegression.Rd:29: Lost braces; missing escapes or markup?
    29 | \item \code{euclidean.df1, affine.df1} -  degrees of freedom of the nominator used for the F-statistics propagated by Nakaya (1997); df1 = p-2, with p is the number of elements  needed to calculate the referring model: p=4 for the Euclidean and p=6 for the affine geometry {Nakaya, 1997, Table 1}.
       |                                                                                                                                                                                                                                                                                  ^
Package has both ‘src/Makevars.in’ and ‘src/Makevars’.
Installation with --no-configure' is unlikely to work.  If you intended
‘src/Makevars’ to be used on Windows, rename it to ‘src/Makevars.win’
otherwise remove it.  If ‘configure’ created ‘src/Makevars’, you need a
‘cleanup’ script.
Namespace in Imports field not imported from: ‘httr’
  All declared Imports should be used.
Found the following calls to data() loading into the global environment:
File ‘biglm/R/bigglm.R’:
  data(reset = TRUE)
  data(reset = FALSE)
See section ‘Good practice’ in ‘?data’.
checkRd: (-1) pQF.Rd:30: Lost braces; missing escapes or markup?
    30 | When \code{M} is not square, a randomised estimator for the trace of \code{crossprod(M)^2} is used. This is the sample size. When \code{M} is of \code{"matrixfree"} and does not include the trace of {crossprod(M)} as a component, this sample size will also be used to compute that. See Hutchinson reference. }
       |                                                                                                                                                                                                        ^
Namespace in Imports field not imported from: ‘survival’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘tibble’
  All declared Imports should be used.
Found the following files/directories:
  ‘ccf_ccf_ID31_ID32_res.jpg’ ‘ccf_ccf_ID31_ID32_res.pdf’
  ‘output_ENSO_NHSST.tmp’ ‘plot_plot_ts_RAW_BIN_enso_sst.pdf’
  ‘plot_plot_ts_RAW_BIN_enso_sst01.png’
  ‘plot_plot_ts_RAW_BIN_enso_sst02.png’
  ‘plot_plot_ts_RAW_BIN_enso_sst03.png’
  ‘plot_plot_ts_RAW_BIN_enso_sst04.png’ ‘plot_ts_ACER_ABRUPT.pdf’
  ‘plot_ts_ACER_ABRUPT01.png’ ‘plot_ts_ACER_ABRUPT02.png’
  ‘plot_ts_ACER_ABRUPT03.png’ ‘plot_ts_ACER_ABRUPT04.png’
  ‘salida_ACER_ABRUPT.tmp’ ‘scaterplot_scatterplot_ENSO_SST.jpg’
  ‘scaterplot_scatterplot_ENSO_SST.pdf’
checkRd: (-1) binom.confint.Rd:28-29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) binom.confint.Rd:30-31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) binom.confint.Rd:32-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) binom.confint.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) binom.confint.Rd:39-40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) binom.confint.Rd:41: Lost braces in \itemize; meant \describe ?
checkRd: (-1) binom.confint.Rd:42: Lost braces in \itemize; meant \describe ?
checkRd: (-1) binom.confint.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) binom.confint.Rd:44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) binom.confint.Rd:45: Lost braces in \itemize; meant \describe ?
File ‘binom/libs/binom.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘gtools’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘bbassets.R’
checkRd: (-1) calc_ed.Rd:14: Lost braces; missing escapes or markup?
    14 | of groups or less than \code{a}. Both \code{a} and {b} must have the the same 
       |                                                    ^
checkRd: (-1) calc_pi.Rd:14: Lost braces; missing escapes or markup?
    14 | of groups or less than \code{a}. Both \code{a} and {b} must have the the same 
       |                                                    ^
checkRd: (-1) calc_si.Rd:14: Lost braces; missing escapes or markup?
    14 | of groups or less than \code{a}. Both \code{a} and {b} must have the the same 
       |                                                    ^
checkRd: (-1) cluster_reg_exp.Rd:15: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) cluster_reg_exp.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) cluster_reg_exp.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) cluster_reg_exp.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mmds.2D.multi.Rd:118: Lost braces
   118 |   a numeric value in inches indicating the height of graph outfile. Default differs by outfile.type. The resolution for tiff and png figures is 150 dpi. See \code{pdf}, code{tiff}, \code{png}, \code{postscript}.
       |                                                                                                                                                                              ^
checkRd: (-1) mmds.2D.plot.Rd:134: Lost braces
   134 |   a numeric value in inches indicating the height of graph outfile. Default differs by outfile.type. The resolution for tiff and png figures is 150 dpi. See \code{pdf}, code{tiff}, \code{png}, \code{postscript}.
       |                                                                                                                                                                              ^
Namespace in Imports field not imported from: ‘Rcpp’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘PCAbiplot_Helper.R’ ‘TDAbiplot.R’ ‘TDAbiplot.Rd’
    ‘TDAbiplot_helper.R’ ‘insertAxDeets.R’ ‘insertDataTable.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘AoD.Rd’ ‘AoD.biplot.Rd’ ‘CA.Rd’ ‘CA.biplot.Rd’ ‘CLPs.Rd’ ‘CVA.Rd’
    ‘CVA.biplot.Rd’ ‘PCA.Rd’ ‘PCA.biplot.Rd’ ‘PCO.Rd’ ‘PCO.biplot.Rd’
    ‘alpha.bags.Rd’ ‘axes.Rd’ ‘axes_coordinates.Rd’ ‘biplot.R’
    ‘biplot.Rd’ ‘classification.Rd’ ‘classify.Rd’ ‘density1D.Rd’
    ‘density2D.Rd’ ‘ellipses.Rd’ ‘fit.measures.Rd’ ‘interpolate.Rd’
    ‘legend.type.Rd’ ‘means.Rd’ ‘newaxes.Rd’ ‘newsamples.Rd’
    ‘plot.biplot.Rd’ ‘prediction.Rd’ ‘print.biplot.Rd’ ‘reflect.Rd’
    ‘regress.Rd’ ‘regress.biplot.Rd’ ‘rotate.Rd’ ‘samples.Rd’
    ‘summary.biplot.Rd’ ‘translate_axes.R’ ‘translate_axes.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘bits_to_raw.Rd’ ‘bitstream-ints.R’ ‘bitstream-uints-exp-golomb.R’
Namespaces in Imports field not imported from:
  ‘knitr’ ‘markdown’
  All declared Imports should be used.
Found the following significant warnings:
  Warning: SystemRequirements: invalid C++ specification ‘C++’
See ‘/data/gannet/ripley/R/packages/tests-clang/blaster.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Namespaces in Imports field not imported from:
  ‘knitr’ ‘rmarkdown’
  All declared Imports should be used.
checkRd: (-1) posteriorFeasibility.Rd:25: Escaped LaTeX specials: \#
checkRd: (-1) sp500Returns.Rd:4: Escaped LaTeX specials: \&
checkRd: (-1) RLdata500.Rd:8: Lost braces
     8 | A data frame with five variables: \code{fname_c1},\code{lname_c1},  \code{by}, code{bm}, \code{bd}.
       |                                                                                    ^
checkRd: (-1) identity.RLdata500.Rd:15: Lost braces
    15 | format A vector that contains the code{id}
       |                                       ^
checkRd: (-1) durban.Rd:16: Lost braces; missing escapes or markup?
    16 | This data set was obtained from the durban.rowcol {agridat} example in package 'agridat' 
       |                                                   ^
checkRd: (-1) fraction.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fraction.Rd:31-32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fraction.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘assg2xBalance.R’
checkRd: (-1) estimate_density.Rd:25: Lost braces; missing escapes or markup?
    25 | evenly spaced points between \code{min} and {max}.
       |                                             ^
Namespace in Imports field not imported from: ‘shiny’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘caret’ ‘datasets’ ‘dplyr’ ‘e1071’ ‘ggplot2’ ‘rhandsontable’ ‘shiny’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘caret’ ‘datasets’ ‘dplyr’ ‘e1071’ ‘ggplot2’ ‘rhandsontable’ ‘shiny’
  All declared Imports should be used.
checkRd: (-1) bluebike.Rd:17: Lost braces
    17 | \item{\code{import_month_data}}\cr {Takes in numeric year/month values and imports data from \href{https://www.bluebikes.com/system-data}{Blue Bikes System Data} for the specified time}
       |                                    ^
checkRd: (-1) bluebike.Rd:18: Lost braces; missing escapes or markup?
    18 | \item{\code{station_distance}}\cr {Returns stations with distance in ascending order given the user's current location}
       |                                   ^
checkRd: (-1) bluebike.Rd:19: Lost braces; missing escapes or markup?
    19 | \item{\code{station_radius}}\cr {Plots the position of the stations within walking distance (500 m), and present the basic information about the stations via leaflet}
       |                                 ^
checkRd: (-1) bluebike.Rd:20: Lost braces; missing escapes or markup?
    20 | \item{\code{trip_distance}}\cr {Computes the geographical distance between the start and end stations}
       |                                ^
checkRd: (-1) bluebike.Rd:25: Lost braces; missing escapes or markup?
    25 | \item{\code{trip_history_sample}} \cr {A sample of 1000 trip data entries from February 2022}
       |                                       ^
checkRd: (-1) bluebike.Rd:26: Lost braces; missing escapes or markup?
    26 | \item{\code{station_data}} \cr {A dataset that includes identification, position, and other basic information about bluebike stations}
       |                                ^
checkRd: (-1) dot-pred_array_to_df.Rd:20: Lost braces; missing escapes or markup?
    20 | Helper function for as.data.frame.{fitted, forecast}. Converts predictive array to data.frame.
       |                                   ^
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) BMSC_pareto_k_table.Rd:54-56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) BMSC_pareto_k_table.Rd:57-59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) BMSC_pareto_k_table.Rd:60-63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) BMSC_pareto_k_table.Rd:64-66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) BMSC_pareto_k_table.Rd:67-71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) BMSC_pareto_k_table.Rd:72-74: Lost braces in \itemize; \value handles \item{}{} directly
Requires (indirectly) orphaned package: ‘extraDistr’

Suggests orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘bnns.R’
Namespaces in Imports field not imported from:
  ‘BH’ ‘RcppEigen’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Rgraphviz’ ‘fastDummies’
  All declared Imports should be used.
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘CXX’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/BNPmix.Rcheck/00install.out’ for details.
* used C compiler: ‘clang version 21.1.8’
* used C++ compiler: ‘clang version 21.1.8’
Namespaces in Imports field not imported from:
  ‘caret’ ‘e1071’
  All declared Imports should be used.
checkRd: (-1) strength.viewer.Rd:148: Lost braces in \itemize; meant \describe ?
checkRd: (-1) strength.viewer.Rd:149: Lost braces in \itemize; meant \describe ?
checkRd: (-1) strength.viewer.Rd:150: Lost braces in \itemize; meant \describe ?
checkRd: (-1) strength.viewer.Rd:151: Lost braces in \itemize; meant \describe ?
checkRd: (-1) strength.viewer.Rd:152: Lost braces in \itemize; meant \describe ?
checkRd: (-1) boa.chain.collapse.Rd:20: Lost braces
    20 | \seealso{ code{\link{boa.chain.reset}}, code{\link{boa.chain.subset}} }
       |               ^
checkRd: (-1) boa.chain.collapse.Rd:20: Lost braces
    20 | \seealso{ code{\link{boa.chain.reset}}, code{\link{boa.chain.subset}} }
       |                                             ^
checkRd: (-1) refAnnots.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) refAnnots.Rd:11-12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) untreatedAnnots.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) untreatedAnnots.Rd:11-12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) untreatedAnnots.Rd:13-14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Extractor.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Extractor.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Extractor.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Extractor.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Extractor.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Extractor.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Extractor.Rd:19: Lost braces in \itemize; meant \describe ?
Namespaces in Imports field not imported from:
  ‘HSAUR3’ ‘knitr’ ‘rmarkdown’
  All declared Imports should be used.
File ‘bootruin/libs/bootruin.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘sim_dat_one_trial_exp_covar.R’ ‘sim_dat_one_trial_exp_nocovar.R’
Requires orphaned package: ‘extraDistr’
Namespaces in Imports field not imported from:
  ‘CCA’ ‘brainR’ ‘elasticnet’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘BranchGLM.R’ ‘BranchGLMTable.R’ ‘VariableImportance.R’
    ‘VariableImportance.boot.R’ ‘summaryBranchGLMVS.R’
File ‘Branching/libs/Branching.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Problems with news in ‘NEWS.md’:
No news entries found.
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘profileModel’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘brm_archetype_average_cells.Rd’ ‘brm_archetype_average_effects.Rd’
    ‘brm_archetype_cells.Rd’ ‘brm_archetype_effects.Rd’
    ‘brm_archetype_successive_cells.Rd’
    ‘brm_archetype_successive_effects.Rd’ ‘brm_formula.Rd’
    ‘brm_prior_archetype.Rd’ ‘brm_prior_label.Rd’ ‘brm_prior_template.Rd’
    ‘brm_recenter_nuisance.Rd’ ‘summary.brms_mmrm_archetype.Rd’
    ‘utils_archetype.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘glmm_tidiers.R’ ‘rstanarm_tidiers.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘census2021.Rd’
Namespaces in Imports field not imported from:
  ‘rworldxtra’ ‘sp’
  All declared Imports should be used.
checkRd: (-1) bscontrol.Rd:39: Lost braces; missing escapes or markup?
    39 | \item{opt.solver}{a character string in the set {'enum', 'enum_c', 'gurobi', 'cplex', 'lpSolve', 'greedy'} indicating the optimization solver to be used in the program. The choice of 'cplex' requires the package \code{cplexAPI}, 'gurobi' requires the package \code{gurobi}, and 'lpSolve' requires the package \code{lpSolve}. These solver options are only available in the full version at \url{https://github.com/profyliu/bsnsing/}. The default (and the best) is 'enum_c'.}
       |                                                 ^
checkRd: (-1) bscontrol.Rd:45: Lost braces; missing escapes or markup?
    45 | \item{opt.model}{a character string in the set {'gini','error'} indicating the optimization model to solve in the program. The default is 'gini'. The 'error' option is not available in the current version.}
       |                                                ^
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘grDevices’ ‘graphics’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
Namespaces in Imports field not imported from:
  ‘R6’ ‘RcppParallel’ ‘purrr’ ‘rstantools’ ‘scales’ ‘vizdraws’
  All declared Imports should be used.
checkRd: (-1) bubbleHMLegends.Rd:42: Lost braces; missing escapes or markup?
    42 | function. If {sizeBreaks} vector is supplied then this will be ignored and
       |              ^
checkRd: (-1) bubbleHeatmap.Rd:96: Lost braces; missing escapes or markup?
    96 | function. If {sizeBreaks} vector is supplied then this will be ignored and
       |              ^
checkRd: (-1) multiPlotInput.Rd:117: Lost braces; missing escapes or markup?
   117 | \code{unitBase}. This will be supplied to pretty function. If {sizeBreaks} is
       |                                                               ^
Namespaces in Imports field not imported from:
  ‘Hmisc’ ‘magrittr’ ‘rmarkdown’
  All declared Imports should be used.
checkRd: (-1) kink_estimator.Rd:60: Escaped LaTeX specials: \$
Codoc mismatches from Rd file 'fill.Rd':
fill
  Code: function(data, ..., .by = NULL, .direction = c("down", "up",
                 "downup", "updown"))
  Docs: function(data, ..., .direction = c("down", "up", "downup",
                 "updown"))
  Argument names in code not in docs:
    .by
  Mismatches in argument names:
    Position: 3 Code: .by Docs: .direction
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘get_data_from_bursa.R’ ‘list_data_names.R’
checkRd: (-1) depreciation-class.Rd:43: Lost braces in \itemize; meant \describe ?
checkRd: (-1) depreciation-class.Rd:44: Lost braces in \itemize; meant \describe ?
checkRd: (-1) depreciation-class.Rd:45: Lost braces in \itemize; meant \describe ?
checkRd: (-1) depreciation-class.Rd:46-47: Lost braces in \itemize; meant \describe ?
checkRd: (-1) loan-class.Rd:46-48: Lost braces in \itemize; meant \describe ?
checkRd: (-1) loan-class.Rd:49: Lost braces in \itemize; meant \describe ?
checkRd: (-1) loan-class.Rd:50-51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) model2df-methods.Rd:32-33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) model2df-methods.Rd:34-35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) model2df-methods.Rd:36-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) model2df-methods.Rd:38-39: Lost braces in \itemize; meant \describe ?
File ‘bvarsv/libs/bvarsv.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Malformed Description field: should contain one or more complete sentences.
File ‘bvls/libs/bvls.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
Running examples in ‘CACIMAR-Ex.R’ failed
The error most likely occurred in:

> ### Name: Format_Markers_Frac
> ### Title: Format marker genes for plotting
> ### Aliases: Format_Markers_Frac
> 
> ### ** Examples
> 
> data("pbmc_small")
> all.markers <- Identify_Markers(pbmc_small)
Calculating cluster 0
Calculating cluster 1
Calculating cluster 2
[1] "0"
Error:
! The `slot` argument of `GetAssayData()` was deprecated in SeuratObject
  5.0.0 and is now defunct.
ℹ Please use the `layer` argument instead.
Backtrace:
     ▆
  1. └─CACIMAR::Identify_Markers(pbmc_small)
  2.   └─CACIMAR:::Identify_Markers1(Seurat_object, PowerCutoff, DifferenceCutoff)
  3.     └─CACIMAR:::Cal_MarkersRoc(Seurat_object, uMarker2)
  4.       └─CACIMAR:::Markertest(...)
  5.         ├─Seurat::GetAssayData(object = object, slot = "data")
  6.         └─SeuratObject:::GetAssayData.Seurat(object = object, slot = "data")
  7.           └─SeuratObject::.Deprecate(...)
  8.             └─lifecycle::deprecate_stop(...)
  9.               └─lifecycle:::deprecate_stop0(msg)
 10.                 └─rlang::cnd_signal(...)
Execution halted
Running ‘testthat.R’ [28s/75s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(CACIMAR)
  Loading required package: Seurat
  Loading required package: SeuratObject
  Loading required package: sp
  
  Attaching package: 'SeuratObject'
  
  The following objects are masked from 'package:base':
  
      intersect, t
  
  > 
  > test_check("CACIMAR")
  
  mm_zf_0T1 mm_zf_1T0 mm_zf_1T1 mm_zf_1TN mm_zf_NT1 mm_zf_NTN 
      14207     37432     10353      3238       273       128 
  [1] "mm_zf_0T1"
  [1] "mm_zf_1T0"
  [1] "mm_zf_1T1"
  [1] "mm_zf_1TN"
  [1] "mm_zf_NT1"
  [1] "mm_zf_NTN"
  Using NCS as value column: use value.var to override.
  Calculating cluster 0
  Calculating cluster 1
  Calculating cluster 2
  [1] "0"
  Saving _problems/test-test1-10.R
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 1 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-test1.R:10:3'): test CACIMAR ───────────────────────────────────
  <lifecycle_error_deprecated/defunctError/rlang_error/error/condition>
  Error: The `slot` argument of `GetAssayData()` was deprecated in SeuratObject 5.0.0 and is now defunct.
  i Please use the `layer` argument instead.
  Backtrace:
       ▆
    1. └─CACIMAR::Identify_Markers(pbmc_small) at test-test1.R:10:3
    2.   └─CACIMAR:::Identify_Markers1(Seurat_object, PowerCutoff, DifferenceCutoff)
    3.     └─CACIMAR:::Cal_MarkersRoc(Seurat_object, uMarker2)
    4.       └─CACIMAR:::Markertest(...)
    5.         ├─Seurat::GetAssayData(object = object, slot = "data")
    6.         └─SeuratObject:::GetAssayData.Seurat(object = object, slot = "data")
    7.           └─SeuratObject::.Deprecate(...)
    8.             └─lifecycle::deprecate_stop(...)
    9.               └─lifecycle:::deprecate_stop0(msg)
   10.                 └─rlang::cnd_signal(...)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 1 ]
  Error:
  ! Test failures.
  Execution halted
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘markdown’
  All declared Imports should be used.
Running ‘testthat.R’ [8m/16m]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  > library(calcal)
  > 
  > test_check("calcal")
  Saving _problems/test-balinese-15.R
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 282 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-balinese.R:9:3'): balinese ───────────────────────────────────
  Expected `suppressWarnings(...)` to equal `vctrs::vec_data(gregorian_date(2025, 6, 15:16))`.
  Differences:
    `actual`: 739837.0 739838.0
  `expected`: 739417.0 739418.0
  
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 282 ]
  Error:
  ! Test failures.
  Execution halted
checkRd: (-1) calcUnique.Rd:24: Lost braces
    24 | functions, and often the /code{cut()} function are relatively slow when working with tens of millions of rows or more.
       |                               ^
checkRd: (-1) calibration_bands.Rd:19: Lost braces; missing escapes or markup?
    19 | \item{y}{response variable (in {0,1}).}
       |                                ^
checkRd: (-1) Recording.Rd:112: Lost braces; missing escapes or markup?
   112 | Stop recording images with {camcorder}.
       |                            ^
Namespace in Imports field not imported from: ‘sf’
  All declared Imports should be used.
Found the following files/directories:
  ‘MDA231_tree.pdf’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    captr .1.4
    captr .1.3
    captr .1.2
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘do_la.Rd’ ‘linalg.Rd’ ‘scale_matrix.Rd’ ‘solve.caracas_symbol.Rd’
    ‘solve_lin.Rd’
checkRd: (-1) plot.ca.rd:53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.ca.rd:56: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.ca.rd:59: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.ca.rd:62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.mjca.rd:57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.mjca.rd:60: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.mjca.rd:63: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.mjca.rd:66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) States.Rd:48: Escaped LaTeX specials: \$
checkRd: (-1) fitweibull.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fitweibull.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fitweibull.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘cosinor-constructor.R’
checkRd: (-1) build_for_cran.Rd:13: Lost braces
    13 | The exit status code{R CMD build}, invisibly.
       |                     ^
Namespace in Imports field not imported from: ‘rstantools’
  All declared Imports should be used.
File ‘cartographer/libs/cartographer.so’:
  Found non-API call to R: ‘PRVALUE’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Namespace in Imports field not imported from: ‘shiny’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘CBRBase.R’ ‘RFModel.R’ ‘RegressionModel.R’ ‘distance.R’
    ‘generate_grid.R’ ‘utils.R’
Requires orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘Matrix’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘broom’ ‘epitools’
  All declared Imports should be used.
checkRd: (-1) catmapdata.Rd:9-14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) catmapdata.Rd:14-15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) catmapdata.Rd:15-16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) catmapdata.Rd:16-17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) catmapdata.Rd:17-18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) catmapdata.Rd:18-19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) catmapdata.Rd:19-20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) catmapdata.Rd:20-21: Lost braces in \itemize; meant \describe ?
Found the following files/directories:
  ‘catmapdata.fixed.effects.plot.pdf’ ‘catmapdata.funnel.plot.pdf’
  ‘catmapdata.output.txt’ ‘catmapdata.random.effects.plot.pdf’
Namespaces in Imports field not imported from:
  ‘epitools’ ‘forcats’ ‘purrr’
  All declared Imports should be used.
checkRd: (-1) tpcExample.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) as.mbsts.Rd:71: Lost braces; missing escapes or markup?
    71 |   \item{states.samples}{(\code{niter}- \code{burn}) draws from p(alpha_t | Y_{1:T}).}
       |                                                                              ^
checkRd: (-1) mcmc.Rd:61: Lost braces; missing escapes or markup?
    61 |   \item{states.samples}{(\code{niter}- \code{burn}) draws from p(alpha_t | Y_{1:T}).}
       |                                                                              ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘causal-model.R’ ‘check-linearity.R’ ‘deprecated.R’
    ‘translation-modules.R’ ‘utils.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘cotOOP.R’ ‘utils.R’
Found the following HTML validation problems:
causalOT.html:1689:1 (Measure_-class.Rd:60): Warning: <a> anchor "method-Measure-detach" already defined
causalOT.html:1705:1 (Measure_-class.Rd:70): Warning: <a> anchor "method-Measure-get_weight_parameters" already defined
causalOT.html:1802:1 (Measure_-class.Rd:137): Warning: <a> anchor "method-Measure-clone" already defined
causalOT.html:2451:1 (OTProblem_-class.Rd:50): Warning: <a> anchor "method-OTProblem-add" already defined
causalOT.html:2480:1 (OTProblem_-class.Rd:67): Warning: <a> anchor "method-OTProblem-subtract" already defined
causalOT.html:2509:1 (OTProblem_-class.Rd:84): Warning: <a> anchor "method-OTProblem-multiply" already defined
causalOT.html:2538:1 (OTProblem_-class.Rd:101): Warning: <a> anchor "method-OTProblem-divide" already defined
causalOT.html:2636:1 (OTProblem_-class.Rd:159): Warning: <a> anchor "method-OTProblem-setup_arguments" already defined
causalOT.html:2699:1 (OTProblem_-class.Rd:207): Warning: <a> anchor "method-OTProblem-solve" already defined
causalOT.html:2751:1 (OTProblem_-class.Rd:247): Warning: <a> anchor "method-OTProblem-choose_hyperparameters" already defined
causalOT.html:2788:1 (OTProblem_-class.Rd:272): Warning: <a> anchor "method-OTProblem-info" already defined
causalOT.html:2825:1 (OTProblem_-class.Rd:290): Warning: <a> anchor "method-OTProblem-clone" already defined
Namespace in Imports field not imported from: ‘GeneNet’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘fields’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) tblGroup.Rd:21: height/width attributes should be in pixels
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘atp_plot.Rd’ ‘bioscope_plot.Rd’ ‘energetics_lme_summary.Rd’
    ‘energetics_ols_summary.Rd’ ‘fit_lme.Rd’ ‘get_energetics.Rd’
    ‘get_energetics_summary.Rd’ ‘get_rate_summary.Rd’
    ‘make_bioscope_plot.Rd’ ‘normalize.Rd’ ‘partition_data.Rd’
    ‘pipelines.r’ ‘rate_plot.R’ ‘rate_plot.Rd’ ‘rates_lme_summary.Rd’
    ‘read_data.Rd’
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘CXX1’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/CEC.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Found the following files/directories:
  ‘figure01ceg.pdf’ ‘figure02ceg.pdf’ ‘staged.tree.graph.pdf’
  ‘stratified-event-tree-plot.pdf’
Namespace in Imports field not imported from: ‘MASS’
  All declared Imports should be used.
Unexported objects imported by ':::' calls:
  ‘copula:::dCdu’ ‘copula:::fitCopStart’
  See the note in ?`:::` about the use of this operator.
Namespace in Imports field not imported from: ‘Rcpp’
  All declared Imports should be used.
Running examples in ‘CensSpatial-Ex.R’ failed
The error most likely occurred in:

> ### Name: algnaive12
> ### Title: Naive 1 and Naive 2 method for spatial prediction.
> ### Aliases: algnaive12
> ### Keywords: Spatial Censored SAEM
> 
> ### ** Examples
> 
> ###simulated coordinates
> n<-200 ### sample size for estimation.
> n1=100 ### number of observation used in the prediction.
> 
> ###simulated coordinates
> r1=sample(seq(1,30,length=400),n+n1)
> r2=sample(seq(1,30,length=400),n+n1)
> coords=cbind(r1,r2)### total coordinates (used in estimation and prediction).
> 
> coords1=coords[1:n,]####coordinates used for estimation.
> 
> type="matern"### covariance structure.
> 
> xtot<-cbind(1,runif((n+n1)),runif((n+n1),2,3))## X matrix for estimation and prediction.
> xobs=xtot[1:n,]## X matrix for estimation.
> 
> ###simulated data
> obj=rspacens(cov.pars=c(3,.3,0),beta=c(5,3,1),x=xtot,coords=coords,kappa=1.2,
+ cens=0.25,n=(n+n1),n1=n1,cov.model=type,cens.type="left")
> 
> data2=obj$datare
> data2[,4:5]=xobs[,-1]
> 
> cc=obj$cc
> y=obj$datare[,3]
> cutoff=rep(obj$cutoff,length(y[cc==1]))
> 
> 
> aux2=algnaive12(data=data2,cc=obj$cc,covar=TRUE,covar.col=4:5,
+ copred=obj$coords1,thetaini=c(.1,.2),y.col=3,coords.col=1:2,
+ fix.nugget=TRUE,nugget=0,kappa=1.2,cutoff=cutoff,trend=~V4+V5,
+ cov.model=type)
OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
Namespace in Imports field not imported from: ‘data.table’
  All declared Imports should be used.
checkRd: (-1) call_api_once.Rd:36: Lost braces
    36 | A code{data.frame} with the requested variables at the requested
       |       ^
checkRd: (-1) centroid.Rd:22: Lost braces; missing escapes or markup?
    22 | Centroid value C_{cen}(v) for node v defined as:
       |                  ^
checkRd: (-1) clusterrank.Rd:23: Lost braces; missing escapes or markup?
    23 | where the term f(c_{i}) accounts for the effect of i's local clustering and the term '+1' results from the contribution of \eqn{j}{j} itself. \cr
       |                    ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘ce-hg.R’ ‘ce-mean.R’ ‘ce-prepdata.R’ ‘ce-quantiles.R’ ‘ce-uccs.R’
    ‘get-survey-files.R’ ‘read-expd.R’ ‘read-fmld.R’ ‘read-fmli.R’
    ‘read-mtbi.R’ ‘recode-ce-variables.R’
checkRd: (-1) cequre.Rd:31: Lost braces; missing escapes or markup?
    31 |   {epsi}^{# regression coefficients} times the initial value,
       |   ^
checkRd: (-1) cequre.Rd:31: Lost braces; missing escapes or markup?
    31 |   {epsi}^{# regression coefficients} times the initial value,
       |          ^
Namespaces in Imports field not imported from:
  ‘base’ ‘stats’ ‘tidyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘batchtools’ ‘data.table’ ‘dplyr’ ‘ggplot2’ ‘htmltools’
  ‘jsonlite’ ‘magrittr’ ‘methods’ ‘plotly’ ‘reshape’ ‘rlang’ ‘shiny’
  ‘shinyWidgets’ ‘shinyjqui’ ‘shinyjs’ ‘shinymaterial’ ‘sortable’ ‘ssh’
  ‘xml2’
  All declared Imports should be used.
.run_shiny_RsNLME : server: no visible global function definition for
  ‘addTablesToColumnMapping’
Undefined global functions or variables:
  addTablesToColumnMapping
Namespace in Imports field not imported from: ‘lmtest’
  All declared Imports should be used.
Malformed Title field: should not end in a period.
File ‘cgAUC/libs/cgAUC.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘tidyverse’
  All declared Imports should be used.
checkRd: (-1) Hausdorff.dist.Rd:10: Lost braces; missing escapes or markup?
    10 | \item{vec1}{A \code{integer} vector forms a subset of {1, 2, ..., n}.}
       |                                                       ^
checkRd: (-1) Hausdorff.dist.Rd:12: Lost braces; missing escapes or markup?
    12 | \item{vec2}{A \code{integer} vector forms a subset of {1, 2, ..., n}.}
       |                                                       ^
checkRd: (-1) online.univar.multi.Rd:47-57: Lost braces
    47 | online.univar.one2 = function(y_vec, gamma, tau_gamma, ...){
       |                                                            ^
checkRd: (-1) online.univar.multi.Rd:50-55: Lost braces
    50 |   while(FLAG == 0 & t <= length(y_vec)){
       |                                        ^
checkRd: (-1) online.univar.multi.Rd:71-89: Lost braces
    71 | online.univar.one3 = function(y_vec, tau_vec, ...){
       |                                                   ^
checkRd: (-1) online.univar.multi.Rd:72-74: Lost braces
    72 |   if(length(y_vec) != length(tau_vec)){
       |                                       ^
checkRd: (-1) online.univar.multi.Rd:77-87: Lost braces
    77 |   while(FLAG == 0 & t <= length(y_vec)){
       |                                        ^
checkRd: (-1) online.univar.multi.Rd:81-86: Lost braces
    81 |     while(j < J & FLAG == 0){
       |                             ^
Namespaces in Imports field not imported from:
  ‘AER’ ‘graphics’ ‘lmtest’
  All declared Imports should be used.
Found the following HTML validation problems:
charlatan.html:21529:1 (PhoneNumberProvider_no_NO.Rd:60): Warning: <a> anchor "method-PhoneNumberProvider_nn_NO-clone" already defined
checkRd: (-1) cql.Rd:28: Lost braces; missing escapes or markup?
    28 | {X} \code{<x_var>, <(x_facet)>}: \tab\tab\tab\tab  X-axis variable. May include a second categorical\cr
       | ^
checkRd: (-1) cql.Rd:30: Lost braces; missing escapes or markup?
    30 | {Y} \code{<y_var>}: \tab\tab\tab\tab Y-axis variable. *Not used for \code{hist}.\cr
       | ^
checkRd: (-1) cql.Rd:38: Lost braces; missing escapes or markup?
    38 | {Y_label} \code{'<ylab>'}: \tab\tab\tab\tab  Y-axis custom label. Defaults to <y_var>\cr
       | ^
checkRd: (-1) cql.Rd:39: Lost braces; missing escapes or markup?
    39 | {Legend} \code{'<legend>'}: \tab\tab\tab\tab  Legend custom label. Defaults to <x_category>\cr
       | ^
checkRd: (-1) cql.Rd:40: Lost braces; missing escapes or markup?
    40 | {Colorset} \code{'<clist>'}: \tab\tab\tab\tab  Custom set of colors for <x_category> levels.\cr
       | ^
checkRd: (-1) cql.Rd:42: Lost braces; missing escapes or markup?
    42 | {AggFunc} \code{'<func>'}: \tab\tab\tab\tab Summary function for \code{bar} type.\cr
       | ^
checkRd: (-1) cql.Rd:45: Lost braces; missing escapes or markup?
    45 | {Fit} \code{'<show_se>'}: \tab\tab\tab\tab Valid types: \code{true|false}. Fit quadratic line.\cr
       | ^
checkRd: (-1) cql.Rd:47: Lost braces; missing escapes or markup?
    47 | {ConfInt} \code{'<interval>'}: \tab\tab\tab\tab  Show error bars. Value is confidence interval value. E.g. '.95'
       | ^
checkRd: (-1) create_unit_tests.Rd:17: Lost braces; missing escapes or markup?
    17 | Create `{testthat}` test cases for the code.
       |         ^
File ‘checkmate/libs/checkmate.so’:
  Found non-API call to R: ‘ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Namespaces in Imports field not imported from:
  'knitr' 'rmarkdown'
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘dbplyr’
  All declared Imports should be used.
checkRd: (-1) C316.amp.Rd:28-32: Lost braces
    28 |     40 x {
       |          ^
checkRd: (-1) C317.amp.Rd:28-32: Lost braces
    28 |     40 x {
       |          ^
checkRd: (-1) C60.amp.Rd:63-67: Lost braces
    63 |     40 x {
       |          ^
Namespace in Imports field not imported from: ‘htmltools’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘base’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘dplyr’ ‘prettydoc’ ‘rmdformats’ ‘skimr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘stringr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
checkRd: (-1) ec.datalag.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{prepares Dy y_1 Dy_1 ... Dy_{nlag-1} for estimation}
       |                                    ^
checkRd: (-1) ec.datalag.Rd:15: Lost braces
    15 | ymat contains the folloiwing columns {Dy y_1 Dy_1 ... Dy_{nlag-1}}
       |                                      ^
checkRd: (-1) ec.datalag.Rd:15: Lost braces; missing escapes or markup?
    15 | ymat contains the folloiwing columns {Dy y_1 Dy_1 ... Dy_{nlag-1}}
       |                                                          ^
checkRd: (-1) lagn.Rd:21: Lost braces; missing escapes or markup?
    21 |              REM: alternative to "lead-lag" {dplyr} which applies to vector y
       |                                             ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘long_est.R’
Namespace in Imports field not imported from: ‘magrittr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘circlize’
  All declared Imports should be used.
checkRd: (-1) CIplot.Rd:58: Lost braces; missing escapes or markup?
    58 | \item{las}{numeric in {0,1,2,3}; the style of axis labels.
       |                       ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘functions.R’
Namespace in Imports field not imported from: ‘RColorBrewer’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘networkD3’
  All declared Imports should be used.
checkRd: (-1) data_generator.Rd:93: Lost braces; missing escapes or markup?
    93 |   \item{estimand_mean}{List of means of the FULL, S_{++}, S_{*+} and
       |                                                     ^
checkRd: (-1) data_generator.Rd:93: Lost braces; missing escapes or markup?
    93 |   \item{estimand_mean}{List of means of the FULL, S_{++}, S_{*+} and
       |                                                             ^
checkRd: (-1) data_generator.Rd:95: Lost braces; missing escapes or markup?
    95 |   \item{estimand_sd}{List of standard deviations of the FULL, S_{++}, S_{*+}
       |                                                                 ^
checkRd: (-1) data_generator.Rd:95: Lost braces; missing escapes or markup?
    95 |   \item{estimand_sd}{List of standard deviations of the FULL, S_{++}, S_{*+}
       |                                                                         ^
checkRd: (-1) data_generator_loop.Rd:96: Lost braces; missing escapes or markup?
    96 |   \item{estimand_mean}{List of means of the FULL, S_{++}, S_{*+} and
       |                                                     ^
checkRd: (-1) data_generator_loop.Rd:96: Lost braces; missing escapes or markup?
    96 |   \item{estimand_mean}{List of means of the FULL, S_{++}, S_{*+} and
       |                                                             ^
checkRd: (-1) data_generator_loop.Rd:98: Lost braces; missing escapes or markup?
    98 |   \item{estimand_sd}{List of standard deviations of the FULL, S_{++},
       |                                                                 ^
checkRd: (-1) data_generator_loop.Rd:99: Lost braces; missing escapes or markup?
    99 |   S_{*+} and PP estimands}
       |     ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘compute_cluster_composition.R’ ‘extract_ids_vector.R’
    ‘perform_clustering.R’
checkRd: (-1) get_langs.Rd:13: Lost braces
    13 | character vector listing all the languages that tag API call supports. See \code{\link{tag_images}} and code{\link{tag_image_urls}}
       |                                                                                                             ^
Namespace in Imports field not imported from: ‘Rcpp’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘as_raster.Rd’ ‘clc.R’ ‘clc_category.R’ ‘clc_raster.R’ ‘copy_to.Rd’
    ‘cut_to_extent.Rd’ ‘get_colors.Rd’ ‘get_levels.Rd’ ‘get_raster.Rd’
    ‘plot_clc.Rd’ ‘prepare_plot.Rd’ ‘save_to.Rd’
File ‘ClickClust/libs/ClickClust.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) clinsig.Rd:129: Lost braces
   129 |  be calculated with the measures specified in samp{mct} and samp{disp},
       |                                                   ^
checkRd: (-1) clinsig.Rd:129: Lost braces
   129 |  be calculated with the measures specified in samp{mct} and samp{disp},
       |                                                                 ^
File ‘clock/libs/clock.so’:
  Found non-API call to R: ‘SET_ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
File ‘clogitboost/libs/clogitboost.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) print.clogitL1.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) print.clogitL1.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) print.clogitL1.Rd:23: Lost braces in \itemize; meant \describe ?
File ‘clogitL1/libs/clogitL1.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘cloud_drive_download_bulk.Rd’ ‘cloud_drive_read_bulk.Rd’
    ‘cloud_drive_upload_bulk.Rd’ ‘cloud_drive_write_bulk.Rd’
    ‘cloud_s3_download_bulk.Rd’ ‘cloud_s3_read_bulk.Rd’
    ‘cloud_s3_upload_bulk.Rd’ ‘cloud_s3_write_bulk.Rd’
checkRd: (-1) cb_participant_count.Rd:13: Lost braces
    13 | \item{query}{A phenotype query defined using the code{\link{phenotype}} function and logic operators (see example below)}
       |                                                      ^
checkRd: (-1) phenotype.Rd:10: Lost braces
    10 | \item{id}{A single phenotype id. Possible phenotyoes can be explored using the code{\link{cb_search_phenotypes}} function}
       |                                                                                    ^
checkRd: (-1) clr.Rd:24: Lost braces
    24 | the sense that its Karhunen-Lo\`{e}ve decomposition has qx terms only.}
       |                                 ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘bias_df_combined.R’ ‘create_table_ep_15.R’
    ‘precision_calculate_aov_info.R’
Problems with news in ‘NEWS.md’:
No news entries found.
Namespace in Imports field not imported from: ‘utils’
  All declared Imports should be used.
Found the following files/directories:
  ‘clusterhap_reports’
File ‘clustering.sc.dp/libs/clustering.sc.dp.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
File ‘ClusterStability/libs/ClusterStability.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘sp’ ‘spdep’
  All declared Imports should be used.
checkRd: (-1) dtmvnom.Rd:30: Escaped LaTeX specials: \&
Namespace in Imports field not imported from: ‘stringi’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘cluster’ ‘datasets’ ‘dplyr’ ‘klaR’ ‘psycho’ ‘shiny’
  All declared Imports should be used.
Error(s) in re-building vignettes:
--- re-building ‘CovarianceStructure.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘CovarianceStructure.Rmd’

Warning: elapsed-time limit of 1 hours reached for sub-process
--- re-building ‘SpatialExMeuseData.Rmd’ using rmarkdown
OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
SUMMARY: processing the following file failed:
  ‘SpatialExMeuseData.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following significant warnings:
  /data/gannet/ripley/R/R-clang/include/R_ext/PrtUtil.h:35:2: warning: non-API header file R_ext/PrtUtil.h is obsolete and will be removed [-W#warnings]
See ‘/data/gannet/ripley/R/packages/tests-clang/clv.Rcheck/00install.out’ for details.
* used C compiler: ‘clang version 21.1.8’
File ‘clv/libs/clv.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘Rdpack’
  All declared Imports should be used.
checkRd: (-1) CMAPSS.Rd:10: Lost braces
    10 | \item \code{train}{ a list of class "hhsmm.data" as the train dataset}
       |                   ^
checkRd: (-1) CMAPSS.Rd:11: Lost braces
    11 | \item \code{test}{ a list of class "hhsmm.data" as the test dataset}
       |                  ^
checkRd: (-1) CMAPSS.Rd:12: Lost braces
    12 | \item \code{subsets}{ a matrix containig the number of units in each subset of the CMAPSS data set (FD001-FD004) for the train and test datasets}
       |                     ^
Namespace in Imports field not imported from: ‘MPV’
  All declared Imports should be used.
checkRd: (-1) cmb.search.Rd:50: Lost braces; missing escapes or markup?
    50 |   \item{order}{applied conditioning order {length p}}
       |                                           ^
checkRd: (-1) gp.realize.Rd:20: Lost braces; missing escapes or markup?
    20 | The list \code{l.v} is created by \code{makedistlist()} from a {n x p} design matrix on which to generate the unconditional GP realization.  The correlation parameters take on values in \code{(0,1)} and use the Gaussian correlation model, calculated as \code{rho^d(xi,xj)^2}.  This helper function is used to create the demonstration data used in the example for \code{calibrate()}.
       |                                                                ^
checkRd: (-1) bvp.Rd:24: Lost braces
    24 | differential equations.  The code{midptivp} method solves initial
       |                                  ^
checkRd: (-1) ivp.Rd:38: Lost braces
    38 | differential equations.  The code{midptivp} method solves initial
       |                                  ^
checkRd: (-1) ivpsys.Rd:29: Lost braces
    29 | differential equations.  The code{midptivp} method solves initial
       |                                  ^
checkRd: (-1) plot.predict.crrQR.Rd:18: Escaped LaTeX specials: \#
checkRd: (-1) plot.predict.crrQR.Rd:22: Escaped LaTeX specials: \#
File ‘cmprsk/libs/cmprsk.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Requires (indirectly) orphaned package: ‘extraDistr’
Requires (indirectly) orphaned package: ‘extraDistr’
Requires (indirectly) orphaned package: ‘extraDistr’
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘caret’ ‘e1071’ ‘epitools’ ‘shiny’ ‘shinyMatrix’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘basis.R’
checkRd: (-1) cnlt.reg.Rd:43: Lost braces
    43 | \emph{Technometrics}, bold{60} (1), 48-60, DOI 10.1080/00401706.2017.1281846.\cr\cr
       |                           ^
checkRd: (-1) fwtnppermC.Rd:35: Lost braces
    35 | Given \eqn{n} points on a line, \env{x}, each with a corresponding env{f} value this function computes
       |                                                                       ^
Namespaces in Imports field not imported from:
  ‘RColorBrewer’ ‘snow’ ‘viridisLite’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘rstantools’
  All declared Imports should be used.
Namespace in Imports field not imported from: 'Hmisc'
  All declared Imports should be used.
Unknown package ‘designmatch’ in Rd xrefs
Namespaces in Imports field not imported from:
  ‘Matrix’ ‘nnet’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘fields’ ‘knitr’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘cb_summary_stats_numeric.R’
File ‘coenoflex/libs/coenoflex.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘tibble’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
Namespaces in Imports field not imported from:
  ‘Rdpack’ ‘coin’ ‘ggplot2’ ‘plyr’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘utils.R’
File ‘collapse/libs/collapse.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘SET_ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Running ‘testthat.R’ [5m/11m]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # rm(list = ls())
  > # Sys.setenv(R_TESTS = "")
  > library(testthat)
  > options(collapse_export_F = TRUE)
  > # library(collapse)
  > 
  > test_check("collapse")
  Loading required package: collapse
  collapse 2.1.5, see ?`collapse-package` or ?`collapse-documentation`
  
  Attaching package: 'collapse'
  
  The following object is masked from 'package:stats':
  
      D
  
  [ FAIL 1 | WARN 0 | SKIP 2 | PASS 17726 ]
  
  ══ Skipped tests (2) ═══════════════════════════════════════════════════════════
  • Sys.getenv("OMP") == "TRUE" is not TRUE (1):
    'test-miscellaneous-issues.R:434:3'
  • empty test (1):
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-data.table.R:216:3'): creating columns and printing works after passing a data.table through collapse functions ──
  Error in ``[.data.table`(dt, , `:=`(new, 1))`: Internal error in assign: selfrefnames is ok but maxLength(names) [12] != maxLength(dt) [1036]. Please report to the data.table issues tracker.
  Backtrace:
       ▆
    1. ├─testthat::expect_silent(dt[, `:=`(new, 1)]) at test-data.table.R:216:3
    2. │ └─testthat:::quasi_capture(enquo(object), NULL, evaluate_promise)
    3. │   ├─testthat (local) .capture(...)
    4. │   │ ├─withr::with_output_sink(...)
    5. │   │ │ └─base::force(code)
    6. │   │ ├─base::withCallingHandlers(...)
    7. │   │ └─base::withVisible(code)
    8. │   └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
    9. ├─dt[, `:=`(new, 1)]
   10. └─data.table:::`[.data.table`(dt, , `:=`(new, 1))
  
  [ FAIL 1 | WARN 0 | SKIP 2 | PASS 17726 ]
  Error:
  ! Test failures.
  Execution halted
File ‘collections/libs/collections.so’:
  Found non-API call to R: ‘ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Namespaces in Imports field not imported from:
  ‘magrittr’ ‘qpdf’
  All declared Imports should be used.
checkRd: (-1) getHistList.Rd:32: Lost braces; missing escapes or markup?
    32 | ({FALSE})? If a bin is empty, the center of the bin is returned as the
       |  ^
checkRd: (-1) imageClusterPipeline.Rd:82: Lost braces; missing escapes or markup?
    82 | of the bin ({FALSE})? If a bin is empty, the center of the bin is returned
       |             ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘simulate_populations.R’
Unexported object imported by a ':::' call: ‘crayon:::mypaste’
  See the note in ?`:::` about the use of this operator.
Problems with news in ‘NEWS.md’:
No news entries found.
Namespaces in Imports field not imported from:
  ‘chi’ ‘dplyr’ ‘spatstat.utils’ ‘utils’
  All declared Imports should be used.
Malformed Description field: should contain one or more complete sentences.
checkRd: (-1) xsimplex.Rd:6: Lost braces; missing escapes or markup?
     6 |              Generates all points on a {p,n} simplex lattice (i.e. a p-part
       |                                        ^
checkRd: (-1) BMD.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) BMD.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) BMD.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) BMD.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) BMD.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) add.risk.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) add.risk.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) comire.gibbs.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) comire.gibbs.Rd:67-68: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) comire.gibbs.Rd:69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) comire.gibbs.Rd:70: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) comire.gibbs.Rd:71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) comire.gibbs.Rd:72: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) comire.gibbs.Rd:73: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) comire.gibbs.Rd:74: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) comire.gibbs.Rd:75: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) comire.gibbs.Rd:76: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) count_pairs.Rd:19-20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) count_pairs.Rd:21-22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) count_pairs.Rd:23-24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) count_pairs.Rd:25-26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) count_pairs.Rd:27-28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) entropy.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) entropy.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) entropy.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) entropy.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) score_log_nonparam.Rd:36: Lost braces; missing escapes or markup?
    36 | {0, 1}.
       | ^
checkRd: (-1) score_log_semiparam.Rd:40: Lost braces; missing escapes or markup?
    40 | values in {0, 1}.
       |           ^
checkRd: (-1) sort_pairs.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sort_pairs.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sort_pairs.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sort_pairs.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sort_pairs.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) sort_pairs.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
Found the following significant warnings:
  hmm.cpp:1079:26: warning: 'max' is deprecated: use .index_max() instead [-Wdeprecated-declarations]
  hmm.cpp:1084:54: warning: 'max' is deprecated: use .index_max() instead [-Wdeprecated-declarations]
See ‘/data/gannet/ripley/R/packages/tests-clang/communication.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Obsolete C++11 standard request will be ignored
Namespaces in Imports field not imported from:
  ‘GGally’ ‘RColorBrewer’ ‘abind’ ‘diagram’ ‘ggplot2’ ‘grid’ ‘gtable’
  ‘igraph’ ‘magrittr’ ‘plyr’ ‘purrr’ ‘reshape2’ ‘scales’ ‘useful’
  All declared Imports should be used.
checkRd: (-1) hmm.Rd:47-55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:56-62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:63-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:71-74: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:75-78: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:79-84: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:85-89: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:95-103: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:104-107: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:108-111: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:112-118: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:119-129: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hmm.Rd:130-133: Lost braces in \itemize; meant \describe ?
File ‘compareC/libs/compareC.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘compareMCMCs.R’ ‘metrics-addMetrics.R’
checkRd: (-1) glass.Rd:10: Lost braces
    10 | \item{item}{factor}{200 levels - which item the measurements came from}
       |                    ^
checkRd: (-1) glass.Rd:11-12: Lost braces
    11 | \item{fragment}{factor}{4 levels - which of the four fragments from each item the observations were made
       |                        ^
checkRd: (-1) glass.Rd:13: Lost braces
    13 | \item{logNaO}{numeric}{log of sodium concentration to oxygen concentration}
       |                       ^
checkRd: (-1) glass.Rd:14: Lost braces
    14 | \item{logMgO}{numeric}{log of magnesium concentration to oxygen concentration}
       |                       ^
checkRd: (-1) glass.Rd:15: Lost braces
    15 | \item{logAlO}{numeric}{log of aluminium concentration to oxygen concentration}
       |                       ^
checkRd: (-1) glass.Rd:16: Lost braces
    16 | \item{logSiO}{numeric}{log of silicon concentration to oxygen concentration}
       |                       ^
checkRd: (-1) glass.Rd:17: Lost braces
    17 | \item{logKO}{numeric}{log of potassium concentration to oxygen concentration}
       |                      ^
checkRd: (-1) glass.Rd:18: Lost braces
    18 | \item{logCaO}{numeric}{log of calcium concentration to oxygen concentration}
       |                       ^
checkRd: (-1) glass.Rd:19: Lost braces
    19 | \item{logFeO}{numeric}{log of iron concentration to oxygen concentration}
       |                       ^
checkRd: (-1) atomdeps.Rd:9: Lost braces
     9 |  \item{"tangle"}: {Dihedral angle defined by atoms A-B-C-D as described below. \code{NA}'s represent the free side chain dihedral angles \emph{chi} for that amino acid.}
       |                   ^
checkRd: (-1) atomdeps.Rd:10: Lost braces; missing escapes or markup?
    10 |  \item{"names"}: {The component atoms of the amino acid side chain.  Represents atom D in the dihedral.}
       |                  ^
checkRd: (-1) atomdeps.Rd:11: Lost braces; missing escapes or markup?
    11 |  \item{"matx"}: {The names of atoms A,B,C in the dihedral, with rows corresponding to the atoms in "names".}
       |                 ^
checkRd: (-1) atomdeps.Rd:12: Lost braces; missing escapes or markup?
    12 |  \item{"bangle"}: {Planar bond angle formed between B-C-D}
       |                   ^
checkRd: (-1) atomdeps.Rd:13: Lost braces; missing escapes or markup?
    13 |  \item{"blength"}: {Bond length between C-D}
       |                    ^
Namespaces in Imports field not imported from:
  ‘PearsonDS’ ‘VGAM’ ‘actuar’ ‘fExtremes’ ‘rmutil’
  All declared Imports should be used.
checkRd: (-1) keener.Rd:82: Lost braces; missing escapes or markup?
    82 | a_{ij} = (S_ij + 1) / (S_ij + S_ji + 2). This step should make comparing
       |   ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘fitmodel.R’
checkRd: (-1) concstats_hhi.Rd:13: Lost braces; missing escapes or markup?
    13 | value is required. Ranges from {0, 1} and often used for comparison over
       |                                ^
checkRd: (-1) KCI.Rd:44: Lost braces
    44 |  \item \code{testStatistic} the statistic Tr(K_{(ddot{(Y)}|X)} * K_{(E|X)})
       |                                                ^
checkRd: (-1) KCI.Rd:44: Lost braces
    44 |  \item \code{testStatistic} the statistic Tr(K_{(ddot{(Y)}|X)} * K_{(E|X)})
       |                                                      ^
checkRd: (-1) KCI.Rd:44: Lost braces; missing escapes or markup?
    44 |  \item \code{testStatistic} the statistic Tr(K_{(ddot{(Y)}|X)} * K_{(E|X)})
       |                                                                    ^
Namespaces in Imports field not imported from:
  ‘kernlab’ ‘purrr’ ‘survminer’ ‘tidyverse’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
Namespace in Imports field not imported from: ‘mvtnorm’
  All declared Imports should be used.
checkRd: (-1) binary_class_cm.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) binary_class_cm.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) binary_class_cm.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) binary_class_cm.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) multi_class_cm.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) multi_class_cm.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) multi_class_cm.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) multi_class_cm.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) NetStats.Rd:15: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) NetStats.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) NetStats.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) NetStats.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) NetStats.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) NetStats.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) NetStats.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) NetStats.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) NetStats.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_network.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_network.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_network.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_network.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_network.Rd:39: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_network.Rd:40: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_network.Rd:41: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_network.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_network.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
Namespaces in Imports field not imported from:
  ‘lwgeom’ ‘s2’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘Hmisc’ ‘dplyr’ ‘foreign’ ‘lavaan’ ‘openxlsx’ ‘purrr’ ‘semTools’
  ‘shinyWidgets’ ‘stringr’ ‘summarytools’ ‘waiter’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘scales’ ‘sna’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘api-get_datalog.R’ ‘api-get_device.R’ ‘api-get_devices.R’
    ‘api-get_element.R’ ‘api-get_elements.R’ ‘api-get_project.R’
    ‘api-get_projects.R’ ‘api-get_users_me.R’ ‘client.R’
File ‘ConsReg/libs/ConsReg.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Running examples in ‘constrainedKriging-Ex.R’ failed
The error most likely occurred in:

> ### Name: CKrige
> ### Title: Constrained, Covariance-matching Constrained and Universal
> ###   Kriging
> ### Aliases: CKrige CKrige.points CKrige.polygons CKrige-methods
> ###   CKrige,formula,data.frame,formula,preCKrigePoints-method
> ###   CKrige,formula,data.frame,formula,preCKrigePolygons-method
> ###   print.CKrige.exout.polygons summary.CKrige.exout.polygons
> ###   print.CKrige.exout.points summary.CKrige.exout.points
> ### Keywords: methods
> 
> ### ** Examples
> 
> 
> 
> 
> ### example 7: universal block Kriging of mean over whole domain
> ### cf chapter 4 of vignette of package georob
> ### (https://CRAN.R-project.org/package=georob)
> if(!requireNamespace("gstat", quietly = TRUE)){
+   stop("install package gstat to run example")
+ }
> ### load coalash data
> data(coalash, package="gstat")
> 
> ### generate SpatialPointsDataFrame covering entire domain of coalash data
> coalash.domain <- rbind(c(0.5,0), c(16.5,0), c(16.5,24), c(0.5,24), c(0.5,0))
> coalash.domain <- SpatialPolygonsDataFrame(
+   SpatialPolygons(list(Polygons(list(Polygon(coalash.domain)), ID= "domain"))),
+   data=data.frame(x=8.5,y=12,row.names="domain"))
> 
> ### universal block Kriging
> preCK_coalash <- preCKrige(newdata = coalash.domain, model = covmodel(modelname =
+     "exponential", mev = 1.023, nugget = 0, variance = 0.268,
+     scale = 1.907), pwidth = 16, pheight = 24)
> UK_coalash <- CKrige(formula = coalash ~ x, data = coalash,
+   locations = ~ x+y, object = preCK_coalash, method = 1)
OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/contoureR.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Obsolete C++11 standard request will be ignored
checkRd: (-1) getConvexHull.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) getConvexHull.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) getConvexHull.Rd:30: Lost braces in \itemize; meant \describe ?
File ‘contoureR/libs/contoureR.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Requires orphaned package: ‘extraDistr’
checkRd: (-1) copCAR.Rd:40: Lost braces
    40 |        item{\code{maxit}}{the maximum number of iterations to be used by \code{\link{optim}} when optimizing the objective function. Defaults to \code{1000}.}
       |            ^
checkRd: (-1) copCAR.Rd:40: Lost braces
    40 |        item{\code{maxit}}{the maximum number of iterations to be used by \code{\link{optim}} when optimizing the objective function. Defaults to \code{1000}.}
       |                          ^
checkRd: (-1) condQestCopC.Rd:45: Lost braces; missing escapes or markup?
    45 | obtain the conditional qth quantile of Y_{n+1} given {Y1,...,Yn}.
       |                                          ^
checkRd: (-1) condQestCopC.Rd:45: Lost braces; missing escapes or markup?
    45 | obtain the conditional qth quantile of Y_{n+1} given {Y1,...,Yn}.
       |                                                      ^
checkRd: (-1) condQestCopC.Rd:40: Lost braces; missing escapes or markup?
    40 | \code{condQestCopC} returns the conditional tao-th quantile of Y_{n+1} given {Y1,...,Yn}
       |                                                                  ^
checkRd: (-1) condQestCopC.Rd:40: Lost braces; missing escapes or markup?
    40 | \code{condQestCopC} returns the conditional tao-th quantile of Y_{n+1} given {Y1,...,Yn}
       |                                                                              ^
checkRd: (-1) ComputeCope.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ComputeCope.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ComputeCope.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ComputeCope.Rd:54-56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ComputeCope.Rd:57-61: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) DrawContour.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Draws the contour {f=c}.}
       |                          ^
checkRd: (-1) DrawContour.Rd:20: Lost braces; missing escapes or markup?
    20 | Draws the contour {f=c}.
       |                   ^
checkRd: (-1) cope.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) cope.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) cope.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) cope.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) getSurface.Rd:22: Lost braces
    22 | value \code{getSurface} shortens the output of \code{conv} to remove artificial surface layers. The output is thus a subset of the input, and identical in structure to the /code{conv} output.
       |                                                                                                                                                                                  ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘refresh_coronvirus.R’
Namespace in Imports field not imported from: ‘devtools’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘RColorBrewer’ ‘ggplot2’ ‘re2’ ‘rmarkdown’ ‘shinyWidgets’
  ‘shinydashboard’ ‘shinyjs’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘utils’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘corrRect.hclust.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘corrBarplot.R’ ‘corrNetwork.R’
Namespace in Imports field not imported from: ‘graphics’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘knitr’ ‘rmarkdown’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘stats’
  All declared Imports should be used.
checkRd: (-1) cosmoFns-package.Rd:34: Escaped LaTeX specials: \&
Namespace in Imports field not imported from: ‘jpeg’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘gstat’
  All declared Imports should be used.
File ‘covBM/libs/covBM.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following files/directories:
  ‘covfefe_inauguration.txt’
Namespace in Imports field not imported from: ‘lubridate’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘httr’ ‘stringr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘mapview’ ‘plotly’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘usethis’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘misc3d’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘coxphf-tidiers.R’
File ‘cpm/libs/cpm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘cpp11qpdf/libs/cpp11qpdf.so’:
  Found ‘_ZNSt3__14cerrE’, possibly from ‘std::cerr’ (C++)
    Object: ‘libqpdf/libstatqpdf.a’
  Found ‘_ZNSt3__14coutE’, possibly from ‘std::cout’ (C++)
    Object: ‘libqpdf/libstatqpdf.a’
  Found ‘__vprintf_chk’, possibly from ‘vprintf’ (C)
    Object: ‘libqpdf/libstatqpdf.a’
  Found ‘srandom’, possibly from ‘srandom’ (C)
    Object: ‘libqpdf/libstatqpdf.a’
  Found ‘stdout’, possibly from ‘stdout’ (C)
    Object: ‘libqpdf/libstatqpdf.a’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘base’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘RcppProgress’
  All declared Imports should be used.
Obsolete C++11 standard request will be ignored
File ‘cqrReg/libs/cqrReg.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) sharedat.Rd:23: Lost braces
    23 | \doi{10.7910/DVN/YXMQZM}{Harvard dataverse}
       |                         ^
checkRd: (-1) crwPredict.Rd:54-68: Lost braces
    54 | \item("predTime"){
       |                  ^
checkRd: (-1) crwPredict.Rd:59: Lost braces
    59 |  no longer the default (see \item{return.type}). If the original data were 
       |                                  ^
Problems with news in ‘NEWS.md’:
No news entries found.
File ‘credule/libs/credule.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘DT’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘CRMetrics.R’ ‘CRMetrics.Rd’ ‘inner_functions.R’
checkRd: (-1) normFit.Rd:39: Lost braces; missing escapes or markup?
    39 | {analytes}}
       | ^
checkRd: (-1) normPred.Rd:27: Lost braces
    27 | ode{standards}, \code{analytes}}
       |    ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘crop.R’ ‘helpers.R’
Running ‘spelling.R’
  Running ‘testthat.R’ [9s/19s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(CrossClustering)
  > 
  > test_check("CrossClustering")
  Saving _problems/test-cc_crossclustering-118.R
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 81 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-cc_crossclustering.R:118:3'): correct output class ─────────────
  Error in `target != current`: comparison of these types is not implemented
  Backtrace:
       ▆
    1. └─testthat::expect_equal(current, expected) at test-cc_crossclustering.R:118:3
    2.   ├─testthat::compare(act$val, exp$val, ...)
    3.   └─testthat:::compare.default(act$val, exp$val, ...)
    4.     ├─base::all.equal(x, y, ...)
    5.     └─base::all.equal.default(x, y, ...)
    6.       └─base::all.equal.list(target, current, ...)
    7.         └─base::attr.all.equal(target, current, ...)
    8.           ├─base::all.equal(ax, ay, ..., check.attributes = check.attributes)
    9.           └─base::all.equal.list(ax, ay, ..., check.attributes = check.attributes)
   10.             ├─base::all.equal(...)
   11.             └─base::all.equal.list(...)
   12.               ├─base::all.equal(...)
   13.               └─base::all.equal.default(...)
   14.                 └─base::all.equal.numeric(...)
   15.                   └─base::attr.all.equal(...)
   16.                     └─base::all.equal.character(nx, ny, check.attributes = check.attributes)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 81 ]
  Error:
  ! Test failures.
  Execution halted
checkRd: (-1) confRegCCR.Rd:24: Lost braces; missing escapes or markup?
    24 | of interest, beta_{0r}, and the remaining ones are the constrained MLEs given beta_{0r}.}
       |                   ^
checkRd: (-1) confRegCCR.Rd:24: Lost braces; missing escapes or markup?
    24 | of interest, beta_{0r}, and the remaining ones are the constrained MLEs given beta_{0r}.}
       |                                                                                    ^
checkRd: (-1) confRegCCR.Rd:27: Lost braces; missing escapes or markup?
    27 | beta_{0r} in \code{paramVals}, which are those of interest, usually the ones
       |      ^
checkRd: (-1) confRegUCRandUCCR.Rd:24: Lost braces; missing escapes or markup?
    24 | of interest, beta_{0r}, and the remaining ones are the unconstrained MLEs given beta_{0r}.}
       |                   ^
checkRd: (-1) confRegUCRandUCCR.Rd:24: Lost braces; missing escapes or markup?
    24 | of interest, beta_{0r}, and the remaining ones are the unconstrained MLEs given beta_{0r}.}
       |                                                                                      ^
checkRd: (-1) confRegUCRandUCCR.Rd:27: Lost braces; missing escapes or markup?
    27 | beta_{0r} in \code{paramVals}, which are those of interest, usually the ones
       |      ^
File ‘crrSC/libs/crrSC.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘helpers.R’
checkRd: (-1) cruts-package.Rd:21: Lost braces
    21 | section{Dependencies}{
       |        ^
checkRd: (-1) cruts-package.Rd:21-24: Lost braces
    21 | section{Dependencies}{
       |                      ^
checkRd: (-1) cruts-package.Rd:26: Lost braces
    26 | section{Citation}{
       |        ^
checkRd: (-1) cruts-package.Rd:26-28: Lost braces
    26 | section{Citation}{
       |                  ^
checkRd: (-1) cruts-package.Rd:30-32: Lost braces
    30 | references{
       |           ^
Namespace in Imports field not imported from: ‘Rdpack’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘epitools’ ‘rpivotTable’ ‘shinyMatrix’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘Rdpack’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘caret’ ‘datasets’ ‘dplyr’ ‘e1071’ ‘party’ ‘rhandsontable’ ‘rpart’
  ‘rpart.plot’ ‘shiny’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘caret’ ‘datasets’ ‘dplyr’ ‘e1071’ ‘party’ ‘rhandsontable’ ‘rpart’
  ‘rpart.plot’ ‘shiny’
  All declared Imports should be used.
Found the following files/directories:
  ‘Hello.csv’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘apply_by_blocks.R’ ‘balance_by_blocks.Rd’ ‘balance_matrix.R’
    ‘balance_matrix.Rd’ ‘make_non_negative.Rd’ ‘round_by_blocks.Rd’
    ‘round_matrix.R’ ‘round_matrix.Rd’ ‘round_vector.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘accessors.Rd’ ‘as-cubble.R’ ‘as_cubble.Rd’ ‘check-key.R’
    ‘climate-data.Rd’ ‘covid.Rd’ ‘cubble-attrs.R’ ‘cubble-class.R’
    ‘cubble-print.R’ ‘dplyr.R’ ‘dplyr.Rd’ ‘face-spatial-temporal.R’
    ‘face.Rd’ ‘glyph.R’ ‘glyph.Rd’ ‘make_spatial_sf.Rd’
    ‘make_temporal_tsibble.Rd’ ‘matching.R’ ‘matching.Rd’ ‘netcdf.R’
    ‘sf.R’ ‘test-data.Rd’ ‘tsibble.R’ ‘tsibble.Rd’ ‘unfold.R’ ‘unfold.Rd’
Namespace in Imports field not imported from: ‘pspearman’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘create_cure_dataframe.R’ ‘cure_plot.R’ ‘resample_residuals.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘plot_curriculum_graph.R’
Found the following files/directories:
  ‘Adjusted_p_values.pdf’ ‘Effect_Size_Curves.pdf’
  ‘Mean_Difference_Curves.pdf’
Namespace in Imports field not imported from: ‘rlang’
  All declared Imports should be used.
checkRd: (-1) fit.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) fit.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) fit.Rd:39: Lost braces in \itemize; meant \describe ?
Namespace in Imports field not imported from: ‘titanic’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘d3TreeFunctions.R’
checkRd: (-1) fpiter.Rd:55-58: Lost braces
    55 |     \code{tol}{  A small, positive scalar that determines when iterations
       |               ^
checkRd: (-1) fpiter.Rd:60-61: Lost braces
    60 |     \code{maxiter}{  An integer denoting the maximum limit on the number of
       |                   ^
checkRd: (-1) fpiter.Rd:63-65: Lost braces
    63 |     \code{trace}{  A logical variable denoting whether some of the intermediate
       |                 ^
checkRd: (-1) formatScientificTeX.Rd:33: Lost braces; missing escapes or markup?
    33 | function will return  " 3.0\\\\times 10^{2}"
       |                                         ^
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
Running examples in ‘DALEXtra-Ex.R’ failed
The error most likely occurred in:

> ### Name: explain_xgboost
> ### Title: Create explainer from your xgboost model
> ### Aliases: explain_xgboost
> 
> ### ** Examples
> 
> library("xgboost")
> library("DALEXtra")
> library("mlr")
Loading required package: ParamHelpers
> # 8th column is target that has to be omitted in X data
> data <- as.matrix(createDummyFeatures(titanic_imputed[,-8]))
> model <- xgboost(data, titanic_imputed$survived, nrounds = 10,
+                  params = list(objective = "binary:logistic"),
+                 prediction = TRUE)
Warning in throw_err_or_depr_msg("Parameter(s) have been removed from this function: ",  :
  Parameter(s) have been removed from this function: params. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized),  :
  Passed unrecognized parameters: prediction. This warning will become an error in a future version.
> # explainer with encode functiom
> explainer_1 <- explain_xgboost(model, data = titanic_imputed[,-8],
+                                titanic_imputed$survived,
+                                encode_function = function(data) {
+  as.matrix(createDummyFeatures(data))
+ })
Preparation of a new explainer is initiated
  -> model label       :  xgb.Booster  ( [33m default [39m )
  -> data              :  2207  rows  7  cols 
  -> target variable   :  2207  values 
  -> predict function  :  yhat.xgb.Booster  will be used ( [33m default [39m )
  -> predicted values  :  No value for predict function target column. ( [33m default [39m )
Error in strsplit(model$params$objective, ":", fixed = TRUE) : 
  non-character argument
Calls: explain_xgboost ... explain -> model_info -> model_info.xgb.Booster -> strsplit
Execution halted
File ‘DALY/libs/DALY.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘foreach’
  All declared Imports should be used.
checkRd: (-1) processFlow.Rd:14: Lost braces
    14 | \item{roundDigits}{Integer. If NA, numerics are not rounded before comparison. If /code{roundDigits} is specified, numerics are 
       |                                                                                        ^
checkRd: (-1) processFlow.Rd:15: Lost braces
    15 | rounded to /code{roundDigits} decimal places using \link[base]{round}.}
       |                 ^
checkRd: (-1) data_edit.Rd:137: Lost braces
   137 | code{data_edit} is a shiny application built on \code{rhandsontable} that is
       |     ^
Found the following files/directories:
  ‘my new data set.rds’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘drwho_directors.Rd’ ‘drwho_episodes.Rd’ ‘drwho_writers.Rd’
    ‘torchwood_directors.Rd’ ‘torchwood_episodes.Rd’
    ‘torchwood_writers.Rd’
Running ‘spelling.R’
  Running ‘testthat.R’ [25s/46s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  > library(dataset)
  
  Attaching package: 'dataset'
  
  The following object is masked from 'package:testthat':
  
      describe
  
  > 
  > test_check("dataset")
  Saving _problems/test-bibrecord-4.R
  The dataset has already a rights field: :tba
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 940 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-bibrecord.R:4:3'): S3 dispatch works for print.bibrecord ─────
  Expected `any(grepl("B A \\(2025\\)", out))` to be TRUE.
  Differences:
  `actual`:   FALSE
  `expected`: TRUE 
  
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 940 ]
  Error:
  ! Test failures.
  Execution halted
Namespaces in Imports field not imported from:
  ‘jsonlite’ ‘methods’
  All declared Imports should be used.
File ‘data.table/libs/data_table.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘SET_ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
checkRd: (-1) plot.mleBb.Rd:48: Lost braces
    48 |   \ code{size} is extracted from argument \code{x}.
       |         ^
checkRd: (-1) value_missing_table.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) value_missing_table.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
Namespaces in Imports field not imported from:
  ‘knitr’ ‘tidyverse’ ‘vctrs’
  All declared Imports should be used.
Running examples in ‘dblr-Ex.R’ failed
The error most likely occurred in:

> ### Name: dblr_train
> ### Title: Discrete Boosting Logistic Regression Training
> ### Aliases: dblr_train
> 
> ### ** Examples
> 
> # use iris data for example
> dat <- iris
> # create two categorical variables
> dat$Petal.Width <- as.factor((iris$Petal.Width<=0.2)*1+(iris$Petal.Width>1.0)*2)
> dat$Sepal.Length <- (iris$Sepal.Length<=3.0)*2+(iris$Sepal.Length>6.0)*1.25
> # create the response variable
> dat$Species <- as.numeric(dat$Species=='versicolor')
> set.seed(123)
> # random sampling
> index <- sample(1:150,100,replace = FALSE)
> # train the dblr model using the training data
> dblr_fit <- dblr_train(train_x=dat[index,c(1:4)],
+ train_y=dat[index,5],category_cols = c('Petal.Width','Sepal.Length'),
+ metric = 'logloss',subsample = 0.5,eta = 0.05,colsample = 1.0,
+ lambda = 1.0,cv_early_stops = 10,verbose=FALSE)
Warning in throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized),  :
  Passed unrecognized parameters: metrics. This warning will become an error in a future version.
Error in begin_iteration:end_iteration : argument of length 0
Calls: dblr_train -> <Anonymous>
Execution halted
Namespace in Imports field not imported from: ‘softImpute’
  All declared Imports should be used.
checkRd: (-1) CI_mc.Rd:10: Lost braces; missing escapes or markup?
    10 | \item{i}{the row index of the interest entry X_{i,j}}
       |                                                ^
checkRd: (-1) CI_mc.Rd:12: Lost braces; missing escapes or markup?
    12 | \item{j}{the row index of the interest entry X_{i,j}}
       |                                                ^
Namespace in Imports field not imported from: ‘ggplot2’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘ggplot2’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘html5’
  All declared Imports should be used.
checkRd: (-1) data.Rd:11: Lost braces
    11 | \doi{10.1007/s40258-021-00647-3}{DOI}
       |                                 ^
Problems with news in ‘NEWS.md’:
No news entries found.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘qpdf’
  All declared Imports should be used.
checkRd: (-1) detectAgeInterval.Rd:10: Lost braces
    10 | \item{Dat}{a \code{data.frame} containing a column called \code{Age}, or code{age}.}
       |                                                                              ^
checkRd: (-1) detectSex.Rd:10: Lost braces
    10 | \item{Dat}{a \code{data.frame} containing a column called \code{Sex}, or code{sex}.}
       |                                                                              ^
checkRd: (-1) ggbgetAgesFit.Rd:28: Lost braces
    28 | code{\link{ggbChooseAges}}
       |     ^
Namespace in Imports field not imported from: ‘shinydisconnect’
  All declared Imports should be used.
checkRd: (-1) plot.ddpcr_plate.Rd:136-137: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.ddpcr_plate.Rd:138-139: Lost braces in \itemize; meant \describe ?
checkRd: (-1) plot.ddpcr_plate.Rd:140-141: Lost braces in \itemize; meant \describe ?
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/DDRTree.Rcheck/00install.out’ for details.
* used C compiler: ‘clang version 21.1.8’
* used C++ compiler: ‘clang version 21.1.8’
Obsolete C++11 standard request will be ignored
Requires orphaned package: ‘extraDistr’
checkRd: (-1) make_deadata_fuzzy.Rd:96: height/width attributes should be in pixels
checkRd: (-1) deconv.Rd:85: Lost braces; missing escapes or markup?
    85 |     \code{tg}, std. error of \eqn{g}, \eqn{G} (the cdf of {g}),
       |                                                           ^
Requires orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
checkRd: (-1) deepNN-package.Rd:18: Lost braces
    18 | section{Dependencies}{
       |        ^
checkRd: (-1) deepNN-package.Rd:18-21: Lost braces
    18 | section{Dependencies}{
       |                      ^
checkRd: (-1) deepNN-package.Rd:23: Lost braces
    23 | section{Citation}{
       |        ^
checkRd: (-1) deepNN-package.Rd:23-25: Lost braces
    23 | section{Citation}{
       |                  ^
checkRd: (-1) deepNN-package.Rd:27-38: Lost braces
    27 | references{
       |           ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘deeptrafo.Rd’ ‘ensembles.R’ ‘methods.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘defineOptions-package.Rd’ ‘define_option.Rd’ ‘parse_with_defs.Rd’
    ‘summary.parsed_result.Rd’
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/deformula.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Obsolete C++11 standard request will be ignored
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘api.R’ ‘category_blur.R’ ‘deident.R’
Namespaces in Imports field not imported from:
  ‘knitr’ ‘shinyBS’ ‘shinyMatrix’
  All declared Imports should be used.
checkRd: (-1) deltaPlot.Rd:28: Lost braces
    28 |  \item{purify}{logical: should item purification be performed? (Default is code{FALSE}). See \bold{Details}.}
       |                                                                                ^
Found the following files/directories:
  ‘res.pdf’ ‘res1.jpg’
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘Caswell.R’
Found the following files/directories:
  ‘smd_table.docx’
checkRd: (-1) kin.Rd:49-50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin.Rd:51-52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin.Rd:53-61: Lost braces
    53 | {\itemize{
       | ^
checkRd: (-1) kin.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin2sex.Rd:56-57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin2sex.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin2sex.Rd:59-67: Lost braces
    59 | {\itemize{
       | ^
checkRd: (-1) kin2sex.Rd:60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin2sex.Rd:61: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin2sex.Rd:62: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin2sex.Rd:63: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin2sex.Rd:64: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) kin2sex.Rd:65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) scramb.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) DendSer.Rd:50: Escaped LaTeX specials: \&
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘"CXX11"’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/depcoeff.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
checkRd: (-1) barriers.Rd:127: Escaped LaTeX specials: \$
Namespace in Imports field not imported from: ‘datasets’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘mod_template_srv.R’
Namespace in Imports field not imported from: ‘RColorBrewer’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘utils’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘Rcpp’
  All declared Imports should be used.
checkRd: (-1) runContrasts.Rd:79: Lost braces in \itemize; meant \describe ?
checkRd: (-1) runContrasts.Rd:80: Lost braces in \itemize; meant \describe ?
checkRd: (-1) runContrasts.Rd:81: Lost braces in \itemize; meant \describe ?
checkRd: (-1) runContrasts.Rd:82: Lost braces in \itemize; meant \describe ?
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘dggridR.R’
checkRd: (-1) AIC.dglars.Rd:47: Lost braces
    47 | \item{comp}{the measures of model complexity used to compute the measure of goodness-of-fit. It is equal to \code{npar} when code{complexity = "df"};}
       |                                                                                                                                  ^
checkRd: (-1) dglars.Rd:258: Lost braces
   258 |                 \item{\code{7}}{maximum number of solution points ('code{np}') reached.}
       |                                                                         ^
checkRd: (-1) dHSIC-package.Rd:32: Lost braces
    32 |   Gretton, A., K. Fukumizu, C. H. Teo, L. Song, B. Sch{\"o}lkopf and
       |                                                       ^
checkRd: (-1) dHSIC-package.Rd:36: Lost braces
    36 |   Pfister, N., P. B{\"u}hlmann, B. Sch{\"o}lkopf and J. Peters (2017).
       |                    ^
checkRd: (-1) dHSIC-package.Rd:36: Lost braces
    36 |   Pfister, N., P. B{\"u}hlmann, B. Sch{\"o}lkopf and J. Peters (2017).
       |                                       ^
checkRd: (-1) dhsic.Rd:84: Lost braces
    84 |   Gretton, A., K. Fukumizu, C. H. Teo, L. Song, B. Sch{\"o}lkopf and
       |                                                       ^
checkRd: (-1) dhsic.Rd:88: Lost braces
    88 |   Pfister, N., P. B{\"u}hlmann, B. Sch{\"o}lkopf and J. Peters (2017).
       |                    ^
checkRd: (-1) dhsic.Rd:88: Lost braces
    88 |   Pfister, N., P. B{\"u}hlmann, B. Sch{\"o}lkopf and J. Peters (2017).
       |                                       ^
checkRd: (-1) dhsic.test.Rd:124: Lost braces
   124 |   Gretton, A., K. Fukumizu, C. H. Teo, L. Song, B. Sch{\"o}lkopf and
       |                                                       ^
checkRd: (-1) dhsic.test.Rd:128: Lost braces
   128 |   Pfister, N., P. B{\"u}hlmann, B. Sch{\"o}lkopf and J. Peters (2017).
       |                    ^
checkRd: (-1) dhsic.test.Rd:128: Lost braces
   128 |   Pfister, N., P. B{\"u}hlmann, B. Sch{\"o}lkopf and J. Peters (2017).
       |                                       ^
Namespace in Imports field not imported from: ‘rlang’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘diario.R’
checkRd: (-1) DIconvex.Rd:40: Lost braces; missing escapes or markup?
    40 |  {Paul Schneider <paul.schneider@usi.ch>}{}
       |  ^
checkRd: (-1) define.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) define.Rd:17-18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) define.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) define.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) define.Rd:21-22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) define.Rd:23-24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) define.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) define.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) define.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) define.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) define.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
Namespaces in Imports field not imported from:
  ‘R6’ ‘dplyr’ ‘purrr’
  All declared Imports should be used.
checkRd: (-1) Diderot-package.Rd:20: height/width attributes should be in pixels
File ‘diffIRT/libs/diffIRT.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) sensitivitySamplerManual-DPMech-function-numeric-numeric-numeric-method.Rd:25: Lost braces
    25 | \item{k}{order statistic index in {1,...,\code{m}}.}
       |                                   ^
checkRd: (-1) sensitivitySamplerManual-DPMechNumeric-function-numeric-numeric-numeric-method.Rd:25: Lost braces
    25 | \item{k}{order statistic index in {1,...,\code{m}}.}
       |                                   ^
checkRd: (-1) sensitivitySamplerManual.Rd:22: Lost braces
    22 | \item{k}{order statistic index in {1,...,\code{m}}.}
       |                                   ^
checkRd: (-1) simulate_diff_tables.Rd:72: Lost braces; missing escapes or markup?
    72 |   {The Sharma-Song test} {\code{\link[DiffXTables]{sharma.song.test}}}
       |   ^
checkRd: (-1) simulate_diff_tables.Rd:74: Lost braces; missing escapes or markup?
    74 |   {The comparative chi-squared test} {\code{\link[DiffXTables]{cp.chisq.test}}}
       |   ^
checkRd: (-1) simulate_diff_tables.Rd:76: Lost braces; missing escapes or markup?
    76 |   {The heterogeneity test} {\code{\link[DiffXTables]{heterogeneity.test}}}
       |   ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘dilp_functions.R’
checkRd: (-1) DIME.Rd:272: Lost braces; missing escapes or markup?
   272 | \item{name}{the name of the model {"GNG", "iNUDGE","NUDGE"} where
       |                                   ^
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘readr’
  All declared Imports should be used.
checkRd: (-1) mc_attitudes.Rd:52: Lost braces
    52 | P\'{a}ez, A. (2013). Mapping travelers’ attitudes: does space matter?. Journal of Transport Geography, 26, 117-125. (https://doi.org/10.1016/j.jtrangeo.2012.09.002)
       |    ^
checkRd: (-1) mc_commute.csv.Rd:49: Lost braces
    49 | Whalen, K. E., P\'{a}ez, A., & Carrasco, J. A. (2013). Mode choice of university students commuting to school and the role of active travel. Journal of Transport Geography, 31, 132-142. (https://doi.org/10.1016/j.jtrangeo.2013.06.008)
       |                   ^
checkRd: (-1) mc_commute_long.Rd:74: Lost braces
    74 | Whalen, K. E., P\'{a}ez, A., & Carrasco, J. A. (2013). Mode choice of university students commuting to school and the role of active travel. Journal of Transport Geography, 31, 132-142. (https://doi.org/10.1016/j.jtrangeo.2013.06.008)
       |                   ^
checkRd: (-1) mc_commute_wide.Rd:87: Lost braces
    87 | Whalen, K. E., P\'{a}ez, A., & Carrasco, J. A. (2013). Mode choice of university students commuting to school and the role of active travel. Journal of Transport Geography, 31, 132-142. (https://doi.org/10.1016/j.jtrangeo.2013.06.008)
       |                   ^
checkRd: (-1) mc_modality.Rd:50: Lost braces
    50 | Lavery, T., P\'{a}ez, A., & Kanaroglou, P.S. (2013). Driving out of choices: An investigation of transport modality in a university sample. Transportation Research Part A: Policy and Practice, 57:37-46 (https://doi.org/10.1016/j.tra.2013.09.010)
       |                ^
checkRd: (-1) cIndex.Rd:32: Lost braces; missing escapes or markup?
    32 | [a_{q-1}, a_q) are available.
       |    ^
checkRd: (-1) cIndexCompRisks.Rd:31: Lost braces; missing escapes or markup?
    31 | [a_{q-1}, a_q) are available.
       |    ^
checkRd: (-1) dataCensoring.Rd:78: Escaped LaTeX specials: \&
checkRd: (-1) dataLong.Rd:170: Escaped LaTeX specials: \&
checkRd: (-1) dataLongCompRisksTimeDep.Rd:130: Escaped LaTeX specials: \&
checkRd: (-1) dataLongMultiSpell.Rd:123: Escaped LaTeX specials: \&
checkRd: (-1) dataLongTimeDep.Rd:96: Escaped LaTeX specials: \&
checkRd: (-1) estMargProb.Rd:23: Lost braces; missing escapes or markup?
    23 | a_2), ..., [a_{q-1}, a_q), [a_q, Inf).
       |               ^
checkRd: (-1) estMargProbCompRisks.Rd:24: Lost braces; missing escapes or markup?
    24 | a_2), ..., [a_{q-1}, a_q), [a_q, Inf).
       |               ^
checkRd: (-1) estSurv.Rd:23: Lost braces; missing escapes or markup?
    23 | a_2), ..., [a_{q-1}, a_q), [a_q, Inf).
       |               ^
checkRd: (-1) estSurvCompRisks.Rd:24: Lost braces; missing escapes or markup?
    24 | a_2), ..., [a_{q-1}, a_q), [a_q, Inf).
       |               ^
checkRd: (-1) lifeTable.Rd:21: Lost braces; missing escapes or markup?
    21 | [a_0, a_1), [a_1, a_2), ..., [a_{q-1}, a_q) ("character vector")}
       |                                 ^
checkRd: (-1) csv_to_disk.frame.Rd:56: Lost braces; missing escapes or markup?
    56 | strings, and you are encouraged to use {fasttime} to convert the strings to
       |                                        ^
checkRd: (-1) purrr_as_mapper.Rd:10: Lost braces; missing escapes or markup?
    10 | \item{.f}{a normal function or purrr syntax function i.e. `~{ ...code...}`}
       |                                                             ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘dev_package.R’
Problems with news in ‘NEWS.md’:
No news entries found.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘proxy’
  All declared Imports should be used.
checkRd: (-1) dapply.Rd:27-30: Lost braces
    27 | udf <- function(x){
       |                   ^
Requires orphaned package: ‘extraDistr’
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘rlang’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘mixture.R’
Namespace in Imports field not imported from: ‘truncnorm’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ggmulti’ ‘loon’ ‘loon.data’ ‘loon.ggplot’ ‘loon.shiny’ ‘loon.tourr’
  ‘stats’ ‘zenplots’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘gridExtra’ ‘plotly’ ‘pryr’ ‘rpart’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘MASS’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Changes to previous versions
    Minor changes
    Fixes
    Previous Versions
Found the following significant warnings:
  Warning: SystemRequirements and Makevars* specified different C++ standards
Found the following additional notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/dlmtree.Rcheck/00install.out’ for details.
* used C compiler: ‘clang version 21.1.8’
* used Fortran compiler: ‘flang version 21.1.8’
* used C++ compiler: ‘clang version 21.1.8’
checkRd: (-1) dca.Rd:24: Lost braces; missing escapes or markup?
    24 | \eqn{neglinks_{ij} = 1} means chunklet \code{i} and chunklet {j}
       |                                                              ^
checkRd: (-1) dca.Rd:26: Lost braces; missing escapes or markup?
    26 | \eqn{neglinks_{ij} = 0} means chunklet \code{i} and chunklet {j}
       |                                                              ^
checkRd: (-1) rca.Rd:57: Lost braces; missing escapes or markup?
    57 |       e.g. {1, 3, 7} and {4, 6}, might belong to the
       |            ^
checkRd: (-1) rca.Rd:57: Lost braces; missing escapes or markup?
    57 |       e.g. {1, 3, 7} and {4, 6}, might belong to the
       |                          ^
checkRd: (-1) scale_color_dMod.Rd:10: Lost braces
    10 | \item{...}{arguments goint to code{scale_color_manual()}}
       |                                   ^
checkRd: (-1) scale_fill_dMod.Rd:10: Lost braces
    10 | \item{...}{arguments goint to code{scale_color_manual()}}
       |                                   ^
checkRd: (-1) trust.Rd:103: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:104: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:105: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:106: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:107-108: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:109-110: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:111-112: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:113-114: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:115-122: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:123-126: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:127: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:128-131: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:132-133: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:134-135: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:136-138: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) trust.Rd:139-141: Lost braces in \itemize; \value handles \item{}{} directly
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) setCPT.O.Rd:85: Lost braces; missing escapes or markup?
    85 | statespace {0,1,2}, which this is *not* checked anywhere. Thus, if
       |            ^
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) dnr.Rd:12: Escaped LaTeX specials: \#
checkRd: (-1) beetle.Rd:13: Lost braces; missing escapes or markup?
    13 |     \item{\code{x}}{dose (log base 10 CS2mgl^{-1})}
       |                                              ^
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    New features
Namespace in Imports field not imported from: ‘gridExtra’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘DoseFinding’ ‘Rsolnp’ ‘ggplot2’ ‘kableExtra’ ‘knitr’
  ‘latticeExtra’ ‘purrr’ ‘readxl’ ‘shinyBS’ ‘shinyWidgets’ ‘shinyjs’
  ‘stringr’ ‘utils’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
Found the following files/directories:
  ‘myfile.ps’ ‘myfile.svg’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘dpkg_release_gh.R’ ‘read_dpkg.Rd’ ‘stow.R’ ‘stow.Rd’
Namespaces in Imports field not imported from:
  ‘tidyr’ ‘tidyverse’
  All declared Imports should be used.
File ‘dplyr/libs/dplyr.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘LEVELS’, ‘OBJECT’, ‘PRVALUE’,
    ‘R_shallow_duplicate_attr’, ‘Rf_allocSExp’, ‘SET_ATTRIB’,
    ‘SET_PRCODE’, ‘SET_PRENV’, ‘SET_PRVALUE’
These entry points may be removed soon:
‘OBJECT’, ‘R_shallow_duplicate_attr’, ‘LEVELS’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Namespaces in Imports field not imported from:
  ‘R6’ ‘dplyr’ ‘ggplot2’ ‘nloptr’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘MASS’
  All declared Imports should be used.
checkRd: (-1) confint.dr4pl.Rd:49: Escaped LaTeX specials: \&
checkRd: (-1) gof-dr4pl.Rd:40: Escaped LaTeX specials: \&
checkRd: (-1) vcov.dr4pl.Rd:61: Escaped LaTeX specials: \&
Found the following files/directories:
  ‘drawBox.pdf’ ‘drawCircle.pdf’ ‘drawCurve.pdf’ ‘drawLine.pdf’
  ‘drawPoint.pdf’ ‘drawSettingsExample.pdf’ ‘drawText.pdf’ ‘export.pdf’
checkRd: (-1) EDcomp.Rd:88: Escaped LaTeX specials: \&
checkRd: (-1) LL.4.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) W4.Rd:37: Escaped LaTeX specials: \&
checkRd: (-1) algae.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) anova.drc.Rd:40: Escaped LaTeX specials: \&
checkRd: (-1) deguelin.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) gompertz.Rd:55: Escaped LaTeX specials: \&
checkRd: (-1) hatvalues.drc.Rd:43: Lost braces
    43 |   emph{Generalized Linear Models}, 
       |       ^
checkRd: (-1) hatvalues.drc.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) llogistic.Rd:64: Escaped LaTeX specials: \&
checkRd: (-1) modelFit.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) weibull1.Rd:67: Escaped LaTeX specials: \&
checkRd: (-1) excalibur.Rd:18: Lost braces; missing escapes or markup?
    18 |     \item{\code{GR}}{a numeric vector: germination rates in d^{-1}}
       |                                                               ^
checkRd: (-1) festuca.Rd:16: Lost braces; missing escapes or markup?
    16 |     \item{\code{GR}}{a numeric vector: germination rates in d^{-1}}
       |                                                               ^
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) popsize.Rd:70: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) popsize.Rd:71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) popsize.Rd:72: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) popsize.Rd:73: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) popsize.Rd:74: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) popsize.Rd:75: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) popsize_cond.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) popsize_cond.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) popsize_cond.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) popsize_cond.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) popsize_cond.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) popsize_cond.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
Namespace in Imports field not imported from: ‘mnormt’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘rJava’ ‘tools’
  All declared Imports should be used.
File ‘dsdp/libs/dsdp.so’:
  Found non-API call to R: ‘Rf_allocSExp’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘v_fmt_to_type.R’
checkRd: (-1) DTDAcif.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) DTDAcif.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) DTDAcif.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) DTDAcif.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) DTDAcif.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) efron.petrosian.Rd:22: Lost braces
    22 |   \item{error}{ Numeric value. Maximum pointwise error when estimating the density associated to X (f) in two consecutive steps. If this is missing, it is $1e{-06}$.}
       |                                                                                                                                                               ^
checkRd: (-1) lynden.Rd:21: Lost braces
    21 |    \item{error}{ Numeric value. Maximum pointwise error when estimating the density associated to X (f) in two consecutive steps. If this is missing, it is $1e{-06}$.}
       |                                                                                                                                                                ^
checkRd: (-1) shen.Rd:24: Lost braces
    24 |   \item{error}{ Numeric value. Maximum pointwise error when estimating the density associated to X (f) in two consecutive steps. If this is missing, it is $1e{-06}$.}
       |                                                                                                                                                               ^
checkRd: (-1) applied_crm.Rd:64: Lost braces; missing escapes or markup?
    64 | The empiric model is specified as F(d, beta) = d^{exp(beta)}. The logistic model is
       |                                                  ^
checkRd: (-1) Mena.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Mena.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Mena.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Mena.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Mena.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Mena.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) DTWUMI_1gap_imputation.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) DTWUMI_1gap_imputation.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) DTWUMI_1gap_imputation.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) DTWUMI_1gap_imputation.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) DTWUMI_1gap_imputation.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
File ‘dualtrees/libs/dualtrees.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘digest’ ‘dplyr’
  All declared Imports should be used.
File ‘duckdb/libs/duckdb.so’:
  Found non-API call to R: ‘ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Problems with news in ‘NEWS.md’:
No news entries found.
Namespace in Imports field not imported from: ‘roxygen2’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘GenEst’ ‘expint’ ‘numDeriv’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) dyadic_similarity.Rd:27: Lost braces; missing escapes or markup?
    27 |      For example, the order {a, b, c} implies that a > b, a  > c, and b > c.
       |                             ^
Namespace in Imports field not imported from: ‘graphics’
  All declared Imports should be used.
checkRd: (-1) generate_kinetics.Rd:57: Lost braces; missing escapes or markup?
    57 | By default, sampled from {-1, 1} with probabilities {.25, .75}.
       |                          ^
checkRd: (-1) generate_kinetics.Rd:57: Lost braces; missing escapes or markup?
    57 | By default, sampled from {-1, 1} with probabilities {.25, .75}.
       |                                                     ^
checkRd: (-1) Produc.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Produc.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Produc.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Produc.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Produc.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Produc.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Produc.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Produc.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Produc.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Produc.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) NKI-breast-cancer-clinical-data.Rd:26: Escaped LaTeX specials: \&
checkRd: (-1) NKI-breast-cancer-clinical-data.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) NKI-breast-cancer-clinical-data.Rd:37: Escaped LaTeX specials: \&
checkRd: (-1) WBC-follow-up-data.Rd:13: Escaped LaTeX specials: \&
checkRd: (-1) WBC-follow-up-data.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) WBC-follow-up-data.Rd:26: Escaped LaTeX specials: \&
checkRd: (-1) WBC-follow-up-data.Rd:31: Escaped LaTeX specials: \&
checkRd: (-1) WBC-follow-up-data.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) WBC-measurements-data.Rd:13: Escaped LaTeX specials: \&
checkRd: (-1) WBC-measurements-data.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) WBC-measurements-data.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) WBC-measurements-data.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) WBC-measurements-data.Rd:40: Escaped LaTeX specials: \&
File ‘dynpred/libs/dynpred.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) plot.earlyR.Rd:34-46: Lost braces
    34 | if (require(incidence)) {
       |                         ^
Requires (indirectly) orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘rprojroot’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘scales’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘qcr’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘ebase_plot.R’ ‘ebase_prep.R’
Requires orphaned package: ‘extraDistr’
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’
  All declared Imports should be used.
checkRd: (-1) ecolRxC.Rd:161-166: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ecolRxC.Rd:167-175: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ecolRxC.Rd:176-178: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ecolRxC.Rd:179-185: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ecolRxC.Rd:186-192: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ecolRxC.Rd:193-201: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ecolRxC.Rd:202-208: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ecolRxC.Rd:209-216: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ecolRxC.Rd:217-221: Lost braces in \itemize; meant \describe ?
File ‘ECOSolveR/libs/ECOSolveR.so’:
  Found ‘__vprintf_chk’, possibly from ‘vprintf’ (C)
    Objects: ‘ecos/libecos.a’, ‘ecos/libecos_bb.a’
  Found ‘printf’, possibly from ‘printf’ (C)
    Objects: ‘ecos/libecos.a’, ‘ecos/libecos_bb.a’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Error(s) in re-building vignettes:
--- re-building ‘vignette_ecospat_package.Rmd’ using rmarkdown

Quitting from vignette_ecospat_package.Rmd:409-412 [ESM.EnsembleModeling]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `gzfile()`:
! invalid 'description' argument
---
Backtrace:
    x
 1. \-ecospat::ecospat.ESM.EnsembleModeling(...)
 2.   \-base::load(models.[i])
 3.     \-base::gzfile(file)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'vignette_ecospat_package.Rmd' failed with diagnostics:
invalid 'description' argument
--- failed re-building ‘vignette_ecospat_package.Rmd’

SUMMARY: processing the following file failed:
  ‘vignette_ecospat_package.Rmd’

Error: Vignette re-building failed.
Execution halted
Namespace in Imports field not imported from: ‘graphics’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘Rmisc’ ‘rlang’
  All declared Imports should be used.
Requires (indirectly) orphaned package: ‘extraDistr’
checkRd: (-1) transformFitness.Rd:25: Lost braces; missing escapes or markup?
    25 | minimization (most others). This function computes a factor from {-1, 1} for
       |                                                                  ^
checkRd: (-1) read.edf.Rd:30: Lost braces
    30 | Kemp B., V\"{a}rri, A., Rosa, A.C., Nielsen, K.D. and Gade, J. (1992).
       |             ^
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    TODO:
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘indicator_volunteers.R’
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘magrittr’ ‘tibble’
  All declared Imports should be used.
checkRd: (-1) eesim.Rd:148-151: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) eesim.Rd:152-155: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) eesim.Rd:156-158: Lost braces in \itemize; \value handles \item{}{} directly
Namespace in Imports field not imported from: ‘PCovR’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘progress’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘directory.R’ ‘facets.R’ ‘metadata.R’
Namespace in Imports field not imported from: ‘snow’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following significant warnings:
  Warning: SystemRequirements: invalid C++ specification ‘C++ 17’
See ‘/data/gannet/ripley/R/packages/tests-clang/EigenR.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Namespace in Imports field not imported from: ‘mathjaxr’
  All declared Imports should be used.
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/EIX.Rcheck/00install.out’ for details.
checkRd: (-1) fit_mean.Rd:54: Lost braces
    54 | \code{t_optims}{optimal parametrizations}
       |                ^
checkRd: (-1) fit_mean.Rd:55: Lost braces
    55 | \code{G_optims}{optimal rotations}
       |                ^
checkRd: (-1) fit_mean.Rd:56: Lost braces
    56 | \code{b_optims}{optimal scalings}
       |                ^
checkRd: (-1) fit_mean.Rd:57: Lost braces
    57 | \code{n_optims}{optimal re-normalization}
       |                ^
checkRd: (-1) fit_mean.Rd:58: Lost braces
    58 | \code{n_iter}{number of iterations until convergence}
       |              ^
checkRd: (-1) docs_delete_by_query.Rd:47: Lost braces; missing escapes or markup?
    47 | as a document at .tasks/task/${taskId}. This is yours to keep or remove
       |                               ^
checkRd: (-1) docs_update_by_query.Rd:48: Lost braces; missing escapes or markup?
    48 | as a document at .tasks/task/${taskId}. This is yours to keep or remove
       |                               ^
checkRd: (-1) AuditErrors.Rd:40: Escaped LaTeX specials: \_
checkRd: (-1) compute.audit.errors.Rd:24: Escaped LaTeX specials: \_
checkRd: (-1) compute.stark.t.Rd:35: Escaped LaTeX specials: \_ \_
checkRd: (-1) find.q.Rd:44: Escaped LaTeX specials: \_
checkRd: (-1) find.q.Rd:56: Escaped LaTeX specials: \_
checkRd: (-1) stark.test.Rd:50: Escaped LaTeX specials: \$
checkRd: (-1) stark.test.Rd:101: Escaped LaTeX specials: \$ \$
checkRd: (-1) tri.audit.sim.Rd:47: Escaped LaTeX specials: \_
checkRd: (-1) tri.calc.sample.Rd:34: Escaped LaTeX specials: \_
checkRd: (-1) tri.sample.Rd:34: Escaped LaTeX specials: \$
checkRd: (-1) tri.sample.Rd:36: Escaped LaTeX specials: \$
checkRd: (-1) tri.sample.Rd:49: Escaped LaTeX specials: \$
checkRd: (-1) weight.function.Rd:16: Escaped LaTeX specials: \_
checkRd: (-1) electData.Rd:16: Lost braces; missing escapes or markup?
    16 | Variables: \code{id}  = {identification number},
       |                         ^
checkRd: (-1) electData.Rd:17: Lost braces; missing escapes or markup?
    17 | \code{state} = {state}, \code{age} = age in years on a shifted scale (current age minus 70),
       |                ^
checkRd: (-1) summary.elect.Rd:25: Lost braces; missing escapes or markup?
    25 |  TRUE for output on start-state totals e_{r.} (for \code{S}>0)
       |                                          ^
Namespaces in Imports field not imported from:
  ‘distr’ ‘distrEllipse’
  All declared Imports should be used.
File ‘ellipsis/libs/ellipsis.so’:
  Found non-API calls to R: ‘PRVALUE’, ‘Rf_findVarInFrame3’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Namespace in Imports field not imported from: ‘datasets’
  All declared Imports should be used.
checkRd: (-1) elo.run.Rd:80: Lost braces
    80 | \code{\link{score}}, \link{elo.run.helpers}{elo.run helpers}, \code{\link{elo.calc}},
       |                                            ^
File ‘elsa/libs/elsa.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘C++11’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/EMC2.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Licence stub is invalid DCF.
Found the following HTML validation problems:
EmiR.html:385:1 (bohachevsky_func.Rd:16): Warning: <script> anchor "MathJax-script" already defined
EmiR.html:1634:1 (freudenstein_roth_func.Rd:16): Warning: <script> anchor "MathJax-script" already defined
EmiR.html:1724:1 (griewank_func.Rd:16): Warning: <script> anchor "MathJax-script" already defined
EmiR.html:1820:1 (miele_cantrell_func.Rd:16): Warning: <script> anchor "MathJax-script" already defined
EmiR.html:2144:1 (rastrigin_func.Rd:19): Warning: <script> anchor "MathJax-script" already defined
EmiR.html:2174:1 (rosenbrock_func.Rd:16): Warning: <script> anchor "MathJax-script" already defined
EmiR.html:2227:1 (schwefel_func.Rd:16): Warning: <script> anchor "MathJax-script" already defined
EmiR.html:2279:1 (styblinski_tang_func.Rd:16): Warning: <script> anchor "MathJax-script" already defined
checkRd: (-1) macacaModels.Rd:9: Lost braces in \itemize; meant \describe ?
checkRd: (-1) macacaModels.Rd:10-11: Lost braces in \itemize; meant \describe ?
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/emodnet.wfs.Rcheck/00install.out’ for details.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘as.character.emphatic.Rd’ ‘as_emphatic.Rd’ ‘as_html.Rd’
    ‘as_latex.Rd’ ‘as_svg.Rd’ ‘as_svg_anim.Rd’ ‘as_svg_group.Rd’
    ‘as_typst.Rd’ ‘hl.Rd’ ‘hl_adjust.Rd’ ‘is_emphatic.Rd’
    ‘knit_print.emphatic.Rd’ ‘print.emphatic.Rd’ ‘show_html.Rd’
    ‘write_xlsx.Rd’
checkRd: (-1) encode.character.Rd:22: Escaped LaTeX specials: \~
checkRd: (-1) enetLTS-package.Rd:41: Lost braces; missing escapes or markup?
    41 |   \code{family="binomial"} should be a factor with two levels which is coded as \code{0} and {1}.
       |                                                                                              ^
checkRd: (-1) CTN.Rd:22: Lost braces; missing escapes or markup?
    22 | less memory. Genetic data consists of nucleotide data {A,T,C,G} and are usually saved
       |                                                       ^
Namespaces in Imports field not imported from:
  ‘Biostrings’ ‘DECIPHER’ ‘ggplot2’ ‘reshape2’ ‘usethis’
  All declared Imports should be used.
File ‘enviPat/libs/enviPat.so’:
  Found non-API call to R: ‘SETLENGTH’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
checkRd: (-1) metrics.Rd:124: Lost braces
   124 | Avg = 0.5 (sum | P_i - Q_i| + max{ | P_i - Q_i |})
       |                                  ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘network.Rd’ ‘types.Rd’
Found the following files/directories:
  ‘Net1-fromR.inp’
checkRd: (-1) misClustRate.Rd:18: Lost braces; missing escapes or markup?
    18 | Compute the empirical MCR, assuming that #{cluster} = #{block},
       |                                           ^
checkRd: (-1) misClustRate.Rd:18: Lost braces; missing escapes or markup?
    18 | Compute the empirical MCR, assuming that #{cluster} = #{block},
       |                                                        ^
Namespace in Imports field not imported from: ‘tibble’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘tinytest’
  All declared Imports should be used.
checkRd: (-1) risk.display.rd:98: Escaped LaTeX specials: \$
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
checkRd: (-1) datagen.Rd:81: height/width attributes should be in pixels
checkRd: (-1) datagen.Rd:88: height/width attributes should be in pixels
checkRd: (-1) datagen.Rd:95: height/width attributes should be in pixels
checkRd: (-1) runSim.Rd:111: Lost braces
   111 | \ifelse{html}{\out{<i>r</i><sub>1</sub> = 1}}{{\eqn{r_1 = 1}}{r_1 = 1}} while the individual with the lowest phenotypic value
       |                                                              ^
checkRd: (-1) runSim.Rd:112: Lost braces
   112 | is given the rank \ifelse{html}{\out{<i>r<sub>n</sub></i> = <i>n</i>}}{{\eqn{r_n = n}}{r_n = n}}), the probability of an individual
       |                                                                                       ^
checkRd: (-1) runSim.Rd:120-122: Lost braces
   120 | }{
       |  ^
Requires (indirectly) orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘xts’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘testthat’
  All declared Imports should be used.
Found the following significant warnings:

  Warning: 'getCov' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Problems with news in ‘NEWS.md’:
No news entries found.
Namespaces in Imports field not imported from:
  ‘cubature’ ‘rootSolve’
  All declared Imports should be used.
checkRd: (-1) Tm.Rd:46-48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tm.Rd:49-51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tm.Rd:52-54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tm.Rd:55-57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) Tm.Rd:58-60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fitpot.Rd:36-39: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fitpot.Rd:40-42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fitpot.Rd:43-46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fitpot.Rd:47-49: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) thrselect.Rd:54-56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) thrselect.Rd:57-59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) thrselect.Rd:60-62: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) thrselect.Rd:63-65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) thrselect.Rd:66-68: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) thrselect.Rd:69-71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) thrselect.Rd:72-74: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) thrselect.Rd:75-77: Lost braces in \itemize; \value handles \item{}{} directly
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘render_erd.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘erlang_c_app.R’
Namespace in Imports field not imported from: ‘signal’
  All declared Imports should be used.
checkRd: (-1) ifa.Rd:16: Lost braces; missing escapes or markup?
    16 | If Sigma has the q-factor decomposition Sigma=diag(Psi)+BB', then Sigma^{-1} 
       |                                                                         ^
checkRd: (-1) ifa.Rd:17: Lost braces; missing escapes or markup?
    17 | has the corresponding q-factor decomposition Sigma^{-1}=diag(phi)(I-theta theta')diag(phi), where theta is a mxq matrix and phi the vector of 
       |                                                    ^
checkRd: (-1) ifa.Rd:21: Lost braces; missing escapes or markup?
    21 | \item{iSB}{m x q matrix (diag(Psi)+BB')^{-1}B.}
       |                                         ^
checkRd: (-1) isqrtfa.Rd:15: Lost braces; missing escapes or markup?
    15 | If Sigma has the q-factor decomposition Sigma=diag(Psi)+BB', then the function returns a matrix Omega such that Sigma^{-1} = Omega Omega'. Equivalently,
       |                                                                                                                       ^
checkRd: (-1) enp.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) enp.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) evolat.Rd:49: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) evolat.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) psns.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) psns.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
Requires orphaned package: ‘extraDistr’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘esem_cfa_syntax.R’
checkRd: (-1) USA_state_N.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) USA_state_N.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) confirmed.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) confirmed.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) death.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) death.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) recovered.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) recovered.Rd:11: Lost braces in \itemize; meant \describe ?
File ‘essentials/libs/essentials.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘IS_S4_OBJECT’, ‘OBJECT’,
    ‘SET_ATTRIB’, ‘SET_OBJECT’, ‘UNSET_S4_OBJECT’
These entry points may be removed soon:
‘UNSET_S4_OBJECT’, ‘IS_S4_OBJECT’, ‘OBJECT’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/ess.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Obsolete C++11 standard request will be ignored
checkRd: (-1) aic.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) aic.Rd:29: Escaped LaTeX specials: \&
checkRd: (-1) ictab.Rd:56: Escaped LaTeX specials: \&
checkRd: (-1) ictab.Rd:60: Escaped LaTeX specials: \&
checkRd: (-1) ictab.Rd:64: Escaped LaTeX specials: \&
Requires orphaned package: ‘extraDistr’
checkRd: (-1) ETC-package.Rd:28-29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ETC-package.Rd:30-31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ETC-package.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) data_cls.Rd:24: Lost braces
    24 | \item Graphs: Erd\"{o}s-R\'{e}nyi graphs with connection probability 0.10 for
       |                    ^
checkRd: (-1) data_cls.Rd:24: Lost braces
    24 | \item Graphs: Erd\"{o}s-R\'{e}nyi graphs with connection probability 0.10 for
       |                            ^
checkRd: (-1) data_reg.Rd:21: Lost braces
    21 | \item Graphs: Erd\"{o}s-R\'{e}nyi graphs with connection probability given by
       |                    ^
checkRd: (-1) data_reg.Rd:21: Lost braces
    21 | \item Graphs: Erd\"{o}s-R\'{e}nyi graphs with connection probability given by
       |                            ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘elx_run_query.R’
checkRd: (-1) FuzzyCluster.Rd:15: Lost braces; missing escapes or markup?
    15 | A list of cluster labels and a R object of class "fcm {ppclust}"
       |                                                       ^
checkRd: (-1) pamCluster.Rd:15: Lost braces; missing escapes or markup?
    15 | A list of cluster labels and a R object of class "pam {cluster}"
       |                                                       ^
Namespaces in Imports field not imported from:
  ‘forcats’ ‘rqPen’ ‘utils’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘EnvStats’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘KMsurv’ ‘MLEcens’ ‘lubridate’ ‘msm’ ‘perm’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) calculateGLR.Rd:43: Escaped LaTeX specials: \&
checkRd: (-1) glr.Rd:5: Lost braces
     5 |   Conducts a generalized likelihood ratio test testing whether {\eqn{\beta \in}  (-\code{c},\code{c})}. Covariates can be accommodated.
       |                                                                ^
checkRd: (-1) glr.Rd:34: Lost braces
    34 |   This is a similar function to the main function \code{evian}. Instead of testing H0: \eqn{\beta}=0, it tests for whether H0:{\eqn{\beta \in} (-\code{c},\code{c})}.
       |                                                                                                                               ^
checkRd: (-1) Snoring.Rd:21: Escaped LaTeX specials: \&
checkRd: (-1) fmgammagpd.Rd:183: Lost braces; missing escapes or markup?
   183 |  \item {nlumgammagpd} and {proflumgammagpd} - \code{c(mgshape, mgscale, mgweight[1:(M-1)], sigmau, xi)}
       |                           ^
checkRd: (-1) fmgammagpdcon.Rd:181: Lost braces; missing escapes or markup?
   181 |  \item {nlumgammagpdcon} and {proflumgammagpdcon} - \code{c(mgshape, mgscale, mgweight[1:(M-1)], xi)}
       |                              ^
checkRd: (-1) kernels.Rd:87: Lost braces
    87 | code{\link[evmix:kernels]{kd*}}  and \code{\link[evmix:kernels]{kp*}} give the
       |     ^
Found the following files/directories:
  ‘sample .nwk’
checkRd: (-1) ShapeDist.Rd:18: Lost braces; missing escapes or markup?
    18 | Procrustes distance provides a measure of coincidence of two point sets {xi} and {yi}, i=1..N. For this purpose the variance of point deviations is calculated at the optimal superposition of the sets. It allows to characterize the shape proximity of a given simplex to shape of a reference one.
       |                                                                         ^
checkRd: (-1) ShapeDist.Rd:18: Lost braces; missing escapes or markup?
    18 | Procrustes distance provides a measure of coincidence of two point sets {xi} and {yi}, i=1..N. For this purpose the variance of point deviations is calculated at the optimal superposition of the sets. It allows to characterize the shape proximity of a given simplex to shape of a reference one.
       |                                                                                  ^
Namespace in Imports field not imported from: ‘parallel’
  All declared Imports should be used.
checkRd: (-1) stop_rule.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) stop_rule.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) stop_rule.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) stop_rule.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
Requires (indirectly) orphaned package: ‘extraDistr’
Requires orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘gamlss.dist’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘polynom’
  All declared Imports should be used.
checkRd: (-1) ccF.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) ccF.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) ccF.Rd:29: Escaped LaTeX specials: \&
checkRd: (-1) ccF.Rd:42: Lost braces
    42 | CALI\'{N}SKI, T.; CORSTEN, L. C. A. Clustering
       |       ^
checkRd: (-1) ccF.Rd:41: Lost braces
    41 | CALI\'{N}SKI, T.; CORSTEN, L. C. A. Clustering
       |       ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘compare_benchmark_event.R’ ‘compare_benchmark_time.R’
Namespace in Imports field not imported from: ‘ggpmisc’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘compute_fct_adjs.R’ ‘compute_fct_adjs.Rd’ ‘guess_measure_sets.R’
    ‘mutate_expecvar.R’ ‘mutate_expecvar.Rd’ ‘mutate_metrics.R’
    ‘mutate_metrics.Rd’ ‘summarise_measures.R’ ‘summarise_measures.Rd’
    ‘validators.R’
checkRd: (-1) MatIn.Rd:6: Lost braces
     6 | Computation of aggregation matrices for generalized interactions that are used in code{\link{extRC}} to estimate extended RC models.
       |                                                                                       ^
checkRd: (-1) plot.Rd:5: Lost braces
     5 | \description{It plots the output of code{\link{extRC}} function for a vector of lambda values.}
       |                                         ^
checkRd: (-1) print.Rd:5: Lost braces
     5 | \description{Given the output of code{\link{extRC}} function, it is written in a readable form.}
       |                                      ^
checkRd: (-1) summary.Rd:5: Lost braces
     5 | \description{Summary method for the output of code{\link{extRC}} function.}
       |                                                   ^
File ‘extremis/libs/extremis.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
checkRd: (-1) codePasses.Rd:64: Escaped LaTeX specials: \#
Namespace in Imports field not imported from: ‘rlang’
  All declared Imports should be used.
checkRd: (-1) EEzGP_fit.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) EEzGP_fit.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) EEzGP_predict.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) EEzGP_predict.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) EzGP_fit.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) EzGP_fit.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) EzGP_predict.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) EzGP_predict.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) LEzGP_fit.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) LEzGP_fit.Rd:60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) LLF_gradients.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) LLF_gradients.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ez-package.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) ez-package.Rd:33: Lost braces in \itemize; meant \describe ?
Namespace in Imports field not imported from: ‘BiocStyle’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘GLARMA.R’ ‘GLARMA.Rd’ ‘INGARCH.R’ ‘INGARCH.Rd’ ‘fitted.GLARMA.Rd’
    ‘fitted.INGARCH.Rd’ ‘forecast.GLARMA.Rd’ ‘forecast.INGARCH.Rd’
    ‘glance.GLARMA.Rd’ ‘glance.INGARCH.Rd’ ‘residuals.GLARMA.Rd’
    ‘residuals.INGARCH.Rd’ ‘tidy.GLARMA.Rd’ ‘tidy.INGARCH.Rd’
Namespace in Imports field not imported from: ‘tsibbledata’
  All declared Imports should be used.
Requires (indirectly) orphaned package: ‘extraDistr’
checkRd: (-1) fmCov.Rd:37: Lost braces; missing escapes or markup?
    37 | where, \code{alpha(i)} is the intercept, \code{f(t)} is a {K x 1} vector of 
       |                                                           ^
checkRd: (-1) plot.ffm.Rd:82: Lost braces; missing escapes or markup?
    82 | \item{las}{one of {0, 1, 2, 3} to set the direction of axis labels, same as
       |                   ^
checkRd: (-1) summary.ffm.Rd:39: Lost braces; missing escapes or markup?
    39 | Returned object is of class {summary.ffm}.
       |                             ^
checkRd: (-1) fviz_nbclust.Rd:75: Lost braces; missing escapes or markup?
    75 | (2001) proposed: "the smallest k such that gap(k) >= gap(k+1) - s_{k+1}". 
       |                                                                   ^
checkRd: (-1) fviz_nbclust.Rd:77: Lost braces; missing escapes or markup?
    77 | SE.factor*s_{k+1}" where SE.factor is a numeric value which can be 1
       |             ^
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    minor changes
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
checkRd: (-1) FADPclust.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FADPclust.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FADPclust.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FADPclust.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FADPclust.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FADPclust.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FADPclust.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FADPclust.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FADPclust.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FADPclust.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) happy.Rd:14: Lost braces
    14 |                  code{Pretty happy} <  \code{Very happy}}
       |                      ^
Namespaces in Imports field not imported from:
  ‘base’ ‘data.table’
  All declared Imports should be used.
checkRd: (-1) fra_sf.Rd:22: Lost braces; missing escapes or markup?
    22 | A map of France as {sf} object. Can be used as dataset or for maps
       |                    ^
File ‘falcon/libs/falcon.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘rlang’
  All declared Imports should be used.
File ‘FastBandChol/libs/FastBandChol.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘CXX99’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/fastcmprsk.Rcheck/00install.out’ for details.
* used C compiler: ‘clang version 21.1.8’
File ‘FastGP/libs/FastGP.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/fastkmedoids.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Obsolete C++11 standard request will be ignored
Namespaces in Imports field not imported from:
  ‘MASS’ ‘grDevices’ ‘utils’
  All declared Imports should be used.
checkRd: (-1) eigen_compute_single_entry_of_diagonal_matrix.Rd:17: Lost braces; missing escapes or markup?
    17 | The value of m^{-1}_{j,j}
       |                ^
checkRd: (-1) eigen_compute_single_entry_of_diagonal_matrix.Rd:17: Lost braces; missing escapes or markup?
    17 | The value of m^{-1}_{j,j}
       |                     ^
File ‘fastmatch/libs/fastmatch.so’:
  Found non-API calls to R: ‘DATAPTR’, ‘EXTPTR_PTR’, ‘NAMED’, ‘OBJECT’,
    ‘SETLENGTH’, ‘SET_NAMED’, ‘STRING_PTR’, ‘VECTOR_PTR’
These entry points may be removed soon:
‘VECTOR_PTR’, ‘SET_NAMED’, ‘EXTPTR_PTR’, ‘NAMED’, ‘OBJECT’, ‘STRING_PTR’, ‘DATAPTR’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Namespace in Imports field not imported from: ‘ggplot2’
  All declared Imports should be used.
checkRd: (-1) update_nhl_db.Rd:51-53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) update_nhl_db.Rd:54-57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) update_phf_db.Rd:51-53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) update_phf_db.Rd:54-57: Lost braces in \itemize; meant \describe ?
Note: information on .o files is not available
File ‘FastRWeb/libs/null.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following significant warnings:
  /data/gannet/ripley/R/R-clang/include/R_ext/Callbacks.h:37:2: warning: include R_ext/ObjectTable.h for R_ObjectTable declarations [-W#warnings]
See ‘/data/gannet/ripley/R/packages/tests-clang/fastSOM.Rcheck/00install.out’ for details.
* used C compiler: ‘clang version 21.1.8’
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/fastText.Rcheck/00install.out’ for details.
* used C compiler: ‘clang version 21.1.8’
* used C++ compiler: ‘clang version 21.1.8’
Obsolete C++11 standard request will be ignored
Namespace in Imports field not imported from: ‘lifecycle’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘collapse’ ‘data.table’ ‘kit’ ‘magrittr’
  All declared Imports should be used.
checkRd: (-1) Error-Classes.Rd:107-119: Lost braces
   107 |   \item \code{do_verbose(response, template)} {
       |                                               ^
checkRd: (-1) Error.Rd:33-45: Lost braces
    33 |   \item \code{do(response, mssg)} {
       |                                   ^
Namespace in Imports field not imported from: ‘agridat’
  All declared Imports should be used.
checkRd: (-1) FBN.histogramMaxima.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBN.histogramMaxima.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBN.histogramMaxima.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBN.histogramMaxima.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBN.kmeans.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBN.kmeans.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBN.kmeans.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBN.kmeans.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:38: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:39: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FBNormalization.Rd:40: Lost braces in \itemize; meant \describe ?
checkRd: (-1) fbad_copy_ad.Rd:25: Lost braces; missing escapes or markup?
    25 | \item{status_option}{(string) enum {ACTIVE, PAUSED, INHERITED_FROM_SOURCE}}
       |                                    ^
checkRd: (-1) fbad_copy_ad.Rd:27: Lost braces; missing escapes or markup?
    27 | \item{rename_strategy}{(string) enum {DEEP_RENAME, ONLY_TOP_LEVEL_RENAME, NO_RENAME}}
       |                                      ^
checkRd: (-1) fbad_copy_adset.Rd:34: Lost braces; missing escapes or markup?
    34 | \item{status_option}{(string) enum {ACTIVE, PAUSED, INHERITED_FROM_SOURCE}}
       |                                    ^
checkRd: (-1) fbad_copy_adset.Rd:36: Lost braces; missing escapes or markup?
    36 | \item{rename_strategy}{(string) enum {DEEP_RENAME, ONLY_TOP_LEVEL_RENAME, NO_RENAME}}
       |                                      ^
checkRd: (-1) fbad_copy_campaign.Rd:31: Lost braces; missing escapes or markup?
    31 | \item{status_option}{(string) enum {ACTIVE, PAUSED, INHERITED_FROM_SOURCE}}
       |                                    ^
checkRd: (-1) fbad_copy_campaign.Rd:33: Lost braces; missing escapes or markup?
    33 | \item{rename_strategy}{(string) enum {DEEP_RENAME, ONLY_TOP_LEVEL_RENAME, NO_RENAME}}
       |                                      ^
checkRd: (-1) plot.fbroc.conf.Rd:5: Lost braces
     5 | \title{Plots function for object of class{fbroc.conf}}
       |                                          ^
Found the following files/directories:
  ‘test2delete.txt’ ‘test2delete2_values.txt’ ‘test2delete_values.txt’
Found the following files/directories:
  ‘.Rprofile’
checkRd: (-1) simulation_model9.Rd:47: Lost braces; missing escapes or markup?
    47 | \item{ci}{A vector of 2 values containing $c_{1i}$ and $c_{2i}$ in the contamination
       |                                              ^
checkRd: (-1) simulation_model9.Rd:47: Lost braces; missing escapes or markup?
    47 | \item{ci}{A vector of 2 values containing $c_{1i}$ and $c_{2i}$ in the contamination
       |                                                           ^
checkRd: (-1) NASAtemp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) NASAtemp.Rd:15: Lost braces in \itemize; meant \describe ?
Namespaces in Imports field not imported from:
  ‘data.table’ ‘ggplot2’ ‘randomcoloR’ ‘sqldf’
  All declared Imports should be used.
File ‘FD/libs/FD.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following files/directories:
  ‘vert.txt’
checkRd: (-1) p.fdr.Rd:30: Lost braces
    30 | \item{adjust.method}{A string used to identify the p-value and false discovery rate adjustment method. Defaults to \code{BH}. Options are \code{BH}, \code{BY}, code{Bon},\code{Holm}, \code{Hoch}, and \code{Sidak}.}
       |                                                                                                                                                                     ^
Namespaces in Imports field not imported from:
  ‘e1071’ ‘lattice’ ‘randomForest’ ‘tibble’ ‘utils’
  All declared Imports should be used.
checkRd: (-1) mutlicol_terminator.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mutlicol_terminator.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mutlicol_terminator.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mutlicol_terminator.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rfeTerminator.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rfeTerminator.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rfeTerminator.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rfeTerminator.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) morse.Rd:40: Escaped LaTeX specials: \#
checkRd: (-1) noRegMin.Rd:23: Escaped LaTeX specials: \#
checkRd: (-1) noRegMin.Rd:24: Escaped LaTeX specials: \#
checkRd: (-1) regMin.Rd:24: Escaped LaTeX specials: \#
File ‘fechner/libs/fechner.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘change_column_types.Rd’ ‘create_alter_attr.Rd’ ‘create_edgelist.Rd’
    ‘create_nw.Rd’ ‘create_relation_labels.Rd’ ‘create_tidygraph.Rd’
    ‘fix_errors.Rd’ ‘produce_data.R’ ‘translate.Rd’
Unexported object imported by a ':::' call: ‘bit:::R_bit_as_hi’
  See the note in ?`:::` about the use of this operator.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘add_cplx.Rd’ ‘add_l2nm.Rd’ ‘can_repr.Rd’ ‘cross.R’ ‘fft.R’
    ‘fftab.Rd’ ‘fourier_frequencies.Rd’ ‘frequency.R’ ‘get.R’ ‘get_fx.Rd’
    ‘get_rect.Rd’ ‘has_cplx.Rd’ ‘internal.R’ ‘plot.R’ ‘repr.R’
    ‘to_cplx.Rd’
checkRd: (-1) contemParametros.Rd:19: Lost braces
    19 | \item{exclui3pontos}{verify por ... ? in f<-function(a, ...){ }}
       |                                                             ^
Namespace in Imports field not imported from: ‘glue’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘mgcv’ ‘numDeriv’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘rclipboard’ ‘shinyBS’ ‘shinyWidgets’ ‘shinyjs’
  All declared Imports should be used.
checkRd: (-1) bitspec.Rd:8: Escaped LaTeX specials: \&
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘00.helpers.R’ ‘01.firm_register.R’ ‘02.FOandFM.R’ ‘03.people.R’
    ‘04.FF_either.R’ ‘05.network&graph.R’
Imports includes 34 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable.  Move as many as possible to Suggests and
use conditionally.

Requires (indirectly) orphaned package: ‘extraDistr’
File ‘fishMod/libs/fishMod.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘knitr’ ‘rmarkdown’ ‘utils’
  All declared Imports should be used.
checkRd: (-1) FiSh-package.Rd:19: Lost braces
    19 | \doi{10.3389/feart.2020.00255}{Frontiers in Earth Science, 8:255}.
       |                               ^
checkRd: (-1) FiSh-package.Rd:32: Lost braces
    32 | \doi{10.3389/feart.2020.00255}{Frontiers in Earth Science, 8:255}.
       |                               ^
checkRd: (-1) SEP_FIM.Rd:46: Lost braces
    46 | \doi{10.3389/feart.2020.00255}{Frontiers in Earth Science, 8:255}.
       |                               ^
Namespaces in Imports field not imported from:
  ‘httr’ ‘jsonlite’
  All declared Imports should be used.
checkRd: (-1) fitConic.Rd:66-73: Lost braces
    66 | \code{parA }{vector of the six "ABCDEF" coefficients
       |             ^
checkRd: (-1) fitConic.Rd:67: Lost braces
    67 | \code{RSS }{'root sum square' figure of merit describing the relative fit quality}
       |            ^
checkRd: (-1) fitConic.Rd:68: Lost braces
    68 | \code{iters }{number of iterations at convergence}
       |              ^
checkRd: (-1) fitConic.Rd:69-71: Lost braces
    69 | \code{exitCode }{1 means ellipse, 2 means hyperbola, 3 means parabola.
       |                 ^
checkRd: (-1) rotateA.Rd:59: Lost braces; missing escapes or markup?
    59 | For \code{xyrot} {a Nx2 array of the x,y coordinates of the rotated data set. }
       |                  ^
Requires orphaned package: ‘extraDistr’
checkRd: (-1) fitmixEM.Rd:51: Escaped LaTeX specials: \&
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘app_server.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘readData.R’
Namespace in Imports field not imported from: ‘rstudioapi’
  All declared Imports should be used.
checkRd: (-1) food_world_cup.Rd:70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) food_world_cup.Rd:71: Lost braces in \itemize; meant \describe ?
checkRd: (-1) food_world_cup.Rd:72: Lost braces in \itemize; meant \describe ?
checkRd: (-1) food_world_cup.Rd:73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) food_world_cup.Rd:74: Lost braces in \itemize; meant \describe ?
checkRd: (-1) food_world_cup.Rd:75: Lost braces in \itemize; meant \describe ?
checkRd: (-1) distribution_vector.Rd:14: Lost braces; missing escapes or markup?
    14 | All standard distributions from {stats} package are covered. For a list
       |                                 ^
checkRd: (-1) convertInitDesignToGrid.Rd:11: Lost braces; missing escapes or markup?
    11 | The initial design, consisting of \code{d + 1} columns ({d} dimensions and
       |                                                         ^
checkRd: (-1) summary.flamcv.rd:8: Lost braces
     8 | This function summarizes a call to code{\link{flamCV}} and identifies the tuning parameter chosen by cross-validation.
       |                                        ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘projection.R’
Malformed Description field: should contain one or more complete sentences.
checkRd: (-1) flashClust.Rd:92: Escaped LaTeX specials: \&
File ‘flashClust/libs/flashClust.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘define_labels.Rd’ ‘divide.Rd’ ‘extract_labels.Rd’ ‘fill_labels.Rd’
    ‘fill_values.Rd’ ‘flatten_table_list.Rd’ ‘ft_ex.Rd’ ‘ft_ex_v2.Rd’
    ‘ft_set.Rd’ ‘get_col_values.Rd’ ‘get_page.Rd’ ‘pf_ex_compact.Rd’
    ‘remove_agg.Rd’ ‘remove_bottom.Rd’ ‘remove_cols.Rd’ ‘remove_empty.Rd’
    ‘remove_k.Rd’ ‘remove_left.Rd’ ‘remove_right.Rd’ ‘remove_rows.Rd’
    ‘remove_top.Rd’ ‘replace_dec.Rd’ ‘set_page.Rd’ ‘unpivot.Rd’
Namespace in Imports field not imported from: ‘RCurl’
  All declared Imports should be used.
checkRd: (-1) flex_dashboard.Rd:96: Lost braces; missing escapes or markup?
    96 | the `{.storyboard}` attribute to individual pages rather than using the
       |      ^
checkRd: (-1) fmp.Rd:45: Lost braces; missing escapes or markup?
    45 | If k = 0: (xi_1, ..., x_{C_i - 1}, omega)
       |                         ^
checkRd: (-1) fmp.Rd:47: Lost braces; missing escapes or markup?
    47 | If k = 1: (xi_1, ..., x_{C_i - 1}, omega, alpha1, tau1)
       |                         ^
checkRd: (-1) fmp.Rd:49: Lost braces; missing escapes or markup?
    49 | If k = 2: (xi_1, ..., x_{C_i - 1}, omega, alpha1, tau1, alpha2, tau2)
       |                         ^
Running ‘all.equal.R’
  Running ‘ambiguity.R’
  Running ‘attrib.R’
  Running ‘bind.R’
  Running ‘coerce.R’
  Running ‘data.frame.R’
  Comparing ‘data.frame.Rout’ to ‘data.frame.Rout.save’ ... OK
  Running ‘foreign.R’
  Running ‘format.R’
  Running ‘initialize.R’
  Running ‘is.finite.R’
  Running ‘match.R’
  Running ‘print.R’
  Comparing ‘print.Rout’ to ‘print.Rout.save’ ...249c249
< class "ulong", dim (0,2), address <pointer: (nil)>
---
> class "ulong", dim (0,2), address <pointer: 0>
252c252
< class "ulong", dim (2,0), address <pointer: (nil)>
---
> class "ulong", dim (2,0), address <pointer: 0>
  Running ‘reg-tests.R’
  Running ‘rep.R’
  Running ‘seq.R’
  Running ‘sort.R’ [6s/12s]
  Running ‘special.R’
  Running ‘subscript.R’
  Running ‘summary.R’
File ‘flock/libs/flock.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) flow_embed.Rd:30: Lost braces; missing escapes or markup?
    30 | \item Don't forget to add {flow} to Suggests in your DESCRIPTION file.
       |                           ^
checkRd: (-1) flowdata.Rd:10: Lost braces; missing escapes or markup?
    10 | \item{Flow}{Water flow, in m^{3}/s}
       |                              ^
Malformed Description field: should contain one or more complete sentences.
Found the following files/directories:
  ‘flux.CH4.txt’
Namespaces in Imports field not imported from:
  ‘kableExtra’ ‘knitr’ ‘rmarkdown’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘kableExtra’ ‘knitr’ ‘rmarkdown’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
Namespaces in Imports field not imported from:
  ‘mixsmsn’ ‘sn’
  All declared Imports should be used.
checkRd: (-1) FMP.Rd:30: Lost braces; missing escapes or markup?
    30 | \eqn{m(\theta) = b_0 + b_1 \theta + b_2 \theta^2 + b_3 \theta^3}. Acceptable values of k = {0,1,2,3}. According to 
       |                                                                                            ^
checkRd: (-1) Estable.Rd:40: Lost braces
    40 |   \code{dEstable}{ gives the density function;}
       |                  ^
checkRd: (-1) Estable.Rd:41: Lost braces
    41 |   \code{pEstable}{ gives the distribution function or its complement;}
       |                  ^
checkRd: (-1) Estable.Rd:42: Lost braces
    42 |   \code{qEstable}{ gives quantiles;}
       |                  ^
checkRd: (-1) Estable.Rd:43-56: Lost braces
    43 |   \code{tailsEstable}{ returns a list with the following components
       |                      ^
checkRd: (-1) FMstable.Rd:50: Lost braces
    50 |   \code{dFMstable}{ gives the density function;}
       |                   ^
checkRd: (-1) FMstable.Rd:51: Lost braces
    51 |   \code{pFMstable}{ gives the distribution function or its complement;}
       |                   ^
checkRd: (-1) FMstable.Rd:52: Lost braces
    52 |   \code{qFMstable}{ gives quantiles;}
       |                   ^
checkRd: (-1) FMstable.Rd:53-66: Lost braces
    53 |   \code{tailsFMstable}{  returns a list with the following components
       |                       ^
checkRd: (-1) navbar_page.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) navbar_page.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) navbar_page.Rd:38: Lost braces in \itemize; meant \describe ?
Package suggested but not available for checking: ‘cmdstanr’

Requires orphaned package: ‘extraDistr’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘airport_footprint.R’ ‘airport_footprint.Rd’ ‘latlong_footprint.R’
    ‘latlong_footprint.Rd’
checkRd: (-1) foreca.Rd:77: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) foreca.Rd:78-80: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) foreca.Rd:81-83: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) foreca.Rd:84-87: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) foreca.Rd:88-90: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) foreca.Rd:91-92: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) foreca.Rd:93: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) initialize_weightvector.Rd:53-54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initialize_weightvector.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initialize_weightvector.Rd:56: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initialize_weightvector.Rd:57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initialize_weightvector.Rd:58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initialize_weightvector.Rd:59: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initialize_weightvector.Rd:60-61: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initialize_weightvector.Rd:62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initialize_weightvector.Rd:63: Lost braces in \itemize; meant \describe ?
checkRd: (-1) initialize_weightvector.Rd:64-65: Lost braces in \itemize; meant \describe ?
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘mod_carga_datos.R’ ‘mod_comparacion.R’ ‘mod_descom.R’
    ‘mod_descom_utils.R’ ‘mod_desvio.R’ ‘mod_model_arima_utils.R’
    ‘mod_normal_utils.R’ ‘mod_nuevos.R’ ‘mod_periodograma.R’
    ‘mod_periodograma_utils_.R’ ‘mod_t_c.R’ ‘mod_t_c_utils.R’
    ‘mod_train_test.R’ ‘ts_utils.R’
Depends: includes the non-default packages:
  'distributional', 'doParallel', 'dplyr', 'fable', 'fabletools',
  'fable.prophet', 'feasts', 'fracdiff', 'ggplot2', 'gt', 'lubridate',
  'magrittr', 'parallel', 'readr', 'scales', 'tibble', 'tidyr',
  'tsibble', 'urca'
Adding so many packages to the search path is excessive and importing
selectively is preferable.

Requires (indirectly) orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘dtplyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘forrel’ ‘pedtools’ ‘plotly’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘pkgKitten’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘tibble’ ‘viridis’
  All declared Imports should be used.
checkRd: (-1) process_pcl.Rd:28: Lost braces; missing escapes or markup?
    28 | \item{pavd}{logical input to include Plant Area Volume Density Plot from {plot_pavd},
       |                                                                          ^
Namespaces in Imports field not imported from:
  ‘spatstat’ ‘spatstat.data’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘httr’ ‘jsonlite’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘knitr’ ‘utils’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘str_extract_part.R’
Namespaces in Imports field not imported from:
  ‘TreeSim’ ‘shinyjs’
  All declared Imports should be used.
checkRd: (-1) FGf.Rd:15: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FGf.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FGf.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FGf.Rd:18: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FGf.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FourgameteP.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FourgameteP.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FourgameteP.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FourgameteP.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FourgameteP.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FourgameteP.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FourgameteP.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FourgameteP.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FourgameteP.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FourgameteP.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FourgameteP.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FourgameteP.Rd:38: Lost braces in \itemize; meant \describe ?
Namespace in Imports field not imported from: ‘LaplacesDemon’
  All declared Imports should be used.
2270c2270
< Package 'mclust' version 6.1.2
---
> Package 'mclust' version 6.1.1
2951c2951
< Package 'mclust' version 6.1.2
---
> Package 'mclust' version 6.1.1
3038c3038
< Package 'mclust' version 6.1.2
---
> Package 'mclust' version 6.1.1
3096c3096
< Package 'mclust' version 6.1.2
---
> Package 'mclust' version 6.1.1
3989c3989
< Package 'mclust' version 6.1.2
---
> Package 'mclust' version 6.1.1
Running ‘fpctests_notallin.R’ [13s/15s]
  Comparing ‘fpctests_notallin.Rout’ to ‘fpctests_notallin.Rout.save’ ...9c9
< Package 'mclust' version 6.1.2
---
> Package 'mclust' version 6.1.1
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
checkRd: (-1) plot_lines.Rd:66: Lost braces
    66 | moderator. By default it is equal to \8code{c(19, 17, 15, 8, 5, 4, 3, 1)}.}
       |                                            ^
checkRd: (-1) Fpop.Rd:8: Lost braces; missing escapes or markup?
     8 | sum_{i=1}^n (x_i-m_i)^2 + lambda * sum_{i=1}^{n-1} I(m_i !=
       |     ^
checkRd: (-1) Fpop.Rd:8: Lost braces; missing escapes or markup?
     8 | sum_{i=1}^n (x_i-m_i)^2 + lambda * sum_{i=1}^{n-1} I(m_i !=
       |                                        ^
checkRd: (-1) Fpop.Rd:8: Lost braces; missing escapes or markup?
     8 | sum_{i=1}^n (x_i-m_i)^2 + lambda * sum_{i=1}^{n-1} I(m_i !=
       |                                              ^
checkRd: (-1) Fpop.Rd:9: Lost braces; missing escapes or markup?
     9 | m_{i+1}), where the indicator function I counts the number of
       |   ^
Namespace in Imports field not imported from: ‘psych’
  All declared Imports should be used.
File ‘fractional/libs/fractional.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) emfrail_control.Rd:49: Lost braces in \itemize; meant \describe ?
checkRd: (-1) emfrail_control.Rd:50: Lost braces in \itemize; meant \describe ?
checkRd: (-1) emfrail_control.Rd:51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) emfrail_control.Rd:52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) emfrail_control.Rd:53-54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) emfrail_control.Rd:55-57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MultiAsset.Rd:26: Escaped LaTeX specials: \&
Namespace in Imports field not imported from: ‘utils’
  All declared Imports should be used.
checkRd: (-1) summary.frbs.Rd:32: Lost braces
    32 |                           \code{"GAUSSIAN"}, code{"TRIANGLE"}, \code{"TRAPEZOID"}, \code{"SIGMOID"}, and \code{"BELL"}.
       |                                                  ^
checkRd: (-1) summary.frbs.Rd:60: Lost braces; missing escapes or markup?
    60 |          {4.0, 0.23, 0.43, 0.53, 0.73} on its column. It means that the label a.2 of variable v.1 
       |          ^
Namespace in Imports field not imported from: ‘MASS’
  All declared Imports should be used.
Error(s) in re-building vignettes:
--- re-building ‘FRK_intro.Rnw’ using knitr
OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
--- re-building ‘FRK_non-Gaussian.Rnw’ using knitr
--- finished re-building ‘FRK_non-Gaussian.Rnw’

SUMMARY: processing the following file failed:
  ‘FRK_intro.Rnw’

Error: Vignette re-building failed.
Execution halted
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘as_data_frame.Rd’ ‘as_list.Rd’ ‘dplyr_methods.Rd’ ‘fr_schema.R’
    ‘fr_tdr.R’ ‘read_fr_tdr.R’ ‘update_field.R’ ‘update_field.Rd’
checkRd: (-1) FSelector-package.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FSelector-package.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FSelector-package.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) FSelector-package.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) relief.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) relief.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) report.Rd:18: Lost braces; missing escapes or markup?
    18 |         \item{las}{numeric in {0,1,2,3}; the style of axis labels (see \code{\link{par}}).}
       |                               ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘utility_fSACF.R’
checkRd: (-1) Spec_compare_localize_freq.Rd:49: Escaped LaTeX specials: \&
checkRd: (-1) Spec_compare_localize_freq.Rd:52: Escaped LaTeX specials: \&
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘combine_fude.R’ ‘extract_fude.R’ ‘get_boundary.R’ ‘ls_fude.R’
    ‘read_fude.R’ ‘rename_fude.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘find_connected_components.R’
Namespace in Imports field not imported from: ‘foreach’
  All declared Imports should be used.
Malformed Description field: should contain one or more complete sentences.
Namespaces in Imports field not imported from:
  ‘bigalgebra’ ‘biganalytics’
  All declared Imports should be used.
Found the following files/directories:
  ‘completeTrial_byArm_eventPriorRateC3=0.001_eventPriorRateT1=0_eventPriorRateT2=0_eventPriorWt=0.5.RData’
  ‘completeTrial_byArm_eventPriorRateC3=0.06_eventPriorRateT1=0.03_eventPriorRateT2=0.03_eventPriorWt=0.2.RData’
  ‘completeTrial_byArm_eventPriorRateC3=0.06_eventPriorRateT1=0.03_eventPriorRateT2=0.03_eventPriorWt=0.4.RData’
  ‘completeTrial_byArm_eventPriorRateC3=0.06_eventPriorRateT1=0.03_eventPriorRateT2=0.03_eventPriorWt=0.6.RData’
  ‘completeTrial_pooled_eventPriorRate=0.001_eventPriorWt=0.5.RData’
  ‘completeTrial_pooled_eventPriorRate=0.06_eventPriorWt=0.2.RData’
  ‘completeTrial_pooled_eventPriorRate=0.06_eventPriorWt=0.4.RData’
  ‘completeTrial_pooled_eventPriorRate=0.06_eventPriorWt=0.6.RData’
  ‘rcdf_byArm_arm=T1_eventPriorRateC3=0.06_eventPriorRateT1=0.03_eventPriorRateT2=0.03.pdf’
  ‘rcdf_pooled_eventPriorRate=0.06.pdf’
checkRd: (-1) trapezoidalApproximation-methods.Rd:49: Lost braces; missing escapes or markup?
    49 | For example, if Val(A) < EV_{1/3}(A) or Val(A) > EV_{2/3}(A),
       |                             ^
checkRd: (-1) trapezoidalApproximation-methods.Rd:49: Lost braces; missing escapes or markup?
    49 | For example, if Val(A) < EV_{1/3}(A) or Val(A) > EV_{2/3}(A),
       |                                                     ^
checkRd: (-1) genmf.Rd:26: Lost braces; missing escapes or markup?
    26 | \item 'gbellmf' is c(\code{a, b, c}), where \code{a} denotes the width, \code{b} is usually positive and {c} locates the center of the curve.
       |                                                                                                          ^
File ‘gafit/libs/gafit.so’:
  Found non-API calls to R: ‘FRAME’, ‘HASHTAB’
File ‘gafit/libs/gafit.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
These entry points may be removed soon:
‘FRAME’, ‘HASHTAB’

Compiled code should not call non-API entry points in R.
It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
checkRd: (-1) min_hpd_inc_area_df.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) min_hpd_inc_area_df.Rd:21-22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) min_hpd_inc_area_df.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) vza_mean_and_var_rasters.Rd:20: Lost braces
    20 | of the paper on Wilson's warbler, this function computes $tilde{T}^{(mu)}$ (returned as
       |                                                                ^
checkRd: (-1) vza_mean_and_var_rasters.Rd:20: Lost braces; missing escapes or markup?
    20 | of the paper on Wilson's warbler, this function computes $tilde{T}^{(mu)}$ (returned as
       |                                                                    ^
checkRd: (-1) vza_mean_and_var_rasters.Rd:21: Lost braces; missing escapes or markup?
    21 | list component \code{mean.raster}) and $R^{(sigma^2)}$ (returned as list component
       |                                           ^
Namespaces in Imports field not imported from:
  ‘gargle’ ‘getProxy’ ‘rappsflyer’ ‘rfacebookstat’ ‘rgoogleads’
  ‘rmytarget’ ‘rvkstat’ ‘ryandexdirect’ ‘rym’ ‘tidyr’
  All declared Imports should be used.
Package required but not available: ‘tidyjson’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Namespace in Imports field not imported from: ‘grDevices’
  All declared Imports should be used.
checkRd: (-1) naref.Rd:13: Lost braces
    13 | \details{ For every \code{factor} or \code{character} column in \code{x}, \code{naref} sets \code{NA} as the reference level for a \code{factor} variable. Columns coded as \code{character} class are first converted to factors via \R{factor(x)}.  If \code{impute=TRUE} then the numeric columns are converted to two columns, one appended \code{.x} that contains imputed values and another appended \code{.miss} which is a binary variable indicating whether the original value was missing.  Numeric columns are returned without change if \code{impute=FALSE} or if they do not contain any missing values.  
       |                                                                                                                                                                                                                                         ^
Namespaces in Imports field not imported from:
  ‘MASS’ ‘gamlss’
  All declared Imports should be used.
checkRd: (-1) pc.Rd:17: Lost braces
    17 | The functions \code{gamlss.pcr()} and \code{gamlss.pc()} are supporting functions. The  are not intended to be called directly by users. The function \code{gamlss.pc()} is using the linear model function \code{lm()} to fit the first principal components while the function code{gamlss.pcr()} uses \code{fitPCR()}.
       |                                                                                                                                                                                                                                                                                      ^
checkRd: (-1) read.ctable.Rd:19: Lost braces; missing escapes or markup?
    19 | a integer scalar which is the index ({icol,irow}) of {row,col}-header
       |                                      ^
checkRd: (-1) read.ctable.Rd:19: Lost braces; missing escapes or markup?
    19 | a integer scalar which is the index ({icol,irow}) of {row,col}-header
       |                                                      ^
checkRd: (-1) read.ctable.Rd:29: Lost braces; missing escapes or markup?
    29 | output array, {row,col}.names are not necessary \code{dimnames[[1]]} and
       |               ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘gbm.factorplot.R’ ‘gbm.mapsf.R’
checkRd: (-1) fitgbd.Rd:29: Escaped LaTeX specials: \&
checkRd: (-1) fitgld.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) gb.Rd:28: Escaped LaTeX specials: \&
checkRd: (-1) gbd.Rd:37: Escaped LaTeX specials: \&
checkRd: (-1) gld.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) estprops.Rd:40: Escaped LaTeX specials: \&
Namespace in Imports field not imported from: ‘raster’
  All declared Imports should be used.
checkRd: (-1) listInverseBlocks.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{List all the inverse matrices of the leading sub-matrix of P=Sigma^{-1}
       |                                                                           ^
checkRd: (-1) listInverseBlocks.Rd:17: Lost braces; missing escapes or markup?
    17 | List all the inverse matrices of the leading sub-matrix of P=Sigma^{-1}
       |                                                                    ^
checkRd: (-1) gconsensus.Rd:48-54: Lost braces
    48 | {\code{display.signif.digits} an integer representing the number of significant digits to be obtained in the adaptative approach of the Monte Carlo simulation,
       | ^
File ‘GCPM/libs/GCPM.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) GCTF.Rd:56: Lost braces; missing escapes or markup?
    56 |   U : A matrix which has N-rows and J-columns (J < {N, M}).
       |                                                    ^
checkRd: (-1) GCTF.Rd:57: Lost braces; missing escapes or markup?
    57 |   V : A matrix which has M-rows and J-columns (J < {N, M}).
       |                                                    ^
checkRd: (-1) GCTF.Rd:58: Lost braces; missing escapes or markup?
    58 |   J : The number of dimension (J < {N, M}).
       |                                    ^
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/gdalcubes.Rcheck/00install.out’ for details.
checkRd: (-1) nearblack.Rd:30: Lost braces
    30 | code{infile=}, indicating that the input file should be
       |     ^
checkRd: (-1) GDSARM.Rd:7: Lost braces
     7 | Cand{\`e}s, E. and Tao, T. (2007). The Dantzig selector: Statistical estimation when p is much
       |     ^
checkRd: (-1) GDSARM.Rd:10: Lost braces
    10 | Dopico-Garc{\' i}a, M.S., Valentao, P., Guerra, L., Andrade, P. B., and Seabra, R. M. (2007).
       |            ^
checkRd: (-1) GDS_givencols.Rd:7: Lost braces
     7 | Cand{\`e}s, E. and Tao, T. (2007). The Dantzig selector: Statistical estimation when p is much
       |     ^
checkRd: (-1) GDS_givencols.Rd:10: Lost braces
    10 | Dopico-Garc{\' i}a, M.S., Valentao, P., Guerra, L., Andrade, P. B., and Seabra, R. M. (2007).
       |            ^
checkRd: (-1) dantzig.delta.Rd:7: Lost braces
     7 | Cand{\`e}s, E. and Tao, T. (2007). The Dantzig selector: Statistical estimation when p is much
       |     ^
checkRd: (-1) dantzigS.Rd:7: Lost braces
     7 | Cand{\`e}s, E. and Tao, T. (2007). The Dantzig selector: Statistical estimation when p is much
       |     ^
checkRd: (-1) dataCompoundExt.Rd:6: Lost braces
     6 | \title{Compound Extraction experiment of Dopico-Garc{\' i}a et al. (2007)}
       |                                                     ^
checkRd: (-1) dataCompoundExt.Rd:35: Lost braces
    35 | An analytical experiment conducted by Dopico-Garc{\' i}a et al. (2007) to
       |                                                  ^
checkRd: (-1) dataCompoundExt.Rd:22: Lost braces
    22 | Dopico-Garc{\' i}a, M.S., Valentao, P., Guerra, L., Andrade, P. B., and Seabra, R. M. (2007).
       |            ^
File ‘GEEaSPU/libs/GEEaSPU.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) dental.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) dental.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) dental.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) dental.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) dental.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) dental.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) seizure.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) seizure.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) seizure.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) seizure.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) seizure.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) seizure.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) seizure.Rd:21: Lost braces in \itemize; meant \describe ?
Namespace in Imports field not imported from: ‘rootSolve’
  All declared Imports should be used.
checkRd: (-1) geexex.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) geexex.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) geexex.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) geexex.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) geexex.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) geexex.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) geexex.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) geexex.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) geexex.Rd:18: Lost braces in \itemize; meant \describe ?
File ‘gek/libs/gek.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) gelnet.logreg.obj.Rd:17: Lost braces; missing escapes or markup?
    17 | \item{y}{n-by-1 binary response vector sampled from {0,1}}
       |                                                     ^
File ‘gelnet/libs/gelnet.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘methods’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘pracma’ ‘rlang’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘purrr’
  All declared Imports should be used.
checkRd: (-1) GeneF-internal.Rd:40: Lost braces; missing escapes or markup?
    40 | \author{Yinglei Lai {ylai@gwu.edu}}
       |                     ^
checkRd: (-1) flexorhtest.Rd:57: Lost braces; missing escapes or markup?
    57 | \author{Yinglei Lai {ylai@gwu.edu}}
       |                     ^
checkRd: (-1) flexorhtest.pvalue.Rd:57: Lost braces; missing escapes or markup?
    57 | \author{Yinglei Lai {ylai@gwu.edu}}
       |                     ^
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) cpm.Rd:70: Lost braces; missing escapes or markup?
    70 | covariates included in \code{formula_l} or {formula_s} (required).}
       |                                            ^
Namespaces in Imports field not imported from:
  ‘GGEBiplots’ ‘calibrate’ ‘graphics’ ‘matrixStats’ ‘prettydoc’
  ‘reshape2’
  All declared Imports should be used.
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘crossover.R’ ‘initialize_population.R’ ‘mutation.R’
checkRd: (-1) LD.Rd:37-46: Lost braces in \itemize; meant \describe ?
checkRd: (-1) LD.Rd:47-64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) LD.Rd:66-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) LD.Rd:78-79: Lost braces in \itemize; meant \describe ?
checkRd: (-1) LD.Rd:80-81: Lost braces in \itemize; meant \describe ?
checkRd: (-1) LD.Rd:82-83: Lost braces in \itemize; meant \describe ?
checkRd: (-1) LD.Rd:84-85: Lost braces in \itemize; meant \describe ?
checkRd: (-1) LD.Rd:86-87: Lost braces in \itemize; meant \describe ?
checkRd: (-1) diseq.Rd:48-58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) diseq.Rd:59-76: Lost braces in \itemize; meant \describe ?
checkRd: (-1) diseq.Rd:78-87: Lost braces in \itemize; meant \describe ?
checkRd: (-1) diseq.Rd:93-94: Lost braces in \itemize; meant \describe ?
checkRd: (-1) diseq.Rd:95-96: Lost braces in \itemize; meant \describe ?
checkRd: (-1) diseq.Rd:97-98: Lost braces in \itemize; meant \describe ?
checkRd: (-1) diseq.Rd:124: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) diseq.Rd:125: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) diseq.Rd:126-128: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) diseq.Rd:129: Lost braces in \itemize; \value handles \item{}{} directly
Requires orphaned package: ‘extraDistr’
checkRd: (-1) barto.Rd:15-18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) barto.Rd:19-22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) barto.Rd:23-26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) chrY_subseg.Rd:16-17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) chrY_subseg.Rd:18-19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) mauve_bbone.Rd:16-17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) mauve_bbone.Rd:18-19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) three_genes.Rd:17-18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) three_genes.Rd:19-20: Lost braces in \itemize; meant \describe ?
Package required but not available: ‘seqminer’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Problems with news in ‘NEWS.md’:
No news entries found.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘plot.precision.Rd’ ‘ridge.R’
checkRd: (-1) cfunc.new.Rd:57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) cfunc.new.Rd:58-59: Lost braces in \itemize; meant \describe ?
checkRd: (-1) cfunc.new.Rd:60-61: Lost braces in \itemize; meant \describe ?
checkRd: (-1) cfunc.new.Rd:62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) cfunc.new.Rd:63-64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) cfunc.new.Rd:65: Lost braces in \itemize; meant \describe ?
checkRd: (-1) gensvm.grid.Rd:125: Lost braces
   125 | "Kernels in GenSVM" in the code{ink{gensvm-package}} page for more info.}
       |                                ^
checkRd: (-1) gensvm.grid.Rd:125: Lost braces
   125 | "Kernels in GenSVM" in the code{ink{gensvm-package}} page for more info.}
       |                                    ^
checkRd: (-1) gensvm.grid.Rd:127: Lost braces
   127 | GenSVM" in the code{ink{gensvm-package}} page for more info.}
       |                    ^
checkRd: (-1) gensvm.grid.Rd:127: Lost braces
   127 | GenSVM" in the code{ink{gensvm-package}} page for more info.}
       |                        ^
checkRd: (-1) gensvm.grid.Rd:129: Lost braces
   129 | section "Kernels in GenSVM" in the code{ink{gensvm-package}} page for more 
       |                                        ^
checkRd: (-1) gensvm.grid.Rd:129: Lost braces
   129 | section "Kernels in GenSVM" in the code{ink{gensvm-package}} page for more 
       |                                            ^
Namespace in Imports field not imported from: ‘tibble’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘add_geometry.Rd’ ‘add_level.Rd’ ‘common.R’
    ‘complete_point_geometry.Rd’ ‘complete_relation_by_geography.Rd’
    ‘coordinates_to_geometry.Rd’ ‘explotation.R’ ‘geodimension.R’
    ‘geolevel.R’ ‘get_empty_geometry_instances.Rd’
    ‘get_higher_level_names.Rd’ ‘get_level_data.Rd’
    ‘get_level_data_geo.Rd’ ‘get_level_geometries.Rd’
    ‘get_level_layer.Rd’ ‘get_level_names.Rd’
    ‘get_unrelated_instances.Rd’ ‘relate_levels.Rd’ ‘relations.R’
    ‘select_levels.Rd’ ‘set_level_data.Rd’ ‘transform_crs.Rd’
checkRd: (-1) calvaria.Rd:8: Lost braces; missing escapes or markup?
     8 | A named list containing \code{x} {a vector containing the ages}
       |                                  ^
checkRd: (-1) calvaria.Rd:9: Lost braces; missing escapes or markup?
     9 |   \code{y} {a matrix where each column is a preshape.} The 23rd, 101st,
       |            ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘acs_5yr_geo.R’ ‘acs_5yr_rolap.R’ ‘acs_5yr_topic.R’
    ‘anrc_2021_x01.Rd’ ‘as_GeoPackage.Rd’ ‘as_acs_5yr_geo.Rd’
    ‘as_acs_5yr_topic.Rd’ ‘as_flat_table.Rd’ ‘as_geomultistar.Rd’
    ‘as_star_database.Rd’ ‘download_selected_files.Rd’
    ‘get_area_file_names.Rd’ ‘get_area_groups.Rd’ ‘get_area_years.Rd’
    ‘get_areas.Rd’ ‘get_available_area_topics.Rd’
    ‘get_available_area_years.Rd’ ‘get_available_areas.Rd’
    ‘get_code_from_area_name.Rd’ ‘get_geo_attribute_names.Rd’
    ‘get_geo_layer.Rd’ ‘get_metadata.Rd’ ‘get_name_from_area_code.Rd’
    ‘get_names_of_other_topics.Rd’ ‘get_report_names.Rd’
    ‘get_selected_file_names.Rd’ ‘get_subreport_names.Rd’
    ‘get_too_heavy_file_names.Rd’ ‘get_topic_name.Rd’
    ‘select_area_files.Rd’ ‘select_report.Rd’ ‘select_subreport.Rd’
    ‘select_topic.Rd’ ‘set_metadata.Rd’ ‘unzip_files.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘add_dimension.Rd’ ‘add_facts.Rd’ ‘define_geoattribute.Rd’
    ‘dimensional_query_run_geoquery.R’ ‘filter_dimension.Rd’
    ‘geomultistar_define_geoattribute.R’ ‘get_empty_geoinstances.Rd’
    ‘multistar_as_flat_table.Rd’ ‘relate_dimension.Rd’ ‘run_geoquery.Rd’
    ‘run_query.Rd’ ‘save_as_geopackage.Rd’ ‘select_dimension.Rd’
    ‘select_fact.Rd’
Namespace in Imports field not imported from: ‘velociraptr’
  All declared Imports should be used.
Error(s) in re-building vignettes:
--- re-building ‘georob_vignette.Rnw’ using Sweave
Loading required package: sp

Attaching package: ‘georob’

The following object is masked from ‘package:stats’:

    step

OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
Warning in lmrob.S(x, y, control = control) :
  S refinements did not converge (to refine.tol=1e-07) in 200 (= k.max) steps
Warning in lmrob.fit(x, yy, control = control[["lmrob"]]) :
  initial estim. 'init' not converged -- will be return()ed basically unchanged
recomputing robust Mahalanobis distances
saving the robust distances 'MD' as part of ‘r.lmrob’
Namespace in Imports field not imported from: ‘dbplyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’ ‘spData’
  All declared Imports should be used.
Running examples in ‘geostatsp-Ex.R’ failed
The error most likely occurred in:

> ### Name: RFsimulate
> ### Title: Simulation of Random Fields
> ### Aliases: RFsimulate modelRandomFields RFsimulate RFsimulate-methods
> ###   RFsimulate,ANY,SpatRaster-method RFsimulate,numeric,SpatRaster-method
> ###   RFsimulate,numeric,SpatVector-method
> ###   RFsimulate,RMmodel,SpatVector-method
> ###   RFsimulate,RMmodel,SpatRaster-method
> ###   RFsimulate,matrix,SpatRaster-method
> ###   RFsimulate,matrix,SpatVector-method RFsimulate,data.frame,ANY-method
> ### Keywords: spatial
> 
> ### ** Examples
> 
> library('geostatsp')
> 
> # exclude this line to use the RandomFields package
> options(useRandomFields = FALSE)
> 
> model1 <- c(var=5, range=1,shape=0.5)
> 
> 
> myraster = rast(nrows=20,ncols=30,extent = ext(0,6,0,4), 
+ 	crs="+proj=utm +zone=17 +datum=NAD27 +units=m +no_defs")
> 
> set.seed(0) 
> 
> simu <- RFsimulate(model1, x=myraster, n=3)
install the RandomFields package for faster simulations
OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
Malformed Description field: should contain one or more complete sentences.
Found the following calls to data() loading into the global environment:
File ‘geotools/R/zzz.R’:
  data(fr_geo_rad)
See section ‘Good practice’ in ‘?data’.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘query_gesla.R’ ‘query_gesla.Rd’ ‘write_gesla.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘gld_read_lattes_zip.R’
checkRd: (-1) QANOVA.Rd:62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) QANOVA.Rd:63: Lost braces in \itemize; meant \describe ?
checkRd: (-1) QANOVA.Rd:64-66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) QANOVA.Rd:67: Lost braces in \itemize; meant \describe ?
Namespaces in Imports field not imported from:
  ‘googlesheets4’ ‘tidyr’
  All declared Imports should be used.
Found the following significant warnings:
  Warning: SystemRequirements: invalid C++ specification ‘C++ 17’
See ‘/data/gannet/ripley/R/packages/tests-clang/gfiExtremes.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
checkRd: (-1) gfonts.Rd:8: Lost braces; missing escapes or markup?
     8 | Download Google fonts and generate CSS to use in {rmarkdown} documents and
       |                                                  ^
checkRd: (-1) gfonts.Rd:9: Lost braces; missing escapes or markup?
     9 | {shiny} applications. Some popular fonts are included and ready to use.
       | ^
checkRd: (-1) use_pkg_gfont.Rd:5: Lost braces; missing escapes or markup?
     5 | \title{Use a Google Font included in {gfonts}}
       |                                      ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘crime.Rd’ ‘get_SVD.Rd’ ‘ggscreeplot.Rd’ ‘reflect.Rd’
Namespace in Imports field not imported from: ‘png’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘girder_experiment.Rd’
Namespaces in Imports field not imported from:
  ‘R6’ ‘scales’ ‘utils’
  All declared Imports should be used.
Found the following assignments to the global environment:
File ‘ggExtra/R/ggMarginalGadget.R’:
  assign(plotname, eval(parse(text = origPlot)), envir = .GlobalEnv)
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘geometrical_data_analysis.R’ ‘ggmca.Rd’ ‘ggmca_with_base_ref.Rd’
    ‘ggpca_3d.Rd’ ‘ggpca_cor_circle.Rd’ ‘pca_interpret.Rd’ ‘utils.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘lib.R’
Running examples in ‘ggfootball-Ex.R’ failed
The error most likely occurred in:

> ### Name: xg_chart
> ### Title: Plot an xG chart of a football match
> ### Aliases: xg_chart
> 
> ### ** Examples
> 
> xg_chart(26631, "red", "grey", competition = "Premier League")
Error in readr::type_convert(shots_data) : is.data.frame(df) is not TRUE
Calls: xg_chart ... <Anonymous> -> get_match_shots -> <Anonymous> -> stopifnot
Execution halted
Namespace in Imports field not imported from: ‘utils’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘vdiffr’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘inset_shape_circle.R’ ‘inset_shape_rectangle.R’ ‘inset_shape_sf.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘ggmugs.R’
Namespace in Imports field not imported from: ‘survival’
  All declared Imports should be used.
checkRd: (-1) pcp_scale.Rd:50: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pcp_scale.Rd:51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pcp_scale.Rd:52: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pcp_scale.Rd:53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) pcp_scale.Rd:54-55: Lost braces in \itemize; meant \describe ?
Namespaces in Imports field not imported from:
  ‘gcookbook’ ‘ggthemes’ ‘moonBook’ ‘tidyverse’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘Formula’ ‘GGally’ ‘Hmisc’ ‘RPostgres’ ‘colourpicker’ ‘ggpmisc’
  ‘ggpubr’ ‘glue’ ‘gridExtra’ ‘markdown’ ‘patchwork’ ‘plotly’
  ‘quantreg’ ‘shinyFiles’ ‘shinyjqui’ ‘shinyjs’ ‘table1’ ‘zoo’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘grid’
  All declared Imports should be used.
Undeclared package ‘gghalves’ in Rd xrefs
Unknown package ‘gghalves’ in Rd xrefs
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘reveal_aes.Rd’ ‘reveal_axis.Rd’ ‘reveal_groups.Rd’
    ‘reveal_layers.Rd’ ‘reveal_panels.Rd’ ‘reveal_save.Rd’
Namespaces in Imports field not imported from:
  ‘nomogramFormula’ ‘survival’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘magrittr’ ‘utils’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Win CRAN check results - R Windows
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘geom_donut.Rd’ ‘geom_donut_slice.Rd’ ‘geom_pie.Rd’
    ‘geom_series_circles.Rd’ ‘geom_series_text.Rd’ ‘geom_slice.Rd’
    ‘stat-series-circles.R’
checkRd: (-1) MODFIT.Rd:33: Lost braces; missing escapes or markup?
    33 |   {chisq_i = sum( (O_iz - E_iz)^2 / E_iz; z = 0, ..., C ), }
       |   ^
checkRd: (-1) probs.GGUM.Rd:27: Lost braces; missing escapes or markup?
    27 |   GUM-based probabilities just constrain alpha to a unit vector of length {I}
       |                                                                           ^
Namespace in Imports field not imported from: ‘ggplot2’
  All declared Imports should be used.
Package required but not available: ‘seqminer’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘methods’
  All declared Imports should be used.
checkRd: (-1) gigg.Rd:70-77: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gigg.Rd:78: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gigg.Rd:79: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gigg.Rd:80: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gigg.Rd:81: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gigg.Rd:82: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gigg.Rd:83: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gigg.Rd:84: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gigg.Rd:85: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gigg.Rd:86: Lost braces in \itemize; \value handles \item{}{} directly
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘rtgin1.R’
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘mockery’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘MCMCpack’ ‘ggplot2’ ‘moments’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
No news entries found.
File ‘gllm/libs/gllm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘GLMaSPU/libs/GLMaSPU.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) NEWS.Rd:16: Lost braces; missing escapes or markup?
    16 |         \item Now \code{AICc == Inf} when {n <= p + 1}.
       |                                           ^
checkRd: (-1) glmc.Rd:232: Escaped LaTeX specials: \&
checkRd: (-1) glmc.Rd:241: Escaped LaTeX specials: \&
checkRd: (-1) glmc.control.Rd:29: Escaped LaTeX specials: \$
checkRd: (-1) glmc.control.Rd:31: Escaped LaTeX specials: \$
checkRd: (-1) glmc.summaries.Rd:79: Escaped LaTeX specials: \&
checkRd: (-1) glmmSimData.Rd:4: Lost braces; missing escapes or markup?
     4 | \description{Section 4.1.2 of the refence below descries a simulation study with data generated from a probit mixed model with six fixed effects parameters and a bivariate random effects vector having a 2 by 2 symmetric positive definite covariance matrix. The function simulates a data set from this model with 2500 groups and the number of observation in each group being a random draw from {20,21,...,30}.}
       |                                                                                                                                                                                                                                                                                                                                                                                                          ^
Namespace in Imports field not imported from: ‘rstantools’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘AER’ ‘MASS’ ‘Matrix’ ‘censReg’ ‘effects’ ‘foreign’ ‘lme4’ ‘lmtest’
  ‘nnet’ ‘pBrackets’ ‘plm’ ‘pscl’ ‘sandwich’
  All declared Imports should be used.
checkRd: (-1) ccancer.Rd:16: Lost braces
    16 |                          a factor with levels either \\code{F} (female) or code{M} (male)}
       |                                                            ^
checkRd: (-1) ccancer.Rd:16: Lost braces
    16 |                          a factor with levels either \\code{F} (female) or code{M} (male)}
       |                                                                                ^
checkRd: (-1) galapagos.Rd:4: Lost braces
     4 | \title{{Gal\'{a}pagos} Island species data}
       |              ^
checkRd: (-1) galapagos.Rd:6: Lost braces
     6 |   The number of species on the {Gal\'{a}pagos} Islands
       |                                ^
checkRd: (-1) galapagos.Rd:6: Lost braces
     6 |   The number of species on the {Gal\'{a}pagos} Islands
       |                                      ^
checkRd: (-1) galapagos.Rd:40: Lost braces
    40 |    {Gal\'{a}pagos} (the endemics). 
       |    ^
checkRd: (-1) galapagos.Rd:40: Lost braces
    40 |    {Gal\'{a}pagos} (the endemics). 
       |          ^
checkRd: (-1) galapagos.Rd:44: Lost braces
    44 |   Species number and endemism: The {Gal\'{a}pagos} Archipelago revisited.
       |                                          ^
checkRd: (-1) coef.glmulti.Rd:26: Escaped LaTeX specials: \&
checkRd: (-1) coef.glmulti.Rd:27: Escaped LaTeX specials: \&
checkRd: (-1) coef.glmulti.Rd:51: Escaped LaTeX specials: \&
checkRd: (-1) coef.glmulti.Rd:60: Escaped LaTeX specials: \&
checkRd: (-1) coef.glmulti.Rd:61: Escaped LaTeX specials: \&
checkRd: (-1) consensus.Rd:29: Escaped LaTeX specials: \&
checkRd: (-1) getfit.Rd:14: Lost braces
    14 |   \item{object}{A fitted model object, of class \code{glm}, \code{lm} or code{glm.nb}}
       |                                                                              ^
checkRd: (-1) getfit.Rd:26: Escaped LaTeX specials: \&
checkRd: (-1) glmulti-class.Rd:26: Escaped LaTeX specials: \&
checkRd: (-1) glmulti-methods.Rd:14: Lost braces
    14 | code{glmulti} finds what are the \code{n} best models (the confidence set of models) among all possible models (the candidate set, as specified by the user).
       |     ^
checkRd: (-1) glmulti.Rd:99: Escaped LaTeX specials: \&
checkRd: (-1) summary.glmulti.Rd:72: Escaped LaTeX specials: \&
Malformed Description field: should contain one or more complete sentences.
File ‘globalOptTests/libs/globalOptTests.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘lwgeom’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘rlang’
  All declared Imports should be used.
checkRd: (-1) rtheta.Rd:50-76: Lost braces in \itemize; meant \describe ?
Unknown package ‘registr’ in Rd xrefs
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘1-pitch-normalize-value.R’
Namespaces in Imports field not imported from:
  ‘base’ ‘methods’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘Rcpp’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘rhandsontable’ ‘shiny’ ‘stats’
  All declared Imports should be used.
checkRd: (-1) BVDWSTOXX.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) BVDWSTOXX.Rd:15: Escaped LaTeX specials: \&
checkRd: (-1) BVDWSTOXX.Rd:16: Escaped LaTeX specials: \& \&
checkRd: (-1) BVDWSTOXX.Rd:26: Escaped LaTeX specials: \&
checkRd: (-1) BVDWSTOXX.Rd:31: Escaped LaTeX specials: \&
checkRd: (-1) BVDWSTOXX.Rd:34: Escaped LaTeX specials: \&
checkRd: (-1) BVDWSTOXX.Rd:37: Escaped LaTeX specials: \&
Namespaces in Imports field not imported from:
  ‘assertthat’ ‘future’ ‘httr’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘gt_make_grid.Rd’
checkRd: (-1) google_find_place.Rd:67: Lost braces in \itemize; meant \describe ?
checkRd: (-1) google_find_place.Rd:68: Lost braces in \itemize; meant \describe ?
checkRd: (-1) google_find_place.Rd:69: Lost braces in \itemize; meant \describe ?
checkRd: (-1) google_map.Rd:54: Lost braces; missing escapes or markup?
    54 | of `{sf}` objects).}
       |     ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘collections.R’ ‘packages.R’ ‘published.R’ ‘related.R’ ‘utils.R’
Malformed Description field: should contain one or more complete sentences.
Namespace in Imports field not imported from: ‘BiocManager’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
File ‘gplm/libs/gplm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘service-cohere.R’
Requires orphaned package: ‘extraDistr’
Malformed Title field: should not end in a period.
checkRd: (-1) grade-package.Rd:51-54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) grade-package.Rd:55-57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) grade-package.Rd:58-71: Lost braces in \itemize; meant \describe ?
checkRd: (-1) grade-package.Rd:72-74: Lost braces in \itemize; meant \describe ?
checkRd: (-1) grade-package.Rd:75-78: Lost braces in \itemize; meant \describe ?
checkRd: (-1) grade-package.Rd:79-81: Lost braces in \itemize; meant \describe ?
checkRd: (-1) Granger.inference.difference.Rd:65: Lost braces; missing escapes or markup?
    65 |         least one root larger than one) on bootstrapped \verb{x} and {y}.
       |                                                                      ^
checkRd: (-1) Granger.inference.difference.Rd:68: Lost braces; missing escapes or markup?
    68 |         least one root larger than one) on bootstrapped \verb{x} and {z}.
       |                                                                      ^
checkRd: (-1) Granger.inference.difference.Rd:71: Lost braces; missing escapes or markup?
    71 |         least one root larger than one) on bootstrapped \verb{x}, \verb{y} and {z}.
       |                                                                                ^
Namespaces in Imports field not imported from:
  ‘Hmisc’ ‘PairedData’ ‘RColorBrewer’ ‘agricolae’ ‘corrplot’ ‘desplot’
  ‘dplyr’ ‘ggplot2’ ‘ggpubr’ ‘gridGraphics’ ‘gtools’ ‘kableExtra’
  ‘knitr’ ‘magrittr’ ‘pastecs’ ‘reshape2’ ‘rmarkdown’ ‘shinyWidgets’
  ‘summarytools’
  All declared Imports should be used.
checkRd: (-1) corrApp.Rd:40: Escaped LaTeX specials: \&
checkRd: (-1) crdApp.Rd:46: Escaped LaTeX specials: \&
checkRd: (-1) descApp.Rd:55: Escaped LaTeX specials: \&
checkRd: (-1) layoutApp.Rd:50: Escaped LaTeX specials: \&
checkRd: (-1) rbdApp.Rd:46: Escaped LaTeX specials: \&
checkRd: (-1) ttApp.Rd:43: Escaped LaTeX specials: \&
Namespace in Imports field not imported from: ‘Rdpack’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘reshape2’
  All declared Imports should be used.
File ‘graphpcor/libs/graphpcor.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) GREMLINS.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) GREMLINS.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) GREMLINS.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) GREMLINS.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) GREMLINS.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) GREMLINS.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) GREMLINS.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) GREMLINS.Rd:23: Lost braces in \itemize; meant \describe ?
accrualReport: multiple local function definitions for ‘gg’ with
  different formal arguments
checkRd: (-1) setgreportOption.Rd:12: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:24: Lost braces
    24 | \item{code{figpos}:}{LaTeX figure environment position; default is \code{"htb!"}}
       |           ^
checkRd: (-1) setgreportOption.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) setgreportOption.Rd:29: Lost braces in \itemize; meant \describe ?
Malformed Description field: should contain one or more complete sentences.
Namespace in Imports field not imported from: ‘BiasedUrn’
  All declared Imports should be used.
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/gridtext.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Obsolete C++11 standard request will be ignored
Namespace in Imports field not imported from: ‘msm’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘gridExtra’ ‘methods’ ‘tidyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘rjags’
  All declared Imports should be used.
File ‘grove/libs/grove.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Problems with news in ‘NEWS.md’:
No news entries found.
Namespace in Imports field not imported from: ‘Rcpp’
  All declared Imports should be used.
Found the following files/directories:
  ‘p1_20up-vs-p2_25up_in_str1.txt’ ‘p1_20up-vs-p2_25up_in_str2.txt’
  ‘p2_25up-vs-p1_20up_in_str1.txt’ ‘p2_25up-vs-p1_20up_in_str2.txt’
  ‘s0_20up.txt’ ‘s0_30up.txt’ ‘s0_f2up.txt’ ‘strs.vec_01mx.txt’
  ‘strs.vec_02mx.txt’ ‘strs.vec_03mx.txt’ ‘strs.vec_04mx.txt’
  ‘strs.vec_05mx.txt’ ‘strs.vec_06mx.txt’ ‘strs.vec_30up.txt’
  ‘strs.vec_50up.txt’ ‘strs.vec_f2up.txt’ ‘uni_p1_20up-p2_25up.txt’
checkRd: (-1) fmddisc.Rd:23: Escaped LaTeX specials: \_
checkRd: (-1) schuster.Rd:46: Escaped LaTeX specials: \_
checkRd: (-1) schuster.Rd:54: Escaped LaTeX specials: \&
Found the following files/directories:
  ‘FMD mag discontinuities_disc.png’ ‘FMD mag
  discontinuities_disc1.res’ ‘FMD mag discontinuities_disc2.res’
  ‘IDYLLWILD_bvmed.png’ ‘IDYLLWILD_fig.png’ ‘Schuster's
  diagram_schu.png’ ‘hour.res’
checkRd: (-1) qdb.p.correct.Rd:14: Lost braces; missing escapes or markup?
    14 | \item{refpts}{a numeric vector used as a reference point to determine the correct side of the \code{qdb} for classifying \code{x}. The \code{length(refpts)} should be equal to {ncol(x)}. Default to \code{colMeans(x)}. }
       |                                                                                                                                                                                 ^
Requires (indirectly) orphaned package: ‘extraDistr’
checkRd: (-1) crossval.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) crossval.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) crossval.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) crossval.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) crossval.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) crossval.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd.Rd:60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd.Rd:61: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd.Rd:62: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd_parallel.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd_parallel.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd_parallel.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd_parallel.Rd:60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd_parallel.Rd:61: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) gsbm_mcgd_parallel.Rd:62: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) lisiecki2005.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) lisiecki2005.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) lisiecki2005.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) spratt2016.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) spratt2016.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) spratt2016.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) spratt2016.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) spratt2016.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) spratt2016.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) spratt2016.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) spratt2016.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) spratt2016.Rd:29: Lost braces in \itemize; meant \describe ?
Namespace in Imports field not imported from: ‘devtools’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
checkRd: (-1) artset1987.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tumor.Rd:10: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tumor.Rd:11: Lost braces in \itemize; meant \describe ?
checkRd: (-1) tumor.Rd:12: Lost braces in \itemize; meant \describe ?
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘gfrance85.Rd’
checkRd: (-1) guild_merge.Rd:38: Lost braces; missing escapes or markup?
    38 |     \item{\code{summary_name}}{Name used for the run summary. Use '${run_id}' in the name to include the run ID.}
       |                                                                     ^
checkRd: (-1) guild_merge_cli.Rd:88: Lost braces; missing escapes or markup?
    88 | \item{summary_name}{Name used for the run summary. Use '${run_id}' in the name to include the run ID.}
       |                                                          ^
Namespace in Imports field not imported from: ‘RUnit’
  All declared Imports should be used.
checkRd: (-1) esSim.Rd:81: Lost braces; missing escapes or markup?
    81 | \eqn{83} SNPs are in cluster {-}, \eqn{714} SNPs are in cluster \eqn{0},
       |                              ^
checkRd: (-1) esSimDiffPriors.Rd:91: Lost braces; missing escapes or markup?
    91 | \eqn{64} SNPs are in cluster {-}, \eqn{708} SNPs are in cluster \eqn{0},
       |                              ^
File ‘GWASExactHW/libs/GWASExactHW.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘plot.R’
Namespaces in Imports field not imported from:
  ‘doParallel’ ‘foreach’ ‘spgwr’
  All declared Imports should be used.
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/GWnnegPCA.Rcheck/00install.out’ for details.
Namespaces in Imports field not imported from:
  ‘DT’ ‘attempt’ ‘corpcor’ ‘glue’ ‘htmltools’ ‘pkgload’ ‘processx’
  ‘tools’
  All declared Imports should be used.
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/GWpcor.Rcheck/00install.out’ for details.
Found the following files/directories:
  ‘testdata1.txt’ ‘testdata2.txt’ ‘testdata3.txt’
File ‘hawkes/libs/hawkes.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) deff.sigma.Rd:28: Lost braces in \itemize; meant \describe ?
checkRd: (-1) deff.sigma.Rd:29: Lost braces in \itemize; meant \describe ?
checkRd: (-1) deff.sigma.Rd:30: Lost braces in \itemize; meant \describe ?
checkRd: (-1) deff.sigma.Rd:31: Lost braces in \itemize; meant \describe ?
checkRd: (-1) deff.sigma.Rd:32: Lost braces in \itemize; meant \describe ?
checkRd: (-1) deff.sigma.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) deff.sigma.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) deff.sigma.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) phenowheat.Rd:18: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) phenowheat.Rd:19: Lost braces in \enumerate; meant \describe ?
File ‘HDGLM/libs/HDGLM.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘CXX’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/HDJM.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Requires (indirectly) orphaned package: ‘extraDistr’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘plt-gartner-magic-chart.R’ ‘utils-save-to-excel.R’
Malformed Title field: should not end in a period.
checkRd: (-1) colByValue.Rd:20: Lost braces; missing escapes or markup?
    20 | \item{las}{numeric in {0,1,2,3}; the style of axis labels.}
       |                       ^
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘CXX12’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/heatwaveR.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Running examples in ‘heatwaveR-Ex.R’ failed
The error most likely occurred in:

> ### Name: ts2clm3
> ### Title: Make a climatology from a daily time series.
> ### Aliases: ts2clm3
> 
> ### ** Examples
> 
> data.table::setDTthreads(threads = 1) # optimise for your code and local computer
> res <- ts2clm3(sst_WA, climatologyPeriod = c("1983-01-01", "2012-12-31"))
> res[1:10, ]
             t  temp    seas  thresh
        <Date> <num>   <num>   <num>
 1: 1982-01-01 20.94 21.6080 22.9605
 2: 1982-01-02 21.25 21.6348 22.9987
 3: 1982-01-03 21.38 21.6621 23.0376
 4: 1982-01-04 21.16 21.6895 23.0771
 5: 1982-01-05 21.26 21.7169 23.1130
 6: 1982-01-06 21.61 21.7436 23.1460
 7: 1982-01-07 21.74 21.7699 23.1775
 8: 1982-01-08 21.50 21.7958 23.2080
 9: 1982-01-09 21.40 21.8217 23.2366
10: 1982-01-10 21.36 21.8478 23.2649
> 
> # Or if one only wants the 366 day climatology
> res_clim <- ts2clm3(sst_WA, climatologyPeriod = c("1983-01-01", "2012-12-31"),
+                     clmOnly = TRUE)
> res_clim[1:10, ]
      doy    seas  thresh
    <num>   <num>   <num>
 1:     1 21.6080 22.9605
 2:     2 21.6348 22.9987
 3:     3 21.6621 23.0376
 4:     4 21.6895 23.0771
 5:     5 21.7169 23.1130
 6:     6 21.7436 23.1460
 7:     7 21.7699 23.1775
 8:     8 21.7958 23.2080
 9:     9 21.8217 23.2366
10:    10 21.8478 23.2649
> 
> # Or if one wants the variance column included in the results
> res_var <- ts2clm3(sst_WA, climatologyPeriod = c("1983-01-01", "2012-12-31"),
+                    var = TRUE)
Warning in data.table::frollapply(thresh, n = smoothPercentileWidth, var,  :
  'n' is deprecated in frollapply, use 'N' instead
Error in data.table::frollapply(thresh, n = smoothPercentileWidth, var,  : 
  argument "FUN" is missing, with no default
Calls: ts2clm3 ... [.data.table -> eval -> eval -> <Anonymous> -> match.fun
Execution halted
Running ‘testthat.R’ [262s/446s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(heatwaveR)
  > 
  > test_check("heatwaveR")
  Saving _problems/test-ts2clm3-101.R
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 390 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-ts2clm3.R:101:3'): var argument functions correctly ────────────
  <getvarError/missingArgError/error/condition>
  Error in `data.table::frollapply(thresh, n = smoothPercentileWidth, var, na.rm = FALSE, align = "center")`: argument "FUN" is missing, with no default
  Backtrace:
      ▆
   1. └─heatwaveR::ts2clm3(...) at test-ts2clm3.R:101:3
   2.   ├─...[]
   3.   └─data.table:::`[.data.table`(...)
   4.     └─base::eval(jsub, SDenv, parent.frame())
   5.       └─base::eval(jsub, SDenv, parent.frame())
   6.         └─data.table::frollapply(...)
   7.           └─base::match.fun(FUN)
  
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 390 ]
  Error:
  ! Test failures.
  Execution halted
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘predict.heckmange.R’
checkRd: (-1) marker_h2.Rd:92: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2.Rd:93: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2.Rd:94: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2.Rd:95: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2.Rd:96-97: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2.Rd:98: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2.Rd:99: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2_means.Rd:94: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2_means.Rd:95: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2_means.Rd:96: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2_means.Rd:97: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2_means.Rd:98-99: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2_means.Rd:100: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2_means.Rd:101: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) marker_h2_means.Rd:102: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) repeatability.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) repeatability.Rd:39: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) repeatability.Rd:40: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) repeatability.Rd:41-43: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) repeatability.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) repeatability.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) glm.hermite.Rd:46-48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) glm.hermite.Rd:49-51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) glm.hermite.Rd:52-54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) glm.hermite.Rd:55-58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) glm.hermite.Rd:59-60: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) glm.hermite.Rd:61-65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) glm.hermite.Rd:66-67: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) glm.hermite.Rd:68-69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) phermite.Rd:38: Lost braces; missing escapes or markup?
    38 |   {b} and \code{m} to be lower (or greater) than \code{q}.
       |   ^
checkRd: (-1) hero.Rd:67-68: Lost braces
    67 | then \code{\link[pbapply]{pblapply}} is used. If code{package ==
       |                                                      ^
checkRd: (-1) hero.Rd:69: Lost braces
    69 | code{package == "Rmpi"}, then \code{\link[Rmpi]{mpi.applyLB}} is used.}
       |     ^
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘C++11’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/hesim.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Found the following HTML validation problems:
heterometa.html:262:43 (higgins.Rd:7): Warning: <script> anchor "MathJax-script" already defined
checkRd: (-1) predictPair.Rd:20: Lost braces; missing escapes or markup?
    20 | A number in the set {-1, 0, 1}, where 1 means row1 is predicted to
       |                     ^
checkRd: (-1) predictPairInternal.Rd:18: Lost braces; missing escapes or markup?
    18 | A number in the set {-1, 0, 1}, where 1 means row1 is predicted to
       |                     ^
checkRd: (-1) ohio.Rd:104: Escaped LaTeX specials: \&
checkRd: (-1) ohio.Rd:105: Escaped LaTeX specials: \&
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘BiocGenerics’ ‘TxDb.Hsapiens.UCSC.hg38.knownGene’
  ‘TxDb.Mmusculus.UCSC.mm10.knownGene’ ‘biomaRt’ ‘ggraph’
  ‘org.Hs.eg.db’ ‘org.Mm.eg.db’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘apply_threshold.R’ ‘compute_chromosomes_length.R’
    ‘create_hidecan_plot.R’ ‘gwaspoly_helper_functions.R’
    ‘input_data_constructors.R’
checkRd: (-1) read.VCF.Rd:21: Lost braces
    21 | Reads a \url{https://samtools.github.io/hts-specs/}{Variant Call Format (VCF)} file into a BED object,
       |                                                    ^
checkRd: (-1) hierNet.Rd:28: Lost braces; missing escapes or markup?
    28 |     terms, th_{jj}X_j^2, in the model.  Default TRUE.}
       |               ^
checkRd: (-1) hierNet.logistic.Rd:30: Lost braces; missing escapes or markup?
    30 |     terms, th_{jj}X_j^2, in the model.  Default TRUE.}  
       |               ^
checkRd: (-1) hierNet.logistic.Rd:63: Lost braces
    63 | \seealso{\link{predict.hierNet.logistic},link{hierNet.logistic.path}}
       |                                              ^
checkRd: (-1) hierNet.logistic.path.Rd:39: Lost braces; missing escapes or markup?
    39 |   terms, th_{jj}X_j^2, in the model.  Default TRUE.}
       |             ^
checkRd: (-1) hierNet.path.Rd:38: Lost braces; missing escapes or markup?
    38 |   terms, th_{jj}X_j^2, in the model.  Default TRUE.}
       |             ^
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/highs.Rcheck/00install.out’ for details.
checkRd: (-1) hlt.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hlt.Rd:65: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hlt.Rd:66: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hlt.Rd:67: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hlt.Rd:68: Lost braces in \itemize; meant \describe ?
checkRd: (-1) hlt.Rd:77-78: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hlt.Rd:79: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hlt.Rd:80-81: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hlt.Rd:82: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hlt.Rd:83: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hltsim.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hltsim.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hltsim.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hltsim.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hltsim.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hltsim.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hltsim.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hltsim.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/hmcdm.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Fdebug: multiple local function definitions for ‘deb’ with different
  formal arguments
html_describe_con: multiple local function definitions for ‘g’ with
  different formal arguments
checkRd: (-1) nafracCalc.Rd:45: Lost braces
    45 |   as if code{y} were not of class \code{"multipleHmmDataSets"}.
       |             ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘theme_hmsid.Rd’
Namespaces in Imports field not imported from:
  ‘knitr’ ‘rmarkdown’
  All declared Imports should be used.
checkRd: (-1) HOasso.Rd:43: Lost braces; missing escapes or markup?
    43 | Arguments \code{x} and {y} are \code{character} objects and can assume values   \code{"sout"}, \code{"dout"}, \code{"lout"}, \code{"sin"}, \code{"din"}, \code{"lin"} representing the out-strength, out-degree, out-log-strength, in-strength, in-degree, and in-log-strength respectively.
       |                        ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘rstar_glm.Rd’ ‘run_sim_rstar_glm.Rd’ ‘sim_rstar_glm.Rd’
Namespace in Imports field not imported from: ‘survival’
  All declared Imports should be used.
checkRd: (-1) hd.ord.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:49: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hd.ord.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hot.deck.Rd:39: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hot.deck.Rd:40: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hot.deck.Rd:41: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hot.deck.Rd:42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hot.deck.Rd:43: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) hot.deck.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) HPLB.Rd:33: Lost braces in \itemize; meant \describe ?
checkRd: (-1) HPLB.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) HPLB.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) HPLB.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) HPLB.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) HPLB.Rd:38: Lost braces in \itemize; meant \describe ?
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
File ‘hsphase/libs/hsphase.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘recipes’ ‘tune’
  All declared Imports should be used.
checkRd: (-1) simplePostToHost.Rd:14: Escaped LaTeX specials: \&
Obsolete C++11 standard request will be ignored
File ‘humaniformat/libs/humaniformat.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Running ‘testthat.R’
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(humanize)
  > 
  > test_check("humanize")
  Saving _problems/test_time-150.R
  Saving _problems/test_time-219.R
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 96 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_time.R:145:3'): natural_time works as expected ─────────────────
  <lifecycle_error_deprecated/defunctError/rlang_error/error/condition>
  Error: `with_mock()` was deprecated in testthat 3.2.0 and is now defunct.
  ℹ Please use `with_mocked_bindings()` instead.
  Backtrace:
      ▆
   1. └─testthat::with_mock(...) at test_time.R:145:3
   2.   └─lifecycle::deprecate_stop("3.2.0", "with_mock()", "with_mocked_bindings()")
   3.     └─lifecycle:::deprecate_stop0(msg)
   4.       └─rlang::cnd_signal(...)
  ── Error ('test_time.R:214:3'): natural_time no months works as expected ───────
  <lifecycle_error_deprecated/defunctError/rlang_error/error/condition>
  Error: `with_mock()` was deprecated in testthat 3.2.0 and is now defunct.
  ℹ Please use `with_mocked_bindings()` instead.
  Backtrace:
      ▆
   1. └─testthat::with_mock(...) at test_time.R:214:3
   2.   └─lifecycle::deprecate_stop("3.2.0", "with_mock()", "with_mocked_bindings()")
   3.     └─lifecycle:::deprecate_stop0(msg)
   4.       └─rlang::cnd_signal(...)
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 96 ]
  Error:
  ! Test failures.
  Execution halted
checkRd: (-1) CalcROC.Rd:47: Lost braces
    47 | The accuracy of the classifier is the mean value of dQuote{(optSn, optSp)} for two-class problem and the mean value of \dQuote{(optSn, optSp,optS3)} for three-class problem.
       |                                                           ^
Namespace in Imports field not imported from: ‘mapproj’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘xml2’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘colourpicker’ ‘shiny’ ‘wordcloud2’
  All declared Imports should be used.
Failed to query server: Connection timed out
Failed to query server: Connection timed out
checkRd: (-1) extractPeriod.Rd:57: Lost braces
    57 | NOTE: all the dates in the datalist should follow the format in ?as.Date{base}.
       |                                                                         ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘hypothesis-api.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘equations.R’
checkRd: (-1) IATData.Rd:24: Lost braces; missing escapes or markup?
    24 | Dan Martin {dpmartin42@gmail.com}
       |            ^
File ‘ibmcraftr/libs/ibmcraftr.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) setServerLogLevel.Rd:20: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) setServerLogLevel.Rd:21: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) setServerLogLevel.Rd:22: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) setServerLogLevel.Rd:23: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) setServerLogLevel.Rd:24: Lost braces in \enumerate; meant \describe ?
Namespace in Imports field not imported from: ‘methods’
  All declared Imports should be used.
checkRd: (-1) get_p.Rd:29: Lost braces; missing escapes or markup?
    29 | \item A numeric p_norm, giving the factor between p_{gs} and phi_{0gs} (see paper for details).
       |                                                     ^
checkRd: (-1) get_p.Rd:29: Lost braces; missing escapes or markup?
    29 | \item A numeric p_norm, giving the factor between p_{gs} and phi_{0gs} (see paper for details).
       |                                                                  ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘icd_lookup.R’
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
checkRd: (-1) ICEscale.Rd:53: Escaped LaTeX specials: \^
checkRd: (-1) dpwdg.Rd:14: Escaped LaTeX specials: \$
checkRd: (-1) dpwdg.Rd:15: Escaped LaTeX specials: \$
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘app.R’
checkRd: (-1) Bpa.Rd:39-40: Lost braces
    39 | stocks. \doi{10.17895/ices.pub.3036}{\emph{ICES Advice
       |                                     ^
checkRd: (-1) Fpa.Rd:42-43: Lost braces
    42 | stocks. \doi{10.17895/ices.pub.3036}{\emph{ICES Advice
       |                                     ^
checkRd: (-1) icesRound.Rd:64-65: Lost braces
    64 | \doi{10.17895/ices.pub.3038}{\emph{ICES Advice Technical
       |                             ^
checkRd: (-1) mohn.Rd:71-72: Lost braces
    71 | \doi{10.17895/ices.pub.5997}{\emph{ICES Scientific Reports
       |                             ^
checkRd: (-1) data.Rd:7: Lost braces in \itemize; meant \describe ?
checkRd: (-1) data.Rd:8: Lost braces in \itemize; meant \describe ?
checkRd: (-1) data.Rd:9: Lost braces in \itemize; meant \describe ?
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘idmc_transform_daily.R’
Namespace in Imports field not imported from: ‘Rdpack’
  All declared Imports should be used.
File ‘IFP/libs/IFP.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘kableExtra’ ‘knitr’ ‘xtable’
  All declared Imports should be used.
Found the following assignments to the global environment:
File ‘IgorR/R/ReadIgorBinary.R’:
  assign(WaveName, rval, envir = .GlobalEnv)
File ‘igraph/libs/igraph.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘SET_ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Malformed Description field: should contain one or more complete sentences.
checkRd: (-1) simHawkes1a.Rd:35: Lost braces; missing escapes or markup?
    35 | distribution; 'd${dis}' gives the density function \eqn{g(\cdot)}.}
       |                  ^
checkRd: (-1) lab.qcs.Rd:24: Lost braces
    24 | It develops an object of \code{lab.qcs}-code{link{class}} to perform statistical quality control.
       |                                             ^
checkRd: (-1) lab.qcs.Rd:24: Lost braces
    24 | It develops an object of \code{lab.qcs}-code{link{class}} to perform statistical quality control.
       |                                                  ^
checkRd: (-1) define_target_function.Rd:41: Lost braces; missing escapes or markup?
    41 | be done either as a single vector of values (e.g. `function(x) { ... }`), or individual inputs for each parameter
       |                                                                ^
checkRd: (-1) define_target_function.Rd:42: Lost braces; missing escapes or markup?
    42 | (e.g. `function(x1, x2) { ... }`). If a single vector is used, all parameters will be passed to the target function as
       |                         ^
Running ‘testthat.R’ [13s/33s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(imagefluency)
  > 
  > test_check("imagefluency")
  Saving _problems/test_complexity-37.R
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 108 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test_complexity.R:37:3'): img_complexity normalizes input image if necessary ──
  Expected `img_complexity(array(100:500, dim = c(50, 50, 3)))` to equal 0.1111398.
  Differences:
  1/1 mismatches
  [1] 0.0915 - 0.111 == -0.0196
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 108 ]
  Error:
  ! Test failures.
  Execution halted
checkRd: (-1) imagesToKerasInput.Rd:23: Lost braces
    23 | \item{grayscale}{logical. Defines color channels of images: 1 if code{TRUE}, 3 if \code{FALSE}.}
       |                                                                      ^
Namespaces in Imports field not imported from:
  ‘data.table’ ‘dplyr’ ‘haven’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘pscl’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘lme4’ ‘reshape2’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘blm.R’ ‘checkBaseline.R’ ‘cleaning.R’ ‘countMissing.R’
    ‘getStanParameter.R’ ‘logit.R’ ‘negativeBionomial.R’
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘CXX’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/IncDTW.Rcheck/00install.out’ for details.
* used C compiler: ‘clang version 21.1.8’
* used C++ compiler: ‘clang version 21.1.8’
checkRd: (-1) make_likelihood_matrix.Rd:16: Lost braces; missing escapes or markup?
    16 | This function creates a matrix such that P[t, s] = P(C = t | I = s) = theta_{t-s} for s <= t and 0 otherwise.
       |                                                                             ^
checkRd: (-1) IndexComp.Rd:69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) IndexComp.Rd:70: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) IndexComp.Rd:71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) IndexComp.Rd:72: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) IndexComp.Rd:73: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) IndexComp.Rd:74: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) IndexComp.Rd:78: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) IndexComp.Rd:79: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) IndexComp.Rd:80: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) IndexComp.Rd:81: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) process_stats.Rd:11: Lost braces; missing escapes or markup?
    11 | the {janitor} package}
       |     ^
checkRd: (-1) theme_industRial.Rd:40: Lost braces; missing escapes or markup?
    40 | adapted from the package {cowplot} by Claus O.Wilke and reflects the principles
       |                          ^
checkRd: (-1) theme_industRial.Rd:45: Lost braces; missing escapes or markup?
    45 | It basically combines the half open theme with a grid background from {cowplot}
       |                                                                       ^
Namespace in Imports field not imported from: ‘withr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘utils’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘svglite’
  All declared Imports should be used.
checkRd: (-1) school23.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) school23.Rd:35: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
File ‘infotheo/libs/infotheo.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following files/directories:
  ‘c.txt’ ‘rho.txt’ ‘sta.txt’ ‘topo.txt’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘plot_functions.R’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    INSPECTumours (development version)
checkRd: (-1) ask.user.yn.question.Rd:44: Lost braces; missing escapes or markup?
    44 | menu in the {utils} package, yesno in the {devtools} package.
       |             ^
checkRd: (-1) ask.user.yn.question.Rd:44: Lost braces; missing escapes or markup?
    44 | menu in the {utils} package, yesno in the {devtools} package.
       |                                           ^
checkRd: (-1) install.FFmpeg.Rd:25: Lost braces; missing escapes or markup?
    25 | This function is useful for saveVideo() in the {animation} package.
       |                                                ^
checkRd: (-1) install.SWFTools.Rd:27: Lost braces; missing escapes or markup?
    27 | This function is useful for saveSWF() in the {animation} package.
       |                                              ^
checkRd: (-1) os.shutdown.Rd:25: Lost braces; missing escapes or markup?
    25 | This function is a modified version of Yihui's shutdown function from the {fun} package.
       |                                                                           ^
Malformed Title field: should not end in a period.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘autoplot.restricted.Rd’ ‘autoplot.riskfactor.Rd’ ‘rating_factors.Rd’
Running ‘anisotropyChoice.R’ [9s/25s]
  Running ‘biasCorr.R’ [11s/35s]
  Running ‘findLocalBias.R’ [9s/29s]
  Running ‘findRegionalBias.R’ [10s/31s]
  Running ‘optimizingTest.R’ [90m/63m]
Running the tests in ‘tests/optimizingTest.R’ failed.
Complete output:
  > options(error = recover)
  > #test = TRUE
  > test = FALSE
  > mantest = FALSE
  > set.seed(1)
  > library(intamapInteractive)
  Loading required package: intamap
  Loading required package: sp
  > library(gstat)
  > #require(maptools)
  > # for SIC2004 dataset
  > data(sic2004)
  > coordinates(sic.val) = ~x+y
  > observations = sic.val["dayx"] 
  > coordinates(sic.grid)=~x+y
  > predGrid = sic.grid
  > 
  > #Finding the polygon for the candidate locations
  > bb = bbox(predGrid)
  > boun = SpatialPoints(data.frame(x=c(bb[1,1],bb[1,2],bb[1,2],bb[1,1],bb[1,1]),
  +                                 y=c(bb[2,1],bb[2,1],bb[2,2],bb[2,2],bb[2,1])))
  > Srl = Polygons(list(Polygon(boun)),ID = as.character(1))
  > candidates = SpatialPolygonsDataFrame(SpatialPolygons(list(Srl)),
  +                                       data = data.frame(ID=1))
  > 
  > # Limits the number of prediction locations to have faster UK 
  > # computations
  > nGrid = dim(coordinates(predGrid))[1]
  > predGrid = predGrid[sample(seq(1,nGrid),1000),]
  > # Fits the variogram model (using function fit.variogram from package
  > # gstat)
  > model = fit.variogram(variogram(dayx~x+y, sic.val), vgm(50, "Sph", 250000, 250))
  > #plot(variogram(dayx~x+y, sic.val), model=model)
  > # Computes the Mukv of the current network
  > initMukv <- calculateMukv(observations, predGrid, model, formulaString = dayx~x+y)
  OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
  OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
Namespace in Imports field not imported from: ‘splines2’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘broom’
  All declared Imports should be used.
Found the following significant warnings:
  Warning: SystemRequirements: invalid C++ specification ‘C++ 17’
See ‘/data/gannet/ripley/R/packages/tests-clang/interpolation.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Namespace in Imports field not imported from: ‘moonBook’
  All declared Imports should be used.
checkRd: (-1) remit.Rd:32: Lost braces
    32 | A data set to replicate the findings of Escrib\`{a}-Folch,
       |                                                 ^
checkRd: (-1) remit.Rd:38: Lost braces
    38 | Escrib\`{a}-Folch, A., Meseguer, C. and Wright, J. (2018), Remittances and Protest in Dictatorships. American Journal of Political Science, 62: 889-904. \doi{10.1111/ajps.12382}
       |         ^
Namespaces in Imports field not imported from:
  ‘curl’ ‘readxl’
  All declared Imports should be used.
checkRd: (-1) interval-internal.Rd:40: Lost braces
    40 | \item{dqfunc}{function, density of the results of the quantile function, e.g., function(x){dnorm(qnorm(x))} (used for 'general' scores, 
       |                                                                                           ^
Running ‘testthat.R’ [90m/56m]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(intkrige)
  Loading required package: sp
  Loading required package: gstat
  Loading required package: raster
  > 
  > test_check("intkrige")
  [generalized least squares trend estimation]
  [generalized least squares trend estimation]
  [generalized least squares trend estimation]
  OMP: Warning #96: Cannot form a team with 24 threads, using 2 instead.
  OMP: Hint Consider unsetting KMP_DEVICE_THREAD_LIMIT (KMP_ALL_THREADS), KMP_TEAMS_THREAD_LIMIT, and OMP_THREAD_LIMIT (if any are set).
checkRd: (-1) decompose_volume.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) decompose_volume.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) decompose_volume.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) decompose_volume.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_volume.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_volume.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_volume.Rd:46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) fit_volume.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) forecast_volume.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) forecast_volume.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) forecast_volume.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) forecast_volume.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_plots.Rd:15: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_plots.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) generate_plots.Rd:17: Lost braces in \itemize; \value handles \item{}{} directly
Running examples in ‘inTrees-Ex.R’ failed
The error most likely occurred in:

> ### Name: XGB2List
> ### Title: Transform an xgboost object to a list of trees
> ### Aliases: XGB2List
> ### Keywords: xgboost
> 
> ### ** Examples
> 
> 	library(data.table)

Attaching package: ‘data.table’

The following object is masked from ‘package:base’:

    %notin%

> 	library(xgboost)
> 	# test data set 1: iris
> 	X <- within(iris,rm("Species")); Y <- iris[,"Species"]
> 	X <- within(iris,rm("Species")); Y <- iris[,"Species"]
> 	model_mat <- model.matrix(~. -1, data=X)
> 	xgb <- xgboost(model_mat, label = as.numeric(Y) - 1, nrounds = 20, 
+ 		objective = "multi:softprob", num_class = 3 )
Warning in throw_err_or_depr_msg("Passed unrecognized parameters: ", paste(head(names_unrecognized),  :
  Passed unrecognized parameters: num_class. This warning will become an error in a future version.
Warning in throw_err_or_depr_msg("Parameter '", match_old, "' has been renamed to '",  :
  Parameter 'label' has been renamed to 'y'. This warning will become an error in a future version.
Error in process.y.margin.and.objective(y, base_margin, objective, params) : 
  Got numeric 'y' - supported objectives for this data are: reg:squarederror, reg:squaredlogerror, reg:logistic, reg:pseudohubererror, reg:absoluteerror, reg:quantileerror, count:poisson, reg:gamma, reg:tweedie. Was passed: multi:softprob
Calls: xgboost -> process.y.margin.and.objective
Execution halted
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
checkRd: (-1) intRvals-package.Rd:60: Lost braces
    60 | B\'{e}dard, J. & Gauthier, G. 1986. Assessment of faecal output in geese. Journal of Applied Ecology, 23, 77-90.
       |    ^
checkRd: (-1) partition.Rd:64: Lost braces
    64 | Bates, D., M\"{a}chler, M., Bolker, B.M. & Walker, S.C. (2015). Fitting linear mixed-effects models using lme4. Journal of Statistical Software, 67, 1-48.
       |               ^
Namespace in Imports field not imported from: ‘Rdpack’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘fdrtool’ ‘nimble’
  All declared Imports should be used.
checkRd: (-1) f.influence.Rd:25: Lost braces; missing escapes or markup?
    25 | where F is the field of influence, k is order of influence, l_{ij} is the ith row and jth column element of the Leontief Inverse and -s indicates the sth element has been removed.
       |                                                               ^
checkRd: (-1) aiPux.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aiPux.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aiPux.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aiPux.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aiPux.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aiPux.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aiPuxComposite.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aiPuxComposite.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aiPuxComposite.Rd:36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aiPuxComposite.Rd:37: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aiPuxComposite.Rd:38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) aiPuxComposite.Rd:39: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) dls2007.Rd:19: Lost braces
    19 | impact. emph{Journal of Applied Psychology}, 92(5), 1380.
       |             ^
checkRd: (-1) paretoXX.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) paretoXX.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) paretoXX.Rd:22-23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) paretoXY.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) paretoXY.Rd:30-31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) paretoXY.Rd:32-33: Lost braces in \itemize; \value handles \item{}{} directly
File ‘iotools/libs/iotools.so’:
  Found non-API calls to R: ‘ATTRIB’, ‘DATAPTR’, ‘NAMED’, ‘SETLENGTH’,
    ‘SET_NAMED’
File ‘iotools/libs/iotools.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’
These entry points may be removed soon:
‘SET_NAMED’, ‘NAMED’, ‘DATAPTR’

Compiled code should not call non-API entry points in R.
It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘calc_lhat_glm.Rd’ ‘ipd.R’ ‘logistic_get_stats.Rd’ ‘ols_get_stats.Rd’
    ‘postpi_analytic_ols.Rd’ ‘postpi_boot_logistic.Rd’
    ‘postpi_boot_ols.Rd’ ‘ppi_logistic.Rd’ ‘ppi_mean.Rd’ ‘ppi_ols.R’
    ‘ppi_ols.Rd’ ‘ppi_plusplus_logistic.Rd’
    ‘ppi_plusplus_logistic_est.Rd’ ‘ppi_plusplus_mean.Rd’
    ‘ppi_plusplus_mean_est.Rd’ ‘ppi_plusplus_ols.Rd’
    ‘ppi_plusplus_ols_est.Rd’ ‘ppi_plusplus_quantile.Rd’
    ‘ppi_plusplus_quantile_est.Rd’ ‘ppi_quantile.Rd’ ‘pspa_logistic.Rd’
    ‘pspa_mean.Rd’ ‘pspa_ols.Rd’ ‘pspa_poisson.Rd’ ‘pspa_quantile.Rd’
    ‘simdat.R’
checkRd: (-1) check_convergence.Rd:47: Lost braces
    47 | \code{conv_plot}: code{ipm} invisibly.
       |                       ^
checkRd: (-1) init_ipm.Rd:50-51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) init_ipm.Rd:52-53: Lost braces in \itemize; meant \describe ?
checkRd: (-1) init_ipm.Rd:57: Lost braces in \itemize; meant \describe ?
checkRd: (-1) init_ipm.Rd:58: Lost braces in \itemize; meant \describe ?
checkRd: (-1) init_ipm.Rd:62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) init_ipm.Rd:63-65: Lost braces in \itemize; meant \describe ?
checkRd: (-1) init_ipm.Rd:70-74: Lost braces in \itemize; meant \describe ?
checkRd: (-1) init_ipm.Rd:75-78: Lost braces in \itemize; meant \describe ?
checkRd: (-1) make_ipm.Rd:276: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) make_ipm.Rd:277-281: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) make_ipm.Rd:282-286: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) make_ipm.Rd:287-291: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) make_ipm.Rd:292-293: Lost braces in \itemize; \value handles \item{}{} directly
Requires orphaned package: ‘extraDistr’
checkRd: (-1) partial_eigen.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) partial_eigen.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) prcomp_irlba.Rd:41-44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) prcomp_irlba.Rd:45-46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) prcomp_irlba.Rd:47-50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) prcomp_irlba.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ssvd.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ssvd.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ssvd.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ssvd.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ssvd.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ssvd.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ssvd.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ssvd.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) bp.coeff.raw.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) bp.coeff.raw.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) bp.coeff.raw.Rd:53: Escaped LaTeX specials: \&
checkRd: (-1) fleiss.kappa.raw.Rd:52: Escaped LaTeX specials: \&
checkRd: (-1) landis.koch.bf.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) landis.koch.bf.Rd:17: Escaped LaTeX specials: \&
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘calc.pvalues.R’ ‘helper.R’ ‘hypothesis_templates.R’ ‘irtpwr.R’
    ‘mml.fit.R’ ‘setup.data.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘chain-simulation.R’
File ‘isingLenzMC/libs/isingLenzMC.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘iso8601todataframe.R’
Namespace in Imports field not imported from: ‘Rcpp’
  All declared Imports should be used.
checkRd: (-1) ISOpureS1.model_optimize.kappa.kappa_deriv_loglikelihood.Rd:9: Escaped LaTeX specials: \$
checkRd: (-1) ISOpureS1.model_optimize.kappa.kappa_deriv_loglikelihood.Rd:14: Escaped LaTeX specials: \$
checkRd: (-1) ISOpureS1.model_optimize.kappa.kappa_loglikelihood.Rd:11: Escaped LaTeX specials: \$
checkRd: (-1) ISOpureS2.model_optimize.kappa.kappa_deriv_loglikelihood.Rd:11: Escaped LaTeX specials: \$
checkRd: (-1) ISOpureS2.model_optimize.kappa.kappa_loglikelihood.Rd:11: Escaped LaTeX specials: \$
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘calibfit.R’ ‘isofind.R’ ‘prepsources.R’ ‘serialize.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘bicycle_theft.R’ ‘car_fleet.R’ ‘crimes_against_life.R’
    ‘gun_seizure.R’ ‘gun_seizure_historical.R’ ‘monthly_stats.R’
    ‘monthly_stats_dictionary.R’ ‘population.R’ ‘spatial_info.R’
    ‘upp_data.R’ ‘yearly_stats.R’ ‘yearly_stats_dictionary.R’
Namespace in Imports field not imported from: ‘curl’
  All declared Imports should be used.
checkRd: (-1) is_israd_database.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) is_israd_database.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) is_israd_database.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) is_israd_database.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) is_israd_database.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) is_israd_database.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) is_israd_database.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) is_israd_database.Rd:26: Lost braces in \itemize; meant \describe ?
Namespace in Imports field not imported from: ‘readr’
  All declared Imports should be used.
Found the following files/directories:
  ‘RMTplot.pdf’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘iRNGStream.R’ ‘r_to_py.iteror.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘get_conservation_status.R’ ‘get_vernacularname.R’
checkRd: (-1) sTsls.Rd:17: Lost braces; missing escapes or markup?
    17 | \item{pi}{the matrix E[XZ']E[ZZ']^{-1}}
       |                                   ^
checkRd: (-1) sTslsSplines.Rd:20: Lost braces; missing escapes or markup?
    20 | \item{pi}{matrix, corresponds to E[XZ']E[ZZ']^{-1}, the first stage
       |                                               ^
Requires orphaned package: ‘extraDistr’
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/jaccard.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Obsolete C++11 standard request will be ignored
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘dplyr’ ‘magrittr’
  All declared Imports should be used.
checkRd: (-1) jaccard.test.Rd:41: Lost braces; missing escapes or markup?
    41 | The {bootstrap} method uses resampling with replacement binary vectors to compute a p-value (see optional arguments).
       |     ^
Namespaces in Imports field not imported from:
  ‘fBasics’ ‘reshape’ ‘tidyr’ ‘utils’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
Found the following Makefile(s) with an include directive with a pathname using R_HOME:
  src/jvm-w32/Makefile
Even though not recommended, variable R_HOME may contain spaces.
Makefile directives use space as a separator and there is no portable
way to quote/escape the space in Make rules and directives.  However,
one can and should quote pathnames when passed from Makefile to the
shell, and this can be done specifically when invoking Make recursively.
It is therefore recommended to use the Make '-f' option to include files
in directories specified using R_HOME.  This option can be specified
multiple times to include multiple Makefiles.  Note that 'Makeconf' is
included automatically into top-level makefile of a package.
More information can be found in 'Writing R Extensions'.
Namespace in Imports field not imported from: ‘ids’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘jdenticon.R’
Requires orphaned package: ‘extraDistr’
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’
  All declared Imports should be used.
checkRd: (-1) jointLPM.Rd:298: Lost braces; missing escapes or markup?
   298 | following transformation b_1 + b_2*I_1(Y(t)) + ... + b_{n+2}*I_{n+1}(Y(t)),
       |                                                        ^
checkRd: (-1) jointLPM.Rd:298: Lost braces; missing escapes or markup?
   298 | following transformation b_1 + b_2*I_1(Y(t)) + ... + b_{n+2}*I_{n+1}(Y(t)),
       |                                                                ^
checkRd: (-1) jointLPM.Rd:299: Lost braces; missing escapes or markup?
   299 | where I_1,...,I_{n+1} is the basis of quadratic I-splines. To constraint the
       |                 ^
checkRd: (-1) jmdem.control.Rd:42: Lost braces; missing escapes or markup?
    42 |     The control argument of \code{jmdem} is by default passed to the control argument of {jmdem.fit}, which uses its elements as arguments to {jmdem.control}: the latter provides defaults and sanity checking.
       |                                                                                          ^
checkRd: (-1) jmdem.control.Rd:42: Lost braces; missing escapes or markup?
    42 |     The control argument of \code{jmdem} is by default passed to the control argument of {jmdem.fit}, which uses its elements as arguments to {jmdem.control}: the latter provides defaults and sanity checking.
       |                                                                                                                                               ^
Namespaces in Imports field not imported from:
  ‘BayesFactor’ ‘GGally’ ‘GPArotation’ ‘MASS’ ‘PMCMR’ ‘R6’ ‘ROCR’
  ‘afex’ ‘car’ ‘dplyr’ ‘emmeans’ ‘ggrepel’ ‘ggridges’ ‘lavaan’
  ‘matrixStats’ ‘multcomp’ ‘mvnormtest’ ‘nnet’ ‘psych’ ‘vcd’ ‘vcdExtra’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘helpfunctions_melt.R’
Namespace in Imports field not imported from: ‘doParallel’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    pre-release juicr (2017 - 2021)
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘just.install.R’
Requires orphaned package: ‘extraDistr’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘kantorovich_ompr.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘kappa_inference.R’
File ‘kappalab/libs/kappalab.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) get.fit.Rd:46: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get.fit.Rd:47: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get.fit.Rd:48-49: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get.fit.Rd:50-51: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get.fit.Rd:52-54: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get.fit.Rd:55: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get.fit.Rd:56: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get.fit.Rd:57-60: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get.fit.Rd:61-62: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get.fit.Rd:63-64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get.fit.Rd:70: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.fit.Rd:71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.fit.Rd:72: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.fit.Rd:73: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.fit.Rd:74: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.fit.Rd:75: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.fit.Rd:76: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.fit.Rd:77: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.fit.Rd:78: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.fit.Rd:79: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.fit.Rd:80: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.sim.trajectories.Rd:66: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get.sim.trajectories.Rd:67: Lost braces in \itemize; \value handles \item{}{} directly
Namespace in Imports field not imported from: ‘GenomeInfoDb’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘base’
  All declared Imports should be used.
Requires (indirectly) orphaned package: ‘extraDistr’

Suggests orphaned package: ‘extraDistr’
checkRd: (-1) kdist.Rd:14: Lost braces; missing escapes or markup?
    14 | The {kdist} functions dk, pk, qk and rk, calculates the K-distribution
       |     ^
File ‘Kendall/libs/Kendall.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘lme4’ ‘metafor’ ‘nlme’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘mvtnorm’
  All declared Imports should be used.
File ‘KERE/libs/KERE.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) kernelFactory.Rd:21: Lost braces; missing escapes or markup?
    21 | \item{method}{Can be one of the following: POLynomial kernel function (\code{pol}), LINear kernel function (\code{lin}), Radial Basis kernel Function \code{rbf}), random choice (random={pol, lin, rbf}) (\code{random}), burn- in choice of best function (burn={pol, lin, rbf }) (\code{burn}). Use \code{random} or \code{burn} if you don't know in advance which kernel function is best.}
       |                                                                                                                                                                                          ^
checkRd: (-1) kernelFactory.Rd:21: Lost braces; missing escapes or markup?
    21 | \item{method}{Can be one of the following: POLynomial kernel function (\code{pol}), LINear kernel function (\code{lin}), Radial Basis kernel Function \code{rbf}), random choice (random={pol, lin, rbf}) (\code{random}), burn- in choice of best function (burn={pol, lin, rbf }) (\code{burn}). Use \code{random} or \code{burn} if you don't know in advance which kernel function is best.}
       |                                                                                                                                                                                                                                                                   ^
checkRd: (-1) subjOCCDIF.Rd:23: Lost braces
    23 | the scale on which to evaluate each subject. \code{stype = "ObsScore"} uses the subject's total score. \code{stype = "Theta"} uses the subject's rank on the \code{thetadist} scale. \code{stype = "ThetaML"} uses the maximum likelihood estimate for the subject on the \code{thetadist} scale. code{stype = "ScoreML"} uses the maximum likelihood estimate for the subject on the overall test score scale.
       |                                                                                                                                                                                                                                                                                                       ^
File ‘KernSmoothIRT/libs/KernSmoothIRT.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) useKeys.Rd:13: Lost braces; missing escapes or markup?
    13 | This function adds the {keys} dependencies to your application
       |                        ^
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Minor Changes
checkRd: (-1) kfda.Rd:26: Lost braces
    26 |  \item{kpca.train}{An object of class "kpca". It has results of \code{kpca} function. (see{\code{\link[kernlab]{kpca}}} (in package \pkg{kernlab}))}
       |                                                                                           ^
checkRd: (-1) kfino_plot.Rd:52: Lost braces; missing escapes or markup?
    52 |        plus the OK values. Prediction corresponds to E[X_{t} | Y_{1...t}] 
       |                                                          ^
checkRd: (-1) kfino_plot.Rd:52: Lost braces; missing escapes or markup?
    52 |        plus the OK values. Prediction corresponds to E[X_{t} | Y_{1...t}] 
       |                                                                  ^
Namespace in Imports field not imported from: ‘splines’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘RcppProgress’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘fitdistrplus’ ‘plotly’
  All declared Imports should be used.
checkRd: (-1) mount_appdata.Rd:10: Lost braces; missing escapes or markup?
    10 | \item{x}{An object of class \code{KinPairData} or {KinPairSimulation}}
       |                                                   ^
Requires (indirectly) orphaned package: ‘extraDistr’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘balance.R’ ‘data.R’ ‘order.R’ ‘revise.R’ ‘utils.R’
checkRd: (-1) klausuR.answ-class.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausuR.answ-class.Rd:18-22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausuR.answ-class.Rd:23-24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausuR.answ-class.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausuR.answ-class.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausuR.answ-class.Rd:36-37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:107-109: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:110-111: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:112-113: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:114-116: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:117-118: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:119-120: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:121-123: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:124-126: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:147: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:148: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:149: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:150: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:151: Lost braces in \itemize; meant \describe ?
checkRd: (-1) klausur.Rd:152-155: Lost braces in \itemize; meant \describe ?
Namespaces in Imports field not imported from:
  ‘Rcpp’ ‘SnowballC’ ‘stringi’
  All declared Imports should be used.
checkRd: (-1) plotkmc.Rd:21: Lost braces; missing escapes or markup?
    21 |     list of two functions,flist=list( f1=function( x ) { x } ,f2=function( x ) { x^2 } )  
       |                                                        ^
checkRd: (-1) plotkmc.Rd:21: Lost braces; missing escapes or markup?
    21 |     list of two functions,flist=list( f1=function( x ) { x } ,f2=function( x ) { x^2 } )  
       |                                                                                ^
Obsolete C++11 standard request will be ignored
Namespaces in Imports field not imported from:
  ‘FNN’ ‘caret’ ‘datasets’ ‘dplyr’ ‘e1071’ ‘psycho’ ‘rhandsontable’
  ‘shiny’
  All declared Imports should be used.
checkRd: (-1) knockoff.Rd:22-24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) knockoff.Rd:25-27: Lost braces in \itemize; meant \describe ?
Package required but not available: ‘seqminer’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) MapPolygon.Rd:20: Lost braces
    20 |   \item{shape}{If the estimators in the function link[KnowBR]{KnowBPolygon} were calculated using an external shape file, it is necessary to indicate the file in this argument. It is not necessary to select any polygon within the file, just to load the whole shape file.}
       |                                                              ^
checkRd: (-1) SurveyQ.Rd:26: Lost braces
    26 |   \item{shape}{If the estimators in the function link[KnowBR]{KnowBPolygon} were calculated using an external shape file, it is necessary to indicate the file in this argument. It is not necessary to select any polygon within the file, just to load the whole shape file.}
       |                                                              ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘Koboconnect.R’ ‘other.R’
Namespace in Imports field not imported from: ‘methods’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘tibble’
  All declared Imports should be used.
checkRd: (-1) compose.Rd:13: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) compose.Rd:14: Lost braces in \enumerate; meant \describe ?
File ‘kriging/libs/kriging.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) EGIparallel.Rd:60: Lost braces; missing escapes or markup?
    60 | Finally, one can control the field {optim.option} in order to decide how to optimize the sampling criterion.
       |                                    ^
checkRd: (-1) max_sur_parallel.Rd:29: Lost braces; missing escapes or markup?
    29 | Finally, one can control the field {optim.option} in order to decide how to optimize the sampling criterion. 
       |                                    ^
checkRd: (-1) max_timse_parallel.Rd:30: Lost braces; missing escapes or markup?
    30 | Finally, one can control the field {optim.option} in order to decide how to optimize the sampling criterion. 
       |                                    ^
checkRd: (-1) max_vorob_parallel.Rd:30: Lost braces; missing escapes or markup?
    30 | Finally, one can control the field {optim.option} in order to decide how to optimize the sampling criterion.
       |                                    ^
checkRd: (-1) print_uncertainty_nd.Rd:72: Lost braces
    72 | Optional argument. When set to code{NULL} (default) the function performs the projections on plans spanned by each pair (i,j) of dimension. Otherwise, the argument is an array of size 2 corresponding to the dimensions spanning the (only) plan on which the projection is performed.
       |                                    ^
checkRd: (-1) Predict_kernel_Ridge_MM.Rd:45: Lost braces; missing escapes or markup?
    45 |   and alpha_train is the BLUP of alpha for the model, i.e. alpha_train=Cov(alpha,Y_train)*Var(Y_train)^{-1}*(Y_train - E[Y_train]) }
       |                                                                                                        ^
checkRd: (-1) ks_test_stat.Rd:14: Lost braces
    14 | are valid. See /code{LcKS} for accepted functions.}
       |                     ^
Found the following files/directories:
  ‘KSEA Bar Plot.tiff’ ‘KSEA Kinase Scores.csv’
  ‘KSEA.Merged.Heatmap.png’ ‘Kinase-Substrate Links.csv’
Namespace in Imports field not imported from: ‘RUnit’
  All declared Imports should be used.
checkRd: (-1) GenSyntheticLogistic.Rd:46: Lost braces; missing escapes or markup?
    46 | 3) Every coordinate yi of the outcome vector y exists in {-1, 1}^n is sampled 
       |                                                          ^
checkRd: (-1) L0Learn-package.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) L0Learn-package.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) L0Learn-package.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) L0Learn-package.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) L0Learn-package.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) L0Learn-package.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) CreateDataSet.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) CreateDataSet.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) CreateDataSet.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FindElement.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FindElement.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FindNbrClusters.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FindNbrClusters.Rd:22: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FindStructure.Rd:15: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) FindStructure.Rd:16: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) l1_spectralclustering.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) l1_spectralclustering.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) l1_spectralclustering.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) l1_spectralclustering.Rd:35: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.l2boost.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.l2boost.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.l2boost.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.l2boost.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.l2boost.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) predict.l2boost.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
Namespace in Imports field not imported from: ‘robustbase’
  All declared Imports should be used.
Undeclared package ‘optpart’ in Rd xrefs
Unknown package ‘optpart’ in Rd xrefs
File ‘labdsv/libs/labdsv.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘as_base_data_frame.R’ ‘as_base_data_frame2.R’
    ‘as_labeled_data_frame.R’ ‘irregular2.R’
checkRd: (-1) ln_quantile_value.Rd:44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ln_quantile_value.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ln_quantile_value.Rd:46: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ln_quantile_value.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ln_quantile_value.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) ln_quantile_value.Rd:49: Lost braces in \itemize; \value handles \item{}{} directly
Found the following files/directories:
  ‘MYSLID.csv’ ‘tabelle.csv’
Namespace in Imports field not imported from: ‘stringr’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘calculate_gaps_perc.Rd’ ‘get_cbh_metrics.Rd’ ‘get_cum_break.Rd’
    ‘get_depths.Rd’ ‘get_distance.Rd’ ‘get_effective_gap.Rd’
    ‘get_gaps_fbhs.Rd’ ‘get_layers_lad.Rd’ ‘get_real_depths.Rd’
    ‘get_real_fbh.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘NDVI2LAI.R’
Namespaces in Imports field not imported from:
  ‘bslib’ ‘ggplot2’ ‘shinydashboard’
  All declared Imports should be used.
checkRd: (-1) lambda.r-package.Rd:71-74: Lost braces
    71 | x \%g\% y \%:=\% {
       |                  ^
checkRd: (-1) GenerateData.Rd:35-36: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) GenerateData.Rd:37-38: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) GenerateData.Rd:39-40: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) GenerateData.Rd:41-42: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) GenerateData.Rd:43-44: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) GenerateData.Rd:45: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) landmix.estimator.Rd:59-65: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) landmix.estimator.Rd:67-74: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) DOS.Rd:34: Lost braces; missing escapes or markup?
    34 |         Band-specific sensor $G_{rescale}$ (gain). Require either gain and offset or Grescale and Brescale to convert DN to radiance.
       |                                 ^
checkRd: (-1) DOS.Rd:37: Lost braces; missing escapes or markup?
    37 |         Band-specific sensor $B_{rescale}$ (bias). Require either gain and offset or Grescale and Brescale to convert DN to radiance.
       |                                 ^
checkRd: (-1) LML.Rd:43: Lost braces
    43 |     is specified only with the \code{GD}, code{HME}, or \code{NSIS}
       |                                               ^
checkRd: (-1) LaplaceApproximation.Rd:485: Escaped LaTeX specials: \&
checkRd: (-1) LossMatrix.Rd:115: Escaped LaTeX specials: \&
checkRd: (-1) LossMatrix.Rd:117: Escaped LaTeX specials: \&
checkRd: (-1) MISS.Rd:106: Lost braces
   106 |   code{Fit$Imp}. In the presence of numerous missing values, say more
       |       ^
checkRd: (-1) Matrices.Rd:316: Lost braces
   316 |   Gauss-Hermite quadrature rules. A grid of order eqn{K} provides an
       |                                                      ^
checkRd: (-1) PMC.Rd:214: Lost braces
   214 |   item{nu}{This is the degrees of freedom parameter \eqn{\nu}{nu} for
       |       ^
checkRd: (-1) PMC.Rd:214-215: Lost braces
   214 |   item{nu}{This is the degrees of freedom parameter \eqn{\nu}{nu} for
       |           ^
checkRd: (-1) caterpillar.plot.Rd:15: Lost braces
    15 |     code{demonoid.hpc}, \code{iterquad}, \code{laplace}, \code{pmc},
       |         ^
File ‘LassoNet/libs/LassoNet.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Running ‘testthat.R’ [12s/41s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(latex2exp)
  > 
  > test_check("latex2exp")
  Saving _problems/test_simple-166.R
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 100 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_simple.R:166:3'): Escaped symbols renders correctly ────────────
  Error in `str_replace_all(., "\\\\['\\$\\{\\}\\[\\]\\!\\?\\_\\^]", function(char) {     str_c("\\ESCAPED@", as.integer(charToRaw(str_replace_fixed(char, "\\", ""))), "{}") })`: `replacement` function must return a vector the same length as the input
  (2), not length 1.
  Backtrace:
       ▆
    1. ├─latex2exp:::expect_renders_same(...) at test_simple.R:166:3
    2. │ └─latex2exp:::.expect_renders(object, expected_expression, negate = FALSE) at ./setup.R:30:3
    3. │   └─latex2exp::TeX(act$val) at ./setup.R:65:5
    4. │     └─latex2exp:::parse_latex(input)
    5. │       └─... %>% ...
    6. ├─stringr::str_replace_all(., "([^\\\\]?)\\\\\\s", "\\1\\\\@SPACE2{}")
    7. │ └─stringr:::check_lengths(string, pattern, replacement)
    8. │   └─vctrs::vec_size_common(...)
    9. ├─stringr::str_replace_all(., "([^\\\\]?)\\\\;", "\\1\\\\@SPACE2{}")
   10. │ └─stringr:::check_lengths(string, pattern, replacement)
   11. │   └─vctrs::vec_size_common(...)
   12. ├─stringr::str_replace_all(., "([^\\\\]?)\\\\,", "\\1\\\\@SPACE1{}")
   13. │ └─stringr:::check_lengths(string, pattern, replacement)
   14. │   └─vctrs::vec_size_common(...)
   15. └─stringr::str_replace_all(...)
   16.   └─stringr:::str_transform_all(string, pattern, replacement)
   17.     └─cli::cli_abort(...)
   18.       └─rlang::abort(...)
  
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 100 ]
  Error:
  ! Test failures.
  Execution halted
Error(s) in re-building vignettes:
--- re-building ‘supported-commands.Rmd’ using rmarkdown
[WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead.
--- finished re-building ‘supported-commands.Rmd’

--- re-building ‘using-latex2exp.Rmd’ using rmarkdown

Quitting from using-latex2exp.Rmd:55-71 [base-plot]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `str_replace_all()`:
! `replacement` function must return a vector the same length as the
  input (2), not length 1.
---
Backtrace:
     ▆
  1. ├─base::plot(...)
  2. ├─graphics::plot.default(...)
  3. ├─latex2exp::TeX("$\\alpha  x^\\alpha$, where $\\alpha \\in \\{1 \\ldots 5\\}$")
  4. │ └─latex2exp:::parse_latex(input)
  5. │   └─... %>% ...
  6. ├─stringr::str_replace_all(., "([^\\\\]?)\\\\\\s", "\\1\\\\@SPACE2{}")
  7. │ └─stringr:::check_lengths(string, pattern, replacement)
  8. │   └─vctrs::vec_size_common(...)
  9. ├─stringr::str_replace_all(., "([^\\\\]?)\\\\;", "\\1\\\\@SPACE2{}")
 10. │ └─stringr:::check_lengths(string, pattern, replacement)
 11. │   └─vctrs::vec_size_common(...)
 12. ├─stringr::str_replace_all(., "([^\\\\]?)\\\\,", "\\1\\\\@SPACE1{}")
 13. │ └─stringr:::check_lengths(string, pattern, replacement)
 14. │   └─vctrs::vec_size_common(...)
 15. └─stringr::str_replace_all(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'using-latex2exp.Rmd' failed with diagnostics:
`replacement` function must return a vector the same length as the input
(2), not length 1.
--- failed re-building ‘using-latex2exp.Rmd’

SUMMARY: processing the following file failed:
  ‘using-latex2exp.Rmd’

Error: Vignette re-building failed.
Execution halted
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘00methods.R’ ‘creg_datalist.R’ ‘creg_input.R’ ‘creg_partable.R’
    ‘creg_startvals.r’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘lay.Rd’
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
File ‘lazyeval/libs/lazyeval.so’:
  Found non-API calls to R: ‘PRENV’, ‘R_PromiseExpr’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Namespace in Imports field not imported from: ‘cli’
  All declared Imports should be used.
Requires orphaned package: ‘extraDistr’
checkRd: (-1) TS_diagnostics_plot.Rd:19: Lost braces
    19 | \item{interactive}{\code{logical} input, should be code{TRUE} unless
       |                                                        ^
checkRd: (-1) plot.TS_fit.Rd:29: Lost braces
    29 | \item{interactive}{\code{logical} input, should be code{TRUE} unless
       |                                                        ^
Namespaces in Imports field not imported from:
  ‘devtools’ ‘reticulate’ ‘tensorflow’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘legendSymbols.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘addCityShape.Rd’ ‘addProvinceShape.Rd’ ‘areaCalculator.R’
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘htmlwidgets’ ‘jsonlite’ ‘sf’
  All declared Imports should be used.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    light.interception.voxels() - This function create the Fraction absorbed incident light
    light.interception.raster() - Create a raster of Fraction absorbed incident light
    light.incident.voxels() - This function create the Fraction incident light
    light.incident.raster() - Create a raster of the Fraction incident light
Namespace in Imports field not imported from: ‘leaflet’
  All declared Imports should be used.
checkRd: (-1) IPODFUN.Rd:18: Lost braces; missing escapes or markup?
    18 |   \item{H}{an N by N projection matrix X(X'X)^{-1}X' }
       |                                               ^
checkRd: (-1) clusterDistance.Rd:28-29: Lost braces
    28 | \code{approach} indicates the algorithm used to get the value. \code{distance} indicates the distance used to get the value. Possible values: {\code{'MAX'},
       |                                                                                                                                               ^
checkRd: (-1) clusterDistance.details.Rd:28-29: Lost braces
    28 | \code{approach} indicates the algorithm used to get the value. \code{distance} indicates the distance used to get the value. Possible values: {\code{'MAX'},
       |                                                                                                                                               ^
checkRd: (-1) clusterDistanceByApproach.Rd:24-25: Lost braces
    24 | \code{approach} indicates the algorithm used to get the value. Possible values: {\code{'MAX'},
       |                                                                                 ^
checkRd: (-1) clusterDistanceByApproach.details.Rd:24-25: Lost braces
    24 | \code{approach} indicates the algorithm used to get the value. Possible values: {\code{'MAX'},
       |                                                                                 ^
checkRd: (-1) S2mu.Rd:18: Lost braces; missing escapes or markup?
    18 | \code{S2mu} computes a estimation of the variance, given a sample {x} with known population mean (denoted by \code{mu}).
       |                                                                   ^
checkRd: (-1) sample.quantile.Rd:20: Lost braces; missing escapes or markup?
    20 | \code{sample.quantile} computes a estimation of different quantiles, given a sample {x}, using order statistics.
       |                                                                                     ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘grab_crosswalk.R’ ‘lehdr.R’
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘letter_value.R’ ‘print_lv.R’
checkRd: (-1) hash_sentiment_slangsd.Rd:28-37: Lost braces
    28 | article{DBLP:journals/corr/Wu-etal16,
       |        ^
checkRd: (-1) hash_sentiment_slangsd.Rd:29: Lost braces; missing escapes or markup?
    29 |   author    = {Liang Wu and Fred Morstatter and Huan Liu},
       |               ^
checkRd: (-1) hash_sentiment_slangsd.Rd:30-31: Lost braces
    30 |   title     = {SlangSD: Building and Using a Sentiment Dictionary of Slang 
       |               ^
checkRd: (-1) hash_sentiment_slangsd.Rd:32: Lost braces; missing escapes or markup?
    32 |   journal   = {CoRR},
       |               ^
checkRd: (-1) hash_sentiment_slangsd.Rd:33: Lost braces; missing escapes or markup?
    33 |   volume    = {abs/1608.05129},
       |               ^
checkRd: (-1) hash_sentiment_slangsd.Rd:34: Lost braces; missing escapes or markup?
    34 |   year      = {2016},
       |               ^
checkRd: (-1) hash_sentiment_slangsd.Rd:35: Lost braces; missing escapes or markup?
    35 |   url       = {http://arxiv.org/abs/1608.05129},
       |               ^
checkRd: (-1) hash_sentiment_slangsd.Rd:36: Lost braces; missing escapes or markup?
    36 |   timestamp = {Wed, 17 Aug 2016 23:32:57 GMT}
       |               ^
checkRd: (-1) sw_python.Rd:32: Lost braces; missing escapes or markup?
    32 | * Neither the name of the {organization} nor the names of its
       |                           ^
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘knitr’ ‘purrr’ ‘rmarkdown’
  All declared Imports should be used.
Found the following HTML validation problems:
lgr.html:1741:1 (AppenderFileRotatingTime.Rd:74): Warning: <a> anchor "method-AppenderFileRotating-new" already defined
lgr.html:1783:1 (AppenderFileRotatingTime.Rd:105): Warning: <a> anchor "method-AppenderFileRotating-rotate" already defined
lgr.html:1868:1 (AppenderFileRotatingTime.Rd:158): Warning: <a> anchor "method-AppenderFileRotating-format" already defined
lgr.html:1882:1 (AppenderFileRotatingTime.Rd:167): Warning: <a> anchor "method-AppenderFileRotating-clone" already defined
checkRd: (-1) isingdata.Rd:14: Lost braces; missing escapes or markup?
    14 |     \item{X}{a 5000-by-100 matrix, each entry is in {-1,1}.}
       |                                                     ^
checkRd: (-1) predict.lb.Rd:16: Escaped LaTeX specials: \$
Namespace in Imports field not imported from: ‘RcppArmadillo’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘curl’ ‘jsonlite’
  All declared Imports should be used.
checkRd: (-1) lx_list_lights.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) lx_list_lights.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) lx_list_lights.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) lx_list_lights.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) likelihood_calculation.Rd:24: Lost braces
    24 | For eqn{i = 1\dots N} independent observations in a vector \var{X}, with individual observations \eqn{x_i}{xi}, and a set of parameter values \eqn{\theta}:
       |        ^
checkRd: (-1) simulated_annealing_algorithm.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulated_annealing_algorithm.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulated_annealing_algorithm.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulated_annealing_algorithm.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulated_annealing_algorithm.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulated_annealing_algorithm.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulated_annealing_algorithm.Rd:27: Lost braces in \itemize; meant \describe ?
Namespaces in Imports field not imported from:
  ‘SnowballC’ ‘data.table’ ‘e1071’ ‘fastmatch’
  All declared Imports should be used.
File ‘linERR/libs/linERR.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘lineup-shiny.Rd’ ‘taggle-shiny.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘auto.R’
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
checkRd: (-1) solveLP.Rd:119: Escaped LaTeX specials: \&
Namespaces in Imports field not imported from:
  ‘itertools’ ‘knitr’ ‘utils’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘list_bind.R’
checkRd: (-1) lstats.liu.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) vcov.liu.Rd:20: Lost braces
    20 | A list of matrix of estimated covariances in the linear Liu regression model for scalar or vector biasing parameter \code{d}{d} is produced. Each list element has row and column names corresponding to the parameter names given by the \code{coef(mod)}. List items are named correspond to values of biasing parameter \eqn{d}{d}.}
       |                                                                                                                             ^
Namespace in Imports field not imported from: ‘e1071’
  All declared Imports should be used.
File ‘ljr/libs/ljr.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) MHDI.Rd:23: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘tesseract’

Requires (indirectly) orphaned package: ‘extraDistr’
Namespace in Imports field not imported from: ‘Matrix’
  All declared Imports should be used.
checkRd: (-1) relLik.Rd:16: Lost braces
    16 | \item{AIC(x), BIC(x) }{The \code{AIC} or ]code{BIC} value of the first model object.}
       |                                               ^
checkRd: (-1) relLik.Rd:17: Lost braces
    17 | \item{AIC(y), BIC(y) }{The \code{AIC} or ]code{BIC} value of the second model object.}
       |                                               ^
checkRd: (-1) bootstrap_pvals.Rd:78: Lost braces; missing escapes or markup?
    78 | $(n_{extreme} + 1) / (B + 1)$.
       |     ^
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘mnormt’
  All declared Imports should be used.
checkRd: (-1) vcov.Rd:20: Lost braces
    20 | A list of matrix of estimated covariances in the linear ridge regression model for scalar or vector biasing parameter \code{K}{K} is produced. Each list element has row and column names corresponding to the parameter names given by the \code{coef(mod)}. List items are named correspond to values of biasing parameter \eqn{K}{K}.}
       |                                                                                                                               ^
Installation failed.
See ‘/data/gannet/ripley/R/packages/tests-clang/lmSubsets.Rcheck/00install.out’ for details.
Namespace in Imports field not imported from: ‘shinyjs’
  All declared Imports should be used.
Found the following significant warnings:
  Warning: SystemRequirements: invalid C++ specification ‘C++’
See ‘/data/gannet/ripley/R/packages/tests-clang/lnmixsurv.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Namespaces in Imports field not imported from:
  ‘purrr’ ‘readr’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘mod_carga_datos.R’ ‘mod_correlacion_utils.R’ ‘mod_dispersion.R’
    ‘mod_distribuciones.R’ ‘mod_distribuciones_fct.R’
    ‘mod_distribuciones_utils.R’ ‘mod_normal_utils.R’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Author
    Maintainer
Namespaces in Imports field not imported from:
  ‘RColorBrewer’ ‘base’ ‘qpdf’
  All declared Imports should be used.
File ‘lobstr/libs/lobstr.so’:
  Found non-API call to R: ‘ATTRIB’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
File ‘localgauss/libs/localgauss.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘checkmate’
  All declared Imports should be used.
checkRd: (-1) mte_tilde_at.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mte_tilde_at.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mte_tilde_at.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mte_tilde_at.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mte_tilde_at.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘locate.R’
Found the following files/directories:
  ‘node-compile-cache’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘bittermelon.R’ ‘lofi.Rd’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘emayili_emailer.R’ ‘login_server.R’
File ‘logisticPCA/libs/logisticPCA.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘logger.R’
Namespace in Imports field not imported from: ‘R6’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘ggplot2’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘utils’
  All declared Imports should be used.
Malformed Description field: should contain one or more complete sentences.
File ‘lorec/libs/lorec.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘base’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ggplot2’ ‘grDevices’ ‘latex2exp’
  All declared Imports should be used.
checkRd: (-1) specialchars.Rd:6: Escaped LaTeX specials: \&
Namespace in Imports field not imported from: ‘Matrix’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘add_plot_labels.Rd’ ‘datasim_helpers.R’ ‘datasim_make.Rd’
    ‘model_eval.R’ ‘model_eval.Rd’ ‘model_plot.R’ ‘model_skeleton.Rd’
    ‘model_values.R’ ‘model_values.Rd’ ‘mosaic_cull_for_do.Rd’ ‘ntiles.R’
    ‘ntiles.Rd’ ‘point_plot.R’ ‘point_plot.Rd’ ‘print.R’
    ‘random_terms.Rd’ ‘regression_summaries.Rd’ ‘sims.R’
    ‘statistical_annotations.Rd’ ‘trials.R’ ‘trials.Rd’ ‘zero_one.Rd’
Namespace in Imports field not imported from: ‘Rdpack’
  All declared Imports should be used.
checkRd: (-1) LS.kalman.Rd:65: Escaped LaTeX specials: \&
checkRd: (-1) spectral.density.Rd:55: Escaped LaTeX specials: \&
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘smr_custom.R’ ‘smr_major.R’ ‘smr_minor.R’
checkRd: (-1) k.Rd:27: Lost braces
    27 |  code{\link{ACSPlan-class}}, 
       |      ^
File ‘ltsa/libs/ltsa.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Found the following notes/warnings:
  SystemRequirements specified C++11: support has been removed
See ‘/data/gannet/ripley/R/packages/tests-clang/lubridate.Rcheck/00install.out’ for details.
* used C compiler: ‘clang version 21.1.8’
Namespace in Imports field not imported from: ‘rpostgis’
  All declared Imports should be used.
checkRd: (-1) Upload_to_db.Rd:43: Lost braces
    43 | lucas]{Connect_to_db}
       |       ^
Namespaces in Imports field not imported from:
  ‘ncdf4’ ‘raster’
  All declared Imports should be used.
checkRd: (-1) LVGP_fit.Rd:47: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) LVGP_fit.Rd:48: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) LVGP_fit.Rd:49: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) LVGP_fit.Rd:50: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) LVGP_fit.Rd:51: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) LVGP_fit.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) LVGP_predict.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) LVGP_predict.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) math_example.Rd:21: Lost braces
    21 | Data are sampled from the modified math function based on the first example in the paper listed in code{references}.
       |                                                                                                        ^
Found the following significant warnings:
  depend_funcs.cpp:127:17: warning: 'is_finite<double>' is deprecated: change arma::is_finite(val) to std::isfinite(val) [-Wdeprecated-declarations]
  depend_funcs.cpp:135:19: warning: 'is_finite<double>' is deprecated: change arma::is_finite(val) to std::isfinite(val) [-Wdeprecated-declarations]
  depend_funcs.cpp:345:17: warning: 'is_finite<double>' is deprecated: change arma::is_finite(val) to std::isfinite(val) [-Wdeprecated-declarations]
  depend_funcs.cpp:354:19: warning: 'is_finite<double>' is deprecated: change arma::is_finite(val) to std::isfinite(val) [-Wdeprecated-declarations]
  depend_funcs.cpp:361:15: warning: 'is_finite<double>' is deprecated: change arma::is_finite(val) to std::isfinite(val) [-Wdeprecated-declarations]
See ‘/data/gannet/ripley/R/packages/tests-clang/lvmcomp.Rcheck/00install.out’ for details.
* used C compiler: ‘clang version 21.1.8’
* used C++ compiler: ‘clang version 21.1.8’
Obsolete C++11 standard request will be ignored
checkRd: (-1) StEM_pcirt.Rd:11: Lost braces; missing escapes or markup?
    11 | \item{response}{N by J matrix containing {0,1,...,M-1} responses, where N is the number of respondents and J is the number of items.}
       |                                          ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘classify.R’ ‘extract.R’ ‘score.R’
Found the following significant warnings:
  Warning: src/Makevars: Unknown C++ standard ‘CXX’ was ignored
See ‘/data/gannet/ripley/R/packages/tests-clang/lwgeom.Rcheck/00install.out’ for details.
* used C++ compiler: ‘clang version 21.1.8’
Running ‘azimuth.R’
  Comparing ‘azimuth.Rout’ to ‘azimuth.Rout.save’ ... OK
  Running ‘dist.R’
  Comparing ‘dist.Rout’ to ‘dist.Rout.save’ ... OK
  Running ‘geod.R’
  Comparing ‘geod.Rout’ to ‘geod.Rout.save’ ... OK
  Running ‘perimeter.R’
  Comparing ‘perimeter.Rout’ to ‘perimeter.Rout.save’ ...9c9
< [1] 176215.7 149266.8 199587.9 375136.8 263512.7
---
> [1] 176214.9 149265.4 199586.8 375137.8 263512.6
12c12
< [1] 176215.7 149266.8 199587.9 375136.8 263512.7
---
> [1] 176214.9 149265.4 199586.8 375137.8 263512.6
  Running ‘testthat.R’
  Comparing ‘testthat.Rout’ to ‘testthat.Rout.save’ ... OK
  Running ‘twkb.R’
  Comparing ‘twkb.Rout’ to ‘twkb.Rout.save’ ... OK
Namespace in Imports field not imported from: ‘R.utils’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ngram’ ‘shinythemes’ ‘topicmodels’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘shinythemes’ ‘topicmodels’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘rlang’ ‘torch’
  All declared Imports should be used.
Codoc mismatches from Rd file 'coalesce.Rd':
coalesce
  Code: function(..., nan = NA)
  Docs: function(...)
  Argument names in code not in docs:
    nan
File ‘magrittr/libs/magrittr.so’:
  Found non-API calls to R: ‘Rf_allocSExp’, ‘SET_PRCODE’, ‘SET_PRENV’,
    ‘SET_PRVALUE’

Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual,
and section ‘Moving into C API compliance’ for issues with the use of
non-API entry points.
Namespace in Imports field not imported from: ‘MASS’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘cli’ ‘nomnoml’
  All declared Imports should be used.
checkRd: (-1) create_terminal_dir.Rd:11: Lost braces; missing escapes or markup?
    11 | the following child folders: {repo_base}/bin/ and {repo_base}/src/. A
       |                              ^
checkRd: (-1) create_terminal_dir.Rd:11: Lost braces; missing escapes or markup?
    11 | the following child folders: {repo_base}/bin/ and {repo_base}/src/. A
       |                                                   ^
checkRd: (-1) full_repo_dir.Rd:11: Lost braces; missing escapes or markup?
    11 | the following child folders: {repo_base}/bin/ and {repo_base}/src/. A
       |                              ^
checkRd: (-1) full_repo_dir.Rd:11: Lost braces; missing escapes or markup?
    11 | the following child folders: {repo_base}/bin/ and {repo_base}/src/. A
       |                                                   ^
checkRd: (-1) manet.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) manet.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) manet.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) manet.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) manet.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) manet.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mixtbern.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mixtbern.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mixtbern.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mixtbern.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mixtbern.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) MangroveTree.Rd:37: Lost braces
    37 |       An object of class \\code{\link[Mangrove]{MangrovePed}}
       |                                ^
checkRd: (-1) manipulateWidget.Rd:113-117: Lost braces in \itemize; meant \describe ?
checkRd: (-1) manipulateWidget.Rd:118-120: Lost braces in \itemize; meant \describe ?
checkRd: (-1) manipulateWidget.Rd:121-123: Lost braces in \itemize; meant \describe ?
checkRd: (-1) manipulateWidget.Rd:124-127: Lost braces in \itemize; meant \describe ?
Running ‘testthat.R’ [12s/30s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(manipulateWidget)
  > 
  > test_check("manipulateWidget")
  Saving _problems/test-on_done-20.R
  Saving _problems/test-on_done-42.R
  [ FAIL 2 | WARN 0 | SKIP 1 | PASS 650 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test-inputs.R:97:1'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-on_done.R:5:5'): onDone / stops the shiny gadget and returns a htmlwidget ──
  <lifecycle_error_deprecated/defunctError/rlang_error/error/condition>
  Error: `with_mock()` was deprecated in testthat 3.2.0 and is now defunct.
  ℹ Please use `with_mocked_bindings()` instead.
  Backtrace:
      ▆
   1. └─testthat::with_mock(...) at test-on_done.R:5:5
   2.   └─lifecycle::deprecate_stop("3.2.0", "with_mock()", "with_mocked_bindings()")
   3.     └─lifecycle:::deprecate_stop0(msg)
   4.       └─rlang::cnd_signal(...)
  ── Error ('test-on_done.R:24:23'): onDone / returns a combined widget if comparison ──
  <lifecycle_error_deprecated/defunctError/rlang_error/error/condition>
  Error: `with_mock()` was deprecated in testthat 3.2.0 and is now defunct.
  ℹ Please use `with_mocked_bindings()` instead.
  Backtrace:
      ▆
   1. ├─base::suppressWarnings(...) at test-on_done.R:24:5
   2. │ └─base::withCallingHandlers(...)
   3. └─testthat::with_mock(...) at test-on_done.R:24:23
   4.   └─lifecycle::deprecate_stop("3.2.0", "with_mock()", "with_mocked_bindings()")
   5.     └─lifecycle:::deprecate_stop0(msg)
   6.       └─rlang::cnd_signal(...)
  
  [ FAIL 2 | WARN 0 | SKIP 1 | PASS 650 ]
  Error:
  ! Test failures.
  Execution halted
checkRd: (-1) EEGwide.Rd:30-33: Lost braces
    30 |   if(requireNamespace("ggplot2")){ 
       |                                  ^
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘dplyr’ ‘rlang’ ‘testthat’
  All declared Imports should be used.
Running ‘colourScale.R’ [14s/36s]
  Running ‘omerc.R’ [21s/62s]
  Running ‘openmap.R’ [107s/327s]
  Running ‘worldMap.R’ [47s/64s]
Running the tests in ‘tests/omerc.R’ failed.
Complete output:
  > options(warn=1)
  > 
  > library('mapmisc')
  Loading required package: terra
  terra 1.8.86
  map images will be cached in  /tmp/RtmpgaCqz6/working_dir/RtmpYUGezR/mapmiscCache
  > data('netherlands')
  > 
  > nldCities = unwrap(nldCities)
  > 
  > 
  > x=nldCities
  > xbox = as.polygons(ext(nldCities), crs = crs(nldCities))
  > 
  > bob=function(angle, ...){
  +   y = project(x, omerc(x, angle, ellipse=FALSE, ...))
  +   nld2 = project(xbox, crs(y))
  +   map.new(nld2)
  +   abline(v=0, col='grey')
  +   abline(h=0, col='grey')
  +   plot(nld2,add=TRUE, lwd=2, lty=3)
  +   plot(ext(y), add=TRUE, col='orange')
  +   plot(y,cex=0.2, col='red',add=TRUE)
  +   text(y,labels=y$name, cex=0.5, col=col2html('blue',0.4))
  +    mtext(paste(angle,collapse=' '),side=3,outer=FALSE,line=-1)
  +    scaleBar(y,'topright')
  +    return(invisible(crs(y)))
  +   
  +  }
  > 
  > 
  > 
  > if(!interactive()) pdf("omerc.pdf")
  > 
  >   par(mfrow=c(3,3))
  > 
  > 
  >   	bob(0)
  >   
  >   bob(89)
  >   
  >   bob(45)
  >   
  >   bob(-45)
  > 
  >   bob(180-45)
  > 
  >   
  >   bob(-180-45, post=-45)
  >   
  >   bob(45, post='north')
  >   bob(45, post='wide')
  >   bob(45, post='tall')
  >   
  >   
  > 
  > 
  > par(mfrow=c(3,2))
  >   bob((-10):10)
  Error in r[i1] : object of type 'S4' is not subsettable
  Calls: bob ... omerc -> mapply -> <Anonymous> -> diff -> diff.default
  Execution halted
Namespace in Imports field not imported from: ‘pbmcapply’
  All declared Imports should be used.
checkRd: (-1) locate_shift.Rd:29: Lost braces
    29 | \code{\link{quickfit}}, code{\link{locator}}
       |                             ^
checkRd: (-1) marcher-package.Rd:14: Lost braces; missing escapes or markup?
    14 | 1. \code{\link{estimate_shift}} {Estimate a range shift process.}
       |                                 ^
checkRd: (-1) marcher-package.Rd:16: Lost braces; missing escapes or markup?
    16 | 2. \code{\link{simulate_shift}} {Simulate a range shift process.}
       |                                 ^
checkRd: (-1) marcher-package.Rd:18: Lost braces; missing escapes or markup?
    18 | 3. \code{\link{plot.shiftfit}} {Visualize a range shift process.}
       |                                ^
checkRd: (-1) marcher-package.Rd:20: Lost braces; missing escapes or markup?
    20 | 4. \code{\link{test_rangeshift}} {Test whether a range shift occurred.}
       |                                  ^
checkRd: (-1) marcher-package.Rd:22: Lost braces; missing escapes or markup?
    22 | 5. \code{\link{test_return}} {Test whether a migration was a return migration.}
       |                              ^
checkRd: (-1) marcher-package.Rd:24: Lost braces; missing escapes or markup?
    24 | 6. \code{\link{test_stopover}} {Test whether a stopover occurred during a migration.}
       |                                ^
checkRd: (-1) quickfit.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) quickfit.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) test_rangeshift.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) test_rangeshift.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) test_rangeshift.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) test_rangeshift.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘data_analysis_descriptive.R’ ‘functions.R’ ‘main.R’
    ‘merge_quality_articles.R’
checkRd: (-1) mma.Rd:67: Escaped LaTeX specials: \&
checkRd: (-1) marima.Rd:28: Lost braces; missing escapes or markup?
    28 | ( if(is.ts(DATA)) { DATA <- as.matrix(data.frame(DATA)) } and a message
       |                   ^
checkRd: (-1) marima.Rd:223: Escaped LaTeX specials: \&
checkRd: (-1) markdownInput.Rd:17: Lost braces
    17 | \item{inputId}{The code{input} slot that will be used to access the value.}
       |                        ^
checkRd: (-1) markdownInput.Rd:35: Lost braces in \enumerate; \value handles \item{}{} directly
checkRd: (-1) markdownInput.Rd:36: Lost braces in \enumerate; \value handles \item{}{} directly
checkRd: (-1) markdownInput.Rd:81-82: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) markdownInput.Rd:84-86: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) markdownInput.Rd:89-90: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) moduleMarkdownInput.Rd:64-65: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) moduleMarkdownInput.Rd:67-69: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) moduleMarkdownInput.Rd:72-73: Lost braces in \enumerate; meant \describe ?
checkRd: (-1) Markovchart.Rd:154: Lost braces
   154 | If either \code{h} or \code{k} have length greater than 1, then the \code{G-value} (weighted average of average cost and cost standard deviation) is calculated for all given values without optimisation. The value of the function in this case is a data frame of class code{Markov_grid} with \code{length(h)*length(k)} number of rows and three columns for \code{h}, \code{k} and the \code{G-value}.
       |                                                                                                                                                                                                                                                                                ^
checkRd: (-1) marqLevAlg-package.Rd:14: Lost braces; missing escapes or markup?
    14 | (GH^{-1}G).
       |     ^
Namespace in Imports field not imported from: ‘softImpute’
  All declared Imports should be used.
checkRd: (-1) focalCompare.Rd:14: Lost braces
    14 | \item{fun}{The function fun should take multiple numbers, and return a single number. For example mean, modal, min or max. It should also accept a na.rm argument (or ignore it, e.g. as one of the 'dots' arguments. For example, length will fail, but function(x, ...){na.omit(length(x))} works. (Specifications from `raster::focal`)}
       |                                                                                                                                                                                                                                                                          ^
checkRd: (-1) hr_levels.Rd:9-12: Lost braces
     9 | kernelBiweight <- function(x, mean = 0, sd = 1) {
       |                                                 ^
checkRd: (-1) hr_levels.Rd:33-36: Lost braces
    33 | kernelCosine <- function(x, mean = 0, sd = 1) {
       |                                               ^
checkRd: (-1) hr_levels.Rd:41-44: Lost braces
    41 | kernelEpanechnikov <- function(x, mean = 0, sd = 1) {
       |                                                     ^
checkRd: (-1) hr_levels.Rd:58-61: Lost braces
    58 | kernelOptCosine <- function(x, mean = 0, sd = 1) {
       |                                                  ^
checkRd: (-1) hr_levels.Rd:65-68: Lost braces
    65 | kernelRectangular <- function(x, mean = 0, sd = 1) {
       |                                                    ^
checkRd: (-1) hr_levels.Rd:72-75: Lost braces
    72 | kernelSquaredCosine <- function(x, mean = 0, sd = 1) {
       |                                                      ^
checkRd: (-1) hr_levels.Rd:79-82: Lost braces
    79 | kernelTriangular <- function(x, mean = 0, sd = 1) {
       |                                                   ^
checkRd: (-1) hr_levels.Rd:86-89: Lost braces
    86 | kernelTricube <- function(x, mean = 0, sd = 1) {
       |                                                ^
checkRd: (-1) hr_levels.Rd:93-96: Lost braces
    93 | kernelTriweight <- function(x, mean = 0, sd = 1) {
       |                                                  ^
checkRd: (-1) hr_levels.Rd:100-103: Lost braces
   100 | kernelUniform <- function(x, mean = 0, sd = 1) {
       |                                                ^
checkRd: (-1) CF2004.Rd:8: Lost braces; missing escapes or markup?
     8 |   \item{X2}{an optional second variable with same length as \code{X}, should the equation be multiple (see Details) {in mm}}
       |                                                                                                                     ^
checkRd: (-1) Rand.index.Rd:22: Lost braces; missing escapes or markup?
    22 | The two vectors \code{x} and \code{y} must have equal length. Given a set \eqn{S} and two partitions \eqn{X} and \eqn{Y} of \eqn{S}, the Rand index is the proportion of pairs of elements in \eqn{S} (out of all pairs) that are either concordant in both \eqn{X} and \eqn{Y} (i.e., they belong to the same member of \eqn{X} and to the same member of \eqn{Y}) or discordant (i.e., not concordant) in both \eqn{X} and {Y}.  
       |                                                                                                                                                                                                                                                                                                                                                                                                                              ^
checkRd: (-1) predict.matchFeat.Rd:21: Lost braces
    21 | The function \code{predict.matchFeat} finds the best matching for new feature vectors relative to an existing set of cluster/class centers. If code{object} results from a call to \code{\link{match.gaussmix}}, the same function is used for prediction (with fixed mean vectors and covariance matrices). In other cases, the function \code{\link{match.template}} is used for prediction. 
       |                                                                                                                                                    ^
checkRd: (-1) Match.Rd:90: Lost braces; missing escapes or markup?
    90 | expression in braces. For example, the condition "{[ab]*}" is equivalent
       |                                                   ^
Namespace in Imports field not imported from: ‘formatR’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘stats’
  All declared Imports should be used.
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
    31 |     {genepos} in the call of \code{Matrix_eQTL_main} function.
       |     ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
    35 |     the data frames \code{snpspos} and {genepos}.
       |                                        ^
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘column_group_by_drop_default.Rd’ ‘context.Rd’ ‘filter_column.Rd’
    ‘filter_row.Rd’ ‘join.Rd’ ‘row_group_by_drop_default.Rd’
Found the following files/directories:
  ‘utilities.R’
checkRd: (-1) MaxentVariableSelection-package.Rd:46: Lost braces; missing escapes or markup?
    46 | \tab Tyberghein L, Verbruggen H, Pauly K, Troupin C, Mineur F and {De Clerck}, O (2012)\cr
       |                                                                   ^
checkRd: (-1) findDescendingTrans.Rd:29: Lost braces
    29 |    Foster, S.D., Hosack, G.R., J. Monk, Lawrence, E., Barrett, N.S., Williams, A. and Przeslawski, P. (2020) Spatially-Balanced Designs for Transect-Based Surveys. Methods in Ecology and Evolution. emph{11}: 95--105
       |                                                                                                                                                                                                           ^
Namespaces in Imports field not imported from:
  ‘effsize’ ‘psych’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘tibble’
  All declared Imports should be used.
checkRd: (-1) SIGMAS.Rd:17: Lost braces; missing escapes or markup?
    17 | Sigmahat =  (Y^{T} Y)/n;
       |                ^
checkRd: (-1) SIGMAS.Rd:18: Lost braces; missing escapes or markup?
    18 | Sigmahat_fit = (Y^{T}  P_fx  Y)/n;
       |                   ^
checkRd: (-1) matpower.Rd:17: Lost braces; missing escapes or markup?
    17 | The function computes M^{power} for a symmetric matrix M. }
       |                         ^
File ‘mbrglm/libs/mbrglm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘MASS’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘Rdpack’ ‘copula’ ‘missMethods’
  All declared Imports should be used.
checkRd: (-1) satisfaction.Rd:28: Lost braces
    28 | Della Valle E (2010) Della Valle E 2010 Analisi Multidimensionale dei Dati: la Qualit\'{a} del Lavoro nelle Cooperative Sociali. 
       |                                                                                        ^
checkRd: (-1) satisfaction.Rd:29: Lost braces
    29 | Unpublished thesis, Seconda Universit\'{a}  degli Studi di Napoli, Capua Italy.
       |                                        ^
Namespaces in Imports field not imported from:
  ‘MASS’ ‘lars’ ‘methods’ ‘parallel’ ‘smoothmest’
  All declared Imports should be used.
File ‘mcclust/libs/mcclust.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
File ‘mcemGLM/libs/mcemGLM.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespace in Imports field not imported from: ‘boot.heterogeneity’
  All declared Imports should be used.
checkRd: (-1) mc.lnOR.Rd:7: Escaped LaTeX specials: \&
checkRd: (-1) MCbound.precalc1.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:19: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:20: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:23: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:24: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:25: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:26: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCbound.precalc1.Rd:27: Lost braces in \itemize; meant \describe ?
checkRd: (-1) MCtest.Rd:39: Escaped LaTeX specials: \#
checkRd: (-1) MCtest.Rd:40: Escaped LaTeX specials: \#
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘summary.mcpmod_simulation.R’
checkRd: (-1) eigp.Rd:34: Escaped LaTeX specials: \&
checkRd: (-1) imcdiag.Rd:50: Escaped LaTeX specials: \&
checkRd: (-1) imcdiag.Rd:52: Escaped LaTeX specials: \&
checkRd: (-1) mc.plot.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) mc.plot.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) mctest.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) mctest.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) omcdiag.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) omcdiag.Rd:41: Escaped LaTeX specials: \&
Requires (indirectly) orphaned package: ‘extraDistr’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Initial version.
checkRd: (-1) mcvis.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mcvis.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) mcvis.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_mdgc.Rd:34: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get_mdgc.Rd:35: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get_mdgc.Rd:36: Lost braces in \itemize; meant \describe ?
checkRd: (-1) get_mdgc.Rd:37: Lost braces in \itemize; meant \describe ?
checkRd: (-1) normalizeWithMA.Rd:19: Lost braces
    19 |         \item{expGroup}{ a \code{vector} of experimental grouping variable such as plate. The length of code{expGroup} must be same as the number of rows of \code{mD}.}
       |                                                                                                             ^
Namespace in Imports field not imported from: ‘glmnet’
  All declared Imports should be used.
checkRd: (-1) mdp_example_forest.Rd:36: Lost braces; missing escapes or markup?
    36 | Let {1, ... S} be the states of the forest. the Sth state being the oldest.
       |     ^
Namespaces in Imports field not imported from:
  ‘MASS’ ‘datasets’ ‘dplyr’ ‘psych’ ‘shiny’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘kableExtra’ ‘knitr’ ‘reshape2’ ‘tidyverse’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘RcppParallel’ ‘rstantools’
  All declared Imports should be used.
checkRd: (-1) bhm.mcmc.Rd:37: Lost braces; missing escapes or markup?
    37 |   where \eqn{N_{ij}} denotes the number of times that the error profile \eqn{i} is cited on a report from hospital {j} and \eqn{y_{ij}} is the corresponding number of times that profile \eqn{i} in hospital \eqn{j} was reported with harm.
       |                                                                                                                    ^
checkRd: (-1) strings-internal.Rd:14: Lost braces
    14 | code{stringPlaceExact}: find location of string, using exact match
       |     ^
checkRd: (-1) strings-internal.Rd:17: Lost braces
    17 | code{stringPlaceFuzzy}: find location of string, using partial match
       |     ^
checkRd: (-1) strings-internal.Rd:19: Lost braces
    19 | code{stringPlace}: find location of string, generic
       |     ^
checkRd: (-1) strings-internal.Rd:21: Lost braces
    21 | code{checkFuzzy}: check for "close" string matches
       |     ^
File ‘MediaK/libs/MediaK.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
checkRd: (-1) MED.Rd:25: Lost braces
    25 | The vector of treatment assignments of length \eqn{n}. Must be coded as \eqn{\{0,1} {{0,1}}.
       |                                                                                     ^
Namespace in Imports field not imported from: ‘dplyr’
  All declared Imports should be used.
Found the following files/directories:
  ‘Data_Correlation.txt’ ‘correlation_FDR_table.txt’
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) Soybean.Rd:15: Escaped LaTeX specials: \#
checkRd: (-1) Soybean.Rd:33: Escaped LaTeX specials: \#
Namespace in Imports field not imported from: ‘Rcpp’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘gt’
  All declared Imports should be used.
checkRd: (-1) CVLasoelacox.Rd:68-69: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) CVLasoelacox.Rd:70-71: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) CVLasoelacox.Rd:72: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) CVLasoelacox.Rd:73: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) CVLasoelacox.Rd:74-76: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) CVLasoelacox.Rd:77-79: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) CVLasoelacox.Rd:80-81: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) CVLasoelacox.Rd:82-85: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) CVLasoelacox.Rd:86-87: Lost braces in \itemize; \value handles \item{}{} directly
Namespace in Imports field not imported from: ‘mvtnorm’
  All declared Imports should be used.
Found the following files/directories:
  ‘cycHumanBloodData.csv’ ‘cycHumanBloodDesign.csv’
  ‘cycMouseLiverProtein.txt’ ‘cycMouseLiverRNA.csv’ ‘cycSimu4h2d.csv’
  ‘cycYeastCycle.csv’ ‘example’
Namespaces in Imports field not imported from:
  ‘e1071’ ‘gbm’ ‘ggplot2’ ‘graphics’ ‘randomForest’
  All declared Imports should be used.
checkRd: (-1) datagenerator.Rd:17: Lost braces; missing escapes or markup?
    17 | Returns data frame with \code{n*K} rows (if \code{n} is a scalar), or \code{sum(n)} rows (if \code{n} is a \code{K}-element vector). The data frame contains columns "y", "x1", \dots, "x_{p-1}" and "group" if \code{family="gaussian"}, \code{"binomial"} or \code{"poisson"}; or contains columns "time", "status", "x1", \dots, "x_{p-1}" and "group" if \code{family="cox"}.
       |                                                                                                                                                                                           ^
checkRd: (-1) datagenerator.Rd:17: Lost braces; missing escapes or markup?
    17 | Returns data frame with \code{n*K} rows (if \code{n} is a scalar), or \code{sum(n)} rows (if \code{n} is a \code{K}-element vector). The data frame contains columns "y", "x1", \dots, "x_{p-1}" and "group" if \code{family="gaussian"}, \code{"binomial"} or \code{"poisson"}; or contains columns "time", "status", "x1", \dots, "x_{p-1}" and "group" if \code{family="cox"}.
       |                                                                                                                                                                                                                                                                                                                                        ^
Namespace in Imports field not imported from: ‘knitr’
  All declared Imports should be used.
checkRd: (-1) asympVar_LinReg.Rd:52: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LinReg.Rd:53: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LinReg.Rd:54: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LinReg.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LinReg.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LogReg.Rd:55: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LogReg.Rd:56: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LogReg.Rd:57: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LogReg.Rd:58: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) asympVar_LogReg.Rd:59: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_gamma_EB.Rd:19: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_gamma_EB.Rd:20: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) get_gamma_EB.Rd:21: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rland.graph.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rland.graph.Rd:28: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rland.graph.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rland.graph.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rland.graph.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rland.graph.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) rland.graph.Rd:33-34: Lost braces in \itemize; \value handles \item{}{} directly
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘metalite_table1_to_rtf.R’
Namespace in Imports field not imported from: ‘progress’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘lmerTest’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘ade4’ ‘dendextend’ ‘ggforce’ ‘ggrepel’ ‘stringr’ ‘tidyverse’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘metaRangePriorityQueue.Rd’ ‘metaRangeProcess.Rd’
Namespace in Imports field not imported from: ‘survival’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘pwr’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘metadat’
  All declared Imports should be used.
Namespace in Imports field not imported from: ‘shinyBS’
  All declared Imports should be used.
Found the following files/directories:
  ‘MetProc_output.pdf’ ‘sample_removed.csv’ ‘sample_retained.csv’
Problems with news in ‘NEWS.md’:
No news entries found.
Namespaces in Imports field not imported from:
  ‘boot’ ‘energy’
  All declared Imports should be used.
Missing dependency on R >= 4.2.0 because package code uses the pipe
  placeholder syntax added in R 4.2.0.
  File(s) using such syntax:
    ‘read_mgi_biotype_conflict_rpt.R’
File ‘MGL/libs/MGL.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Namespaces in Imports field not imported from:
  ‘R6’ ‘reticulate’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘DT’ ‘assertthat’ ‘fmsb’ ‘shinyalert’ ‘tidyr’ ‘writexl’
  All declared Imports should be used.
File ‘mhsmm/libs/mhsmm.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘api.R’ ‘handlers-static.R’ ‘static-assets.Rd’
Namespaces in Imports field not imported from:
  ‘DT’ ‘ggiraph’ ‘ggplot2’ ‘grid’ ‘gtools’ ‘scales’ ‘shinyBS’
  ‘shinyWidgets’ ‘tidyr’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘get_dependencies.R’ ‘micromodal.R’ ‘micromodal.Rd’
    ‘use_micromodal.R’
Namespace in Imports field not imported from: ‘testthat’
  All declared Imports should be used.
Namespaces in Imports field not imported from:
  ‘R6’ ‘curl’ ‘jsonlite’ ‘parallel’ ‘tools’ ‘vctrs’
  All declared Imports should be used.
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘cylinder-bundle-compartment.R’ ‘cylinder-bundle-geometry.R’
    ‘samplers.R’ ‘utils.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘flexImputeModel.R’
Missing dependency on R >= 4.1.0 because package code uses the pipe
  |> or function shorthand \(...) syntax added in R 4.1.0.
  File(s) using such syntax:
    ‘detect_segments.R’ ‘find_best_split.R’ ‘identify_migrations.R’
    ‘utils.R’