'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘acceldata2.RData’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Packages suggested but not available for checking:
  'RGtk2', 'gWidgets2RGtk2'
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Example.jpeg’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Unknown packages ‘HI’, ‘MHadaptive’ in Rd xrefs
checkRd: (-1) ada.Rd:171: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [135s/165s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(admiral)
  > 
  > test_check("admiral")
  [1] "N" "Y" NA 
  [ FAIL 1 | WARN 15 | SKIP 0 | PASS 567 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-derive_joined.R:85'): derive_vars_joined Test 3: by_vars with rename ──
  Error in `filter(dataset, !!filter)`: ℹ In argument: `FADT < TRTSDTM`.
  Caused by error in `<.Date`:
  ! object 'check_tzones' not found
  Backtrace:
       ▆
    1. ├─admiraldev::expect_dfs_equal(...) at test-derive_joined.R:85:2
    2. │ └─diffdf::diffdf(...)
    3. ├─admiral::derive_vars_joined(...)
    4. │ └─admiraldev::filter_if(data_joined, filter_join)
    5. │   ├─dplyr::filter(dataset, !!filter)
    6. │   └─dplyr:::filter.data.frame(dataset, !!filter)
    7. │     └─dplyr:::filter_rows(.data, dots, by)
    8. │       └─dplyr:::filter_eval(dots, mask = mask, error_call = error_call)
    9. │         ├─base::withCallingHandlers(...)
   10. │         └─mask$eval_all_filter(dots, env_filter)
   11. │           └─dplyr (local) eval()
   12. ├─lubridate (local) `<.Date`(FADT, TRTSDTM)
   13. └─base::.handleSimpleError(...)
   14.   └─dplyr (local) h(simpleError(msg, call))
   15.     └─rlang::abort(message, class = error_class, parent = parent, call = error_call)
  
  [ FAIL 1 | WARN 15 | SKIP 0 | PASS 567 ]
  Error: Test failures
  Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘adsl.Rmd’ using rmarkdown
--- finished re-building ‘adsl.Rmd’

--- re-building ‘bds_exposure.Rmd’ using rmarkdown
--- finished re-building ‘bds_exposure.Rmd’

--- re-building ‘bds_finding.Rmd’ using rmarkdown
--- finished re-building ‘bds_finding.Rmd’

--- re-building ‘bds_tte.Rmd’ using rmarkdown
--- finished re-building ‘bds_tte.Rmd’

--- re-building ‘generic.Rmd’ using rmarkdown
--- finished re-building ‘generic.Rmd’

--- re-building ‘higher_order.Rmd’ using rmarkdown
--- finished re-building ‘higher_order.Rmd’

--- re-building ‘imputation.Rmd’ using rmarkdown
--- finished re-building ‘imputation.Rmd’

--- re-building ‘lab_grading.Rmd’ using rmarkdown
--- finished re-building ‘lab_grading.Rmd’

--- re-building ‘occds.Rmd’ using rmarkdown
Quitting from lines 286-292 (occds.Rmd) 
Error: processing vignette ‘occds.Rmd’ failed with diagnostics:
ℹ In argument: `TRTEMFL = case_when(...)`.
Caused by error in `case_when()`:
! Failed to evaluate the left-hand side of formula 2.
Caused by error in `<.POSIXt`:
! object ‘check_tzones’ not found
--- failed re-building ‘occds.Rmd’

--- re-building ‘queries_dataset.Rmd’ using rmarkdown
--- finished re-building ‘queries_dataset.Rmd’

--- re-building ‘visits_periods.Rmd’ using rmarkdown
--- finished re-building ‘visits_periods.Rmd’

SUMMARY: processing the following file failed:
  ‘occds.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘table_AeRobiology’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) BerryMielke.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) BlairLacy.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) Kvalseth.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) consensus.variance.Rd:12: Escaped LaTeX specials: \&
checkRd: (-1) dsquared.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) l.variance.Rd:12: Escaped LaTeX specials: \&
checkRd: (-1) lsquared.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) lsquared.variance.Rd:12: Escaped LaTeX specials: \&
checkRd: (-1) var.variance.Rd:12: Escaped LaTeX specials: \&
checkRd: (-1) adapt.Rd:41: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘RandomFields’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘stuve.pdf’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
checkRd: (-1) ALF.Rd:47: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) optimalfrequency.Rd:29: Escaped LaTeX specials: \$
checkRd: (-1) optimalfrequency.Rd:30: Escaped LaTeX specials: \$
checkRd: (-1) optimalfrequency.Rd:31: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) deshrink.Rd:55: Escaped LaTeX specials: \&
checkRd: (-1) deshrink.Rd:51: Escaped LaTeX specials: \&
checkRd: (-1) plot.mat.Rd:60: Escaped LaTeX specials: \&
checkRd: (-1) plot.wa.Rd:46: Escaped LaTeX specials: \&
checkRd: (-1) predict.prcurve.Rd:5: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘BH-0.05-ListOfGenes.txt’ ‘BH-0.05-VM-ListOfGenes.txt’
  ‘CompleteListOfGenes.txt’ ‘GenesOutOfAnalysis.txt’
  ‘GenesOutOfAnalysis_NotEnoughObs.txt’
  ‘GenesOutOfAnalysis_NullVar.txt’ ‘VM-CompleteListOfGenes.txt’
  ‘bonferroni-0.05-ListOfGenes.txt’
  ‘bonferroni-0.05-VM-ListOfGenes.txt’
checkRd: (-1) AncestryMapper2.0-package.Rd:33: Escaped LaTeX specials: \~
checkRd: (-1) AncestryMapper2.0-package.Rd:38: Escaped LaTeX specials: \~
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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: \_ \_
Error(s) in re-building vignettes:
  ...
--- re-building ‘anomalize_methods.Rmd’ using rmarkdown
--- finished re-building ‘anomalize_methods.Rmd’

--- re-building ‘anomalize_quick_start_guide.Rmd’ using rmarkdown
Quitting from lines 159-171 (anomalize_quick_start_guide.Rmd) 
Error: processing vignette ‘anomalize_quick_start_guide.Rmd’ failed with diagnostics:
ℹ In argument: `date = collapse_index(...)`.
Caused by error in `validate_rounding_nunit()`:
! Rounding with week > 1 is not supported. Use aseconds for arbitrary units.
--- failed re-building ‘anomalize_quick_start_guide.Rmd’

--- re-building ‘forecasting_with_cleaned_anomalies.Rmd’ using rmarkdown
--- finished re-building ‘forecasting_with_cleaned_anomalies.Rmd’

SUMMARY: processing the following file failed:
  ‘anomalize_quick_start_guide.Rmd’

Error: Vignette re-building failed.
Execution halted
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./me.h:122:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  me.c:234:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ape.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following calls to attach():
File ‘apollo/R/apollo_attach.R’:
  attach(as.list(apollo_beta), warn.conflicts = FALSE)
  attach(database, warn.conflicts = FALSE)
  attach(draws, warn.conflicts = FALSE)
  attach(randcoeff, warn.conflicts = FALSE)
  attach(lcpars, warn.conflicts = FALSE)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
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’
Running ‘testthat.R’ [11s/14s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(apyramid)
  > 
  > test_check("apyramid")
  [ FAIL 1 | WARN 1 | SKIP 2 | PASS 72 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (2)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-age-pyramid.R:171'): missing split data are removed before plotting ──
  `age_pyramid(dat, age_group = "AGE", na.rm = FALSE)` produced warnings.
  
  [ FAIL 1 | WARN 1 | SKIP 2 | PASS 72 ]
  Error: Test failures
  Execution halted
checkRd: (-1) AQuadtree-package.Rd:11: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘TDA’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘argon2/libs/argon2.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘argon2/encoding.o’, ‘raw_as_char.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Packages suggested but not available for checking:
  'sfit', 'expectile', 'HaarSeg', 'mpcbs'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘ARTP’
Found the following significant warnings:
  ARTP2_init.c:17:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ARTP2.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
checkRd: (-1) breast_cancer_clean_features.Rd:45: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘asreml’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘asteRiskData’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Unknown package ‘snpar’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  driver.c:114:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  driver.c:161:26: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  driver.c:199:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/audio.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
File ‘audio/libs/audio.so’:
  Found non-API call to R: ‘R_checkActivity’

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

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  Warning: replacing previous import ‘ape::where’ by ‘dplyr::where’ when loading ‘autoGO’
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/autoGO.Rcheck/00install.out’ for details.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘a_intro.Rmd’ using rmarkdown
--- finished re-building ‘a_intro.Rmd’

--- re-building ‘b_analyze-hass-cntry.Rmd’ using rmarkdown
Quitting from lines 101-125 (b_analyze-hass-cntry.Rmd) 
Error: processing vignette ‘b_analyze-hass-cntry.Rmd’ failed with diagnostics:
ℹ In argument: `week_ending > lubridate::ymd("2017-09-10") & ...`.
Caused by error in `>.POSIXt`:
! object ‘check_tzones’ not found
--- failed re-building ‘b_analyze-hass-cntry.Rmd’

--- re-building ‘b_analyze-hass-region.Rmd’ using rmarkdown
--- finished re-building ‘b_analyze-hass-region.Rmd’

--- re-building ‘b_analyze-hass.Rmd’ using rmarkdown
--- finished re-building ‘b_analyze-hass.Rmd’

SUMMARY: processing the following file failed:
  ‘b_analyze-hass-cntry.Rmd’

Error: Vignette re-building failed.
Execution halted
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘lixoftConnectors’
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following files/directories:
  ‘exemplary_input1.txt’ ‘exemplary_input2.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./utilities.h:67:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./utilities.h:68:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./utilities.h:83:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./Ball_omp.h:6:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./Ball_omp.h:7:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./Ball_omp.h:8:36: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  bd_gwas.c:260:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  utilities.c:1438:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  utilities.c:1446:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  utilities.c:1455:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/Ball.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
File ‘Ball/libs/Ball.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘utilities.o’

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.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) barcode.Rd:52: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  init.c:16:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/BART.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Error(s) in re-building vignettes:
  ...
--- re-building ‘baseballr.Rmd’ using rmarkdown
--- finished re-building ‘baseballr.Rmd’

--- re-building ‘ncaa_scraping.Rmd’ using rmarkdown
--- finished re-building ‘ncaa_scraping.Rmd’

--- re-building ‘plotting_statcast.Rmd’ using rmarkdown
--- finished re-building ‘plotting_statcast.Rmd’

--- re-building ‘using_statcast_pitch_data.Rmd’ using rmarkdown
Quitting from lines 38-40 (using_statcast_pitch_data.Rmd) 
Error: processing vignette ‘using_statcast_pitch_data.Rmd’ failed with diagnostics:
HTTP error 404.
--- failed re-building ‘using_statcast_pitch_data.Rmd’

SUMMARY: processing the following file failed:
  ‘using_statcast_pitch_data.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Earlier versions
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘rPython’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) BayesComm-package.Rd:33: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
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: \$
Found the following significant warnings:
  bayesDccGarch.c:48:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  bayesDccGarch.c:110:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  bayesDccGarch.c:172:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/bayesDccGarch.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) pulse_of_the_nation.Rd:10: Escaped LaTeX specials: \$
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
checkRd: (-1) bart.Rd:271: Escaped LaTeX specials: \_
File ‘BayesVarSel/libs/BayesVarSel.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘auxiliaryfuncs.o’

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.
Package suggested but not available for checking: ‘R2BayesX’
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/BayesXsrc.Rcheck/00install.out’ for details.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) create_ThetaMatrix.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) create_ThetaMatrix.Rd:41: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘fabiabreast.txt’
Package suggested but not available for checking: ‘INLA’
checkRd: (-1) tlsce.Rd:51: Escaped LaTeX specials: \_
checkRd: (-1) tlsce.Rd:55: Escaped LaTeX specials: \_
checkRd: (-1) tlsce.Rd:90: Escaped LaTeX specials: \_
checkRd: (-1) tlsce.Rd:93: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) Glendalough.Rd:19: Escaped LaTeX specials: \&
checkRd: (-1) Sluggan.Rd:19: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Packages suggested but not available for checking:
  'kBET', 'lisi', 'dlfUtils'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘dump.txt’
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘beast_plot_toy.pdf’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following files/directories:
  ‘alist.txt’ ‘rpkg’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  load.c:11:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./nanotime.h:6:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./nanotime.h:7:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  mark.c:75:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  mark.c:118:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  mark.c:119:32: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  nanotime.c:61:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  nanotime.c:71:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  process_memory.c:79:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/bench.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘SoDA’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) bgmm-package.Rd:23: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) dotPlot.Rd:56: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) Jeffreysbs.Rd:17: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  rbimax.c:326:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/biclust.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘ffbase’
Package suggested but not available for checking: ‘INLA’
Found the following significant warnings:
  ./lib.h:6:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  lib.c:3:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/bigGP.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
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’.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘rrelaxiv’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘outputs’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./binarizeBASCA.h:37:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  TASC.c:258:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  TASC_min.c:256:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  binarizeBASCA.c:358:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/Binarize.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) BinaryEPPM.Rd:159: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
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’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘msa’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘pointshape.dbf’ ‘pointshape.shp’ ‘pointshape.shx’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘asreml’
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) tocher.Rd:13: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  ./binarizeBASCA.h:37:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  TASC.c:258:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  TASC_min.c:256:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  binarizeBASCA.c:358:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/BiTrinA.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cmdstanr’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) posteriorFeasibility.Rd:25: Escaped LaTeX specials: \#
checkRd: (-1) sp500Returns.Rd:4: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./include/register.h:46:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./include/register.h:75:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./include/register.h:76:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./include/register.h:82:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  globals.c:15:12: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  globals.c:33:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  test.counter.c:26:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  test.counter.c:35:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/bnlearn.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following significant warnings:
  common.c:15:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:9:26: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./random.h:12:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sat_search.c:106:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  symbolic_simulator.c:344:53: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/BoolNet.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
File ‘BoolNet/libs/BoolNet.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘picosat.o’

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.
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Packages suggested but not available for checking: 'cplexAPI', 'bestsubset'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    modules 0.x
'LazyData' is specified without a 'data' directory
checkRd: (-1) bpca.Rd:85: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) bp_rats.Rd:41: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
checkRd: (-1) R2txtJG.Rd:90: Escaped LaTeX specials: \#
Packages suggested but not available for checking: 'RGtk2', 'cairoDevice'
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘cmdstanr’
Package suggested but not available for checking: ‘glmmADMB’
checkRd: (-1) brr-package.Rd:33: Escaped LaTeX specials: \&
Found the following significant warnings:
  BugsHelper.c:76:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  BugsHelper.c:87:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  BugsHelper.c:88:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/BRugs.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Found the following Makefile(s) with an include directive with a pathname using R_HOME:
  src/Makefile.win
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'.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gvcm.cat’
Specified C++11: please update to current default of C++17
Unknown package ‘gvcm.cat’ in Rd xrefs
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) kink_estimator.Rd:60: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘C50/libs/C50.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘getnames.o’, ‘implicitatt.o’, ‘utility.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) deleteZeroComponents.Rd:70: Escaped LaTeX specials: \& \&
Found the following significant warnings:
  cairobem.c:50:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./Rapi.h:9:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./Rapi.h:11:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  cairotalk.c:661:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  cairotalk.c:1552:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  cairotalk.c:1588:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  xlib-backend.c:156:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/Cairo.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ReGenesees’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘campfin-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: all_files_new
> ### Title: Check if all files in a directory are new
> ### Aliases: all_files_new
> 
> ### ** Examples
> 
> tmp <- tempdir()
> file.create(tempfile(pattern = as.character(1:5)))
[1] TRUE TRUE TRUE TRUE TRUE
> all_files_new(tmp)
Error in `==.POSIXt`(file_days, lubridate::today()) : 
  object 'check_tzones' not found
Calls: all_files_new -> ==.POSIXt
Execution halted
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [8s/11s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(campfin)
  > 
  > test_check("campfin")
  [ FAIL 2 | WARN 4 | SKIP 6 | PASS 163 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (6)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-new-files.R:19'): the age of all files in a directory can be checked ──
  Error in ``==.POSIXt`(file_days, lubridate::today())`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. ├─testthat::expect_true(all_files_new(tmp_dir)) at test-new-files.R:19:2
   2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
   3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
   4. └─campfin::all_files_new(tmp_dir)
   5.   └─lubridate (local) `==.POSIXt`(file_days, lubridate::today())
  ── Error ('test-new-files.R:23'): the age of a single file can be checked ──────
  Error in ``==.POSIXt`(mod_day, lubridate::today())`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. ├─testthat::expect_true(this_file_new(tmp_one)) at test-new-files.R:23:2
   2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
   3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
   4. └─campfin::this_file_new(tmp_one)
   5.   └─lubridate (local) `==.POSIXt`(mod_day, lubridate::today())
  
  [ FAIL 2 | WARN 4 | SKIP 6 | PASS 163 ]
  Error: Test failures
  Execution halted
Package suggested but not available for checking: ‘RxODE’
'LazyData' is specified without a 'data' directory
Running examples in ‘camtrapR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: cameraOperation
> ### Title: Create a camera trap station operability matrix
> ### Aliases: cameraOperation
> 
> ### ** Examples
> 
> 
> 
> data(camtraps)
> 
> # no problems/malfunction
> camop_no_problem <- cameraOperation(CTtable      = camtraps,
+                                     stationCol   = "Station",
+                                     setupCol     = "Setup_date",
+                                     retrievalCol = "Retrieval_date",
+                                     writecsv     = FALSE,
+                                     hasProblems  = FALSE,
+                                     dateFormat   = "dmy"
+ )
Error in `<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01")) : 
  object 'check_tzones' not found
Calls: cameraOperation -> <.POSIXt
Execution halted
Running ‘test-all.R’ [28s/38s]
Running the tests in ‘tests/test-all.R’ failed.
Complete output:
  > library(testthat)
  > # test only if exiftool is available
  > if(Sys.which("exiftool") != ""){
  +   test_check("camtrapR")
  + }
  Loading required package: camtrapR
  [ FAIL 3 | WARN 0 | SKIP 0 | PASS 21 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_cameraOperation.R:10'): (code run outside of `test_that()`) ────
  Error in ``<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. └─camtrapR::cameraOperation(...) at test_cameraOperation.R:10:0
   2.   └─lubridate (local) `<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))
  ── Error ('test_detectionHistory.R:9'): (code run outside of `test_that()`) ────
  Error in ``<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. └─camtrapR::cameraOperation(...) at test_detectionHistory.R:9:0
   2.   └─lubridate (local) `<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))
  ── Error ('test_surveyReport.R:24'): (code run outside of `test_that()`) ───────
  Error in ``<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. └─camtrapR::cameraOperation(...) at test_surveyReport.R:24:0
   2.   └─lubridate (local) `<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))
  
  [ FAIL 3 | WARN 0 | SKIP 0 | PASS 21 ]
  Error: Test failures
  Execution halted
Found the following files/directories:
  ‘tmp.txt’
Found the following files/directories:
  ‘MDA231_tree.pdf’
checkRd: (-1) caic-class.Rd:14: Escaped LaTeX specials: \$ \$
checkRd: (-1) caic-class.Rd:15: Escaped LaTeX specials: \$ \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    captr .1.4
    captr .1.3
    captr .1.2
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) States.Rd:48: Escaped LaTeX specials: \$
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘GAMBoost’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘catmapdata.fixed.effects.plot.pdf’ ‘catmapdata.funnel.plot.pdf’
  ‘catmapdata.output.txt’ ‘catmapdata.random.effects.plot.pdf’
checkRd: (-1) belt.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) bipf.Rd:78: Escaped LaTeX specials: \&
checkRd: (-1) crime.Rd:17: Escaped LaTeX specials: \&
checkRd: (-1) da.cat.Rd:61: Escaped LaTeX specials: \&
checkRd: (-1) dabipf.Rd:170: Escaped LaTeX specials: \&
checkRd: (-1) ecm.cat.Rd:77: Escaped LaTeX specials: \&
checkRd: (-1) em.cat.Rd:64: Escaped LaTeX specials: \&
checkRd: (-1) ipf.Rd:74: Escaped LaTeX specials: \&
checkRd: (-1) logpost.cat.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) mda.cat.Rd:67: Escaped LaTeX specials: \&
checkRd: (-1) mi.inference.Rd:140: Escaped LaTeX specials: \&
checkRd: (-1) older.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) prelim.cat.Rd:67: Escaped LaTeX specials: \&
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) tpcExample.Rd:30: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    News about the ccdf R package
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘hotcold.csv’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘CirceR’
Found the following files/directories:
  ‘out.png’ ‘out1.txt’ ‘out2.txt’
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘figure01ceg.pdf’ ‘figure02ceg.pdf’ ‘staged.tree.graph.pdf’
  ‘stratified-event-tree-plot.pdf’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Unexported objects imported by ‘:::’ calls:
  ‘copula:::dCdu’ ‘copula:::fitCopStart’
  See the note in ?`:::` about the use of this operator.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘alr3’
Problems with news in ‘NEWS.md’:
No news entries found.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Major refactoring of the code
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘darts’
'LazyData' is specified without a 'data' directory
Packages required but not available: 'fmcsR', 'ChemmineR'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
checkRd: (-1) hyptis.Rd:31: Escaped LaTeX specials: \&
Found the following files/directories:
  ‘stepres00.txt’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘countreg’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cmdstanr’
Package unavailable to check Rd xrefs: ‘cmdstanr’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘entab’
Error(s) in re-building vignettes:
  ...
--- re-building ‘advanced-topics.Rmd’ using rmarkdown
--- finished re-building ‘advanced-topics.Rmd’

--- re-building ‘maybe-monad.Rmd’ using rmarkdown
--- finished re-building ‘maybe-monad.Rmd’

--- re-building ‘real-world-example.Rmd’ using rmarkdown
Quitting from lines 99-101 (real-world-example.Rmd) 
Error: processing vignette ‘real-world-example.Rmd’ failed with diagnostics:
Must only be used inside data-masking verbs like `mutate()`, `filter()`,
and `group_by()`.
--- failed re-building ‘real-world-example.Rmd’

SUMMARY: processing the following file failed:
  ‘real-world-example.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘userfriendlyscience’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Running examples in ‘circumplex-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: score
> ### Title: Score circumplex scales from item responses
> ### Aliases: score
> 
> ### ** Examples
> 
> data("raw_iipsc")
> instrument("iipsc")
> score(raw_iipsc, IIP01:IIP32, iipsc)
Error in `mutate()`:
ℹ In argument: `PA = (structure(function (..., .x = ..1, .y = ..2, . =
  ..1) ...`.
Caused by error in `dplyr::na_if()`:
! Can't convert `y` <character> to match type of `x` <double>.
Backtrace:
     ▆
  1. ├─circumplex::score(raw_iipsc, IIP01:IIP32, iipsc)
  2. │ └─... %>% dplyr::mutate_all(~ dplyr::na_if(., "NaN"))
  3. ├─dplyr::mutate_all(., ~dplyr::na_if(., "NaN"))
  4. │ ├─dplyr::mutate(.tbl, !!!funs)
  5. │ └─dplyr:::mutate.data.frame(.tbl, !!!funs)
  6. │   └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by)
  7. │     ├─base::withCallingHandlers(...)
  8. │     └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns)
  9. │       └─mask$eval_all_mutate(quo)
 10. │         └─dplyr (local) eval()
 11. ├─circumplex (local) `<inln_cl_>`(PA)
 12. │ └─rlang::eval_bare(`_quo`, base::parent.frame())
 13. ├─dplyr::na_if(., "NaN")
 14. ├─dplyr::na_if(., "NaN")
 15. │ └─vctrs::vec_cast(x = y, to = x, x_arg = "y", to_arg = "x")
 16. └─vctrs (local) `<fn>`()
 17.   └─vctrs::vec_default_cast(...)
 18.     ├─base::withRestarts(...)
 19.     │ └─base (local) withOneRestart(expr, restarts[[1L]])
 20.     │   └─base (local) doWithOneRestart(return(expr), restart)
 21.     └─vctrs::stop_incompatible_cast(...)
 22.       └─vctrs::stop_incompatible_type(...)
 23.         └─vctrs:::stop_incompatible(...)
 24.           └─vctrs:::stop_vctrs(...)
 25.             └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = vctrs_error_call(call))
Execution halted
Running ‘testthat.R’ [19s/22s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(circumplex)
  > 
  > test_check("circumplex")
  [ FAIL 1 | WARN 0 | SKIP 17 | PASS 100 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (13)
  • getRversion() > 4 is TRUE (4)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-tidying_functions.R:29'): score works ──────────────────────────
  <dplyr:::mutate_error/rlang_error/error/condition>
  Error in `mutate(.tbl, !!!funs)`: i In argument: `PA = (structure(function (..., .x = ..1, .y = ..2, . = ..1) ...`.
  Caused by error in `dplyr::na_if()`:
  ! Can't convert `y` <character> to match type of `x` <double>.
  
  [ FAIL 1 | WARN 0 | SKIP 17 | PASS 100 ]
  Error: Test failures
  Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘intermediate-ssm-analysis.Rmd’ using rmarkdown
--- finished re-building ‘intermediate-ssm-analysis.Rmd’

--- re-building ‘introduction-to-ssm-analysis.Rmd’ using rmarkdown
--- finished re-building ‘introduction-to-ssm-analysis.Rmd’

--- re-building ‘using-instruments.Rmd’ using rmarkdown
Quitting from lines 135-137 (using-instruments.Rmd) 
Error: processing vignette ‘using-instruments.Rmd’ failed with diagnostics:
ℹ In argument: `PA = (structure(function (..., .x = ..1, .y = ..2, . =
  ..1) ...`.
Caused by error in `dplyr::na_if()`:
! Can't convert `y` <character> to match type of `x` <double>.
--- failed re-building ‘using-instruments.Rmd’

SUMMARY: processing the following file failed:
  ‘using-instruments.Rmd’

Error: Vignette re-building failed.
Execution halted
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running examples in ‘clarify-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: sim_adrf
> ### Title: Compute an average dose-response function
> ### Aliases: sim_adrf print.clarify_adrf
> 
> ### ** Examples
> 
> data("lalonde", package = "MatchIt")
> 
> # Fit the model
> fit <- glm(I(re78 > 0) ~ treat + age + race + re74,
+            data = lalonde, family = binomial)
> 
> # Simulate coefficients
> set.seed(123)
> s <- sim(fit, n = 100)
> 
> # ADRF for `age`
> est <- sim_adrf(s, var = "age",
+                 at = seq(15, 55, length.out = 6),
+                 verbose = FALSE)
Error in `sim_adrf()`:
! `FUN` failed to run on an initial check with the following error:
'x' and 'w' must have the same length.
Backtrace:
    ▆
 1. └─clarify::sim_adrf(...)
 2.   └─clarify::sim_apply(sim, FUN = FUN, verbose = verbose, cl = cl)
 3.     └─clarify:::.err(...)
 4.       └─chk::err(..., call = pkg_caller_call(start = 2))
 5.         └─rlang::abort(msg, class = .subclass, !!!args[named], call = call)
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘Zelig.Rmd’ using rmarkdown
Quitting from lines 96-98 (Zelig.Rmd) 
Error: processing vignette ‘Zelig.Rmd’ failed with diagnostics:
`FUN` failed to run on an initial check with the following error:
attempt to set an attribute on NULL.
--- failed re-building ‘Zelig.Rmd’

--- re-building ‘clarify.Rmd’ using rmarkdown
Quitting from lines 264-268 (clarify.Rmd) 
Error: processing vignette ‘clarify.Rmd’ failed with diagnostics:
`FUN` failed to run on an initial check with the following error:
attempt to set an attribute on NULL.
--- failed re-building ‘clarify.Rmd’

SUMMARY: processing the following files failed:
  ‘Zelig.Rmd’ ‘clarify.Rmd’

Error: Vignette re-building failed.
Execution halted
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    clhs_0.7-2
    clhs_0.7-0
    clhs_0.6-0
    clhs_0.5-7
    clhs_0.5-6
    clhs_0.5-3
    clhs_0.5-2
    clhs_0.5-1
    clhs_0.5-0
    clhs_0.4-3
    clhs_0.4-2
    clhs_0.4-1
    clhs_0.4-0
    clhs_0.3-2
    clhs_0.3-1
    clhs_0.3-0
    clhs_0.2-1
    clhs_0.2-0
    clhs_0.1-0
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) diagwl.Rd:3: Escaped LaTeX specials: \&
checkRd: (-1) diagwl.Rd:5: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    clinfun (development version)
checkRd: (-1) coxphCPE.Rd:2: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) clme.Rd:84: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./criteria.h:45:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./criteria.h:48:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/clusterCrit.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
File ‘clusterCrit/libs/clusterCrit.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘criteria.o’

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.
checkRd: (-1) genRandomClust.Rd:228: Escaped LaTeX specials: \_
checkRd: (-1) genRandomClust.Rd:259: Escaped LaTeX specials: \_
checkRd: (-1) genRandomClust.Rd:327: Escaped LaTeX specials: \_
checkRd: (-1) plot1DProjection.Rd:95: Escaped LaTeX specials: \_ \_
checkRd: (-1) plot2DProjection.Rd:117: Escaped LaTeX specials: \_ \_
checkRd: (-1) simClustDesign.Rd:235: Escaped LaTeX specials: \_
checkRd: (-1) simClustDesign.Rd:268: Escaped LaTeX specials: \_
checkRd: (-1) simClustDesign.Rd:331: Escaped LaTeX specials: \_
Found the following files/directories:
  ‘clusterhap_reports’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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checkRd: (-1) HINoV.Mod.rd:3: Escaped LaTeX specials: \&
checkRd: (-1) HINoV.Symbolic.rd:3: Escaped LaTeX specials: \&
checkRd: (-1) cluster.Gen.rd:14: Escaped LaTeX specials: \_
checkRd: (-1) cluster.Gen.rd:18: Escaped LaTeX specials: \_
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checkRd: (-1) cluster.Gen.rd:33: Escaped LaTeX specials: \_
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checkRd: (-1) cluster.Gen.rd:36: Escaped LaTeX specials: \_
checkRd: (-1) cluster.Gen.rd:38: Escaped LaTeX specials: \_ \_
checkRd: (-1) cluster.Gen.rd:51: Escaped LaTeX specials: \_
checkRd: (-1) cluster.Gen.rd:52: Escaped LaTeX specials: \_
checkRd: (-1) cluster.Gen.rd:54: Escaped LaTeX specials: \_
checkRd: (-1) cluster.Gen.rd:55: Escaped LaTeX specials: \_
checkRd: (-1) cluster.Gen.rd:62: Escaped LaTeX specials: \$ \_ \_
checkRd: (-1) comparing.Partitions.rd:12: Escaped LaTeX specials: \$ \_ \_
checkRd: (-1) dist.BC.rd:10: Escaped LaTeX specials: \$ \_ \_
checkRd: (-1) dist.GDM.rd:33: Escaped LaTeX specials: \$ \_ \_
checkRd: (-1) dist.SM.rd:10: Escaped LaTeX specials: \$ \_ \_
checkRd: (-1) index.C.rd:11: Escaped LaTeX specials: \$ \_ \_
checkRd: (-1) index.G2.rd:11: Escaped LaTeX specials: \$ \_ \_
checkRd: (-1) index.G3.rd:11: Escaped LaTeX specials: \$ \_ \_
checkRd: (-1) index.H.rd:16: Escaped LaTeX specials: \$ \_ \_
checkRd: (-1) index.S.rd:12: Escaped LaTeX specials: \$ \_ \_
checkRd: (-1) dtmvnom.Rd:30: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  optimal_assignment.c:47:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/clv.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
checkRd: (-1) plot.predict.crrQR.Rd:18: Escaped LaTeX specials: \#
checkRd: (-1) plot.predict.crrQR.Rd:22: Escaped LaTeX specials: \#
checkRd: (-1) plot.predict.crr.Rd:18: Escaped LaTeX specials: \#
checkRd: (-1) plot.predict.crr.Rd:22: Escaped LaTeX specials: \#
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘tobit1’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘PopGenome’
'LazyData' is specified without a 'data' directory
checkRd: (-1) drqssbc.Rd:83: Escaped LaTeX specials: \&
checkRd: (-1) qbsks.Rd:81: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘rkward’
Package which this enhances but not available for checking: ‘rkward’
Package suggested but not available for checking: ‘userfriendlyscience’
Found the following files/directories:
  ‘foo.R’ ‘foo.html’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [7s/8s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(colourvalues)
  > 
  > test_check("colourvalues")
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 521 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-colour_values_hex.R:54'): matrix palette accepted ────────────
  all(...) is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-colour_values_hex.R:66'): matrix palette accepted ────────────
  all(...) is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 521 ]
  Error: Test failures
  Execution halted
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘cometExactTest_plot.pdf’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘CAM’
checkRd: (-1) HouseholdExp.Rd:9: Escaped LaTeX specials: \$
checkRd: (-1) HouseholdExp.Rd:27: Escaped LaTeX specials: \$
checkRd: (-1) mix2compositions.Rd:28: Escaped LaTeX specials: \$
checkRd: (-1) mixRead.Rd:30: Escaped LaTeX specials: \$ \$
checkRd: (-1) mixRead.Rd:31: Escaped LaTeX specials: \$ \$
Found the following significant warnings:

  Warning: 'rgl::rgl.bbox' is deprecated.
  Warning: 'rgl::rgl.bbox' is deprecated.
  Warning: 'rgl::rgl.bbox' is deprecated.
  Warning: 'rgl::rgl.bbox' is deprecated.
  Warning: 'rgl::rgl.viewpoint' is deprecated.
  Warning: 'rgl::rgl.viewpoint' is deprecated.
  Warning: 'rgl::rgl.bbox' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Examples with CPU (user + system) or elapsed time > 5s
                  user system elapsed
SimulatedAmounts 8.037  0.203   9.357
gsiPrinBal       5.410  0.040   5.588
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) babies.Rd:35: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘quickdemo.Rmd’ using rmarkdown
Quitting from lines 38-46 (quickdemo.Rmd) 
Error: processing vignette ‘quickdemo.Rmd’ failed with diagnostics:
ℹ In argument: `his.lag = if_else(...)`.
ℹ In group 1: `ID = 1`.
Caused by error in `nth()`:
! Can't convert `default` <character> to match type of `x` <double>.
--- failed re-building ‘quickdemo.Rmd’

--- re-building ‘selectionbias.Rmd’ using rmarkdown
Quitting from lines 154-164 (selectionbias.Rmd) 
Error: processing vignette ‘selectionbias.Rmd’ failed with diagnostics:
ℹ In argument: `his.lag = if_else(...)`.
ℹ In group 1: `ID = 1001`.
Caused by error in `nth()`:
! Can't convert `default` <character> to match type of `x` <double>.
--- failed re-building ‘selectionbias.Rmd’

SUMMARY: processing the following files failed:
  ‘quickdemo.Rmd’ ‘selectionbias.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘design_names.csv’ ‘design_numbers.csv’
  ‘encoded_orthogonal_factorial_design.csv’
  ‘orthogonal_factorial_design.csv’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'conosPanel', 'p2data'
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) plotMCC.Rd:19: Escaped LaTeX specials: \_
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  brentmin.c:237:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ContaminatedMixt.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'cec2005benchmark', 'cec2013'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) BrownBigrams.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) BrownLOBPassives.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) BrownPassives.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) BrownStats.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) KrennPPV.Rd:19: Escaped LaTeX specials: \&
checkRd: (-1) KrennPPV.Rd:74: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) sgt.Rd:16: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
checkRd: (-1) egde.Rd:26: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) cosmoFns-package.Rd:34: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package required but not available: ‘ctsem’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  bb.c:719:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ibb.c:78:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/countdata.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘covfefe_inauguration.txt’
'LazyData' is specified without a 'data' directory
File ‘CovRegRF/libs/CovRegRF.so’:
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘randomForestSRC.o’

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.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  bcplm.c:84:32: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/cplm.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Non-visible changes:
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘crop.eps’ ‘crop.pdf’ ‘crop.png’ ‘crop.ps’
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Major features
    Minor features
checkRd: (-1) handmovement.Rd:9: Escaped LaTeX specials: \_ \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  init.c:11:47: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ctmcd.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Package required but not available: ‘ctsem’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ctsem.Rcheck/00install.out’ for details.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Hello.csv’
'LazyData' is specified without a 'data' directory
File ‘Cubist/libs/Cubist.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘construct.o’, ‘implicitatt.o’, ‘rules.o’, ‘utility.o’

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.
'LazyData' is specified without a 'data' directory
File ‘curl/libs/curl.so’:
  Found non-API call to R: ‘R_new_custom_connection’

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

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Adjusted_p_values.pdf’ ‘Effect_Size_Curves.pdf’
  ‘Mean_Difference_Curves.pdf’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Misc
checkRd: (-1) abs_d_ppv_npv.Rd:27: Escaped LaTeX specials: \_ \_ \_
Package which this enhances but not available for checking: ‘RGtk2’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages listed in more than one of Depends, Imports, Suggests, Enhances:
  ‘lattice’ ‘robustbase’
A package should be listed in only one of these fields.
Packages which this enhances but not available for checking:
  'gurobi', 'rcbc'
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) dspg.Rd:29: Escaped LaTeX specials: \^ \^
checkRd: (-1) dspgd2015.Rd:31: Escaped LaTeX specials: \^ \^
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘pca3d’
Package suggested but not available for checking: ‘dash’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘dash’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘dash’
Package suggested but not available for checking: ‘dash’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘my new data set.rds’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘stubthat’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Datastream DWE - now decommissioned by Refinitiv
    CRAN
Found the following significant warnings:
  init.c:29:43: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:30:45: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:31:46: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:33:51: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:34:52: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:36:43: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:37:43: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/datastructures.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘msa’
Package suggested but not available for checking: ‘SASxport’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘dblog’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./difeq.h:65:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  difeq.c:123:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./dopri.h:208:36: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  dopri.c:245:36: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/dde.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following files/directories:
  ‘res.pdf’ ‘res1.jpg’
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Changes from previous package DecompHoriuchi
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘smd_table.docx’
checkRd: (-1) lifetable.Rd:15: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
checkRd: (-1) scramb.Rd:44: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
checkRd: (-1) DendSer.Rd:50: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘Rdonlp2’
checkRd: (-1) discrimination.Rd:19: Escaped LaTeX specials: \&
checkRd: (-1) fitdmm.Rd:59: Escaped LaTeX specials: \$
Package suggested but not available for checking: ‘Rdonlp2’
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./deque.h:73:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  constructor.c:43:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  deque.c:31:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  dequer_native.c:9:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/dequer.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
checkRd: (-1) barriers.Rd:127: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
checkRd: (-1) geom_axis.Rd:10: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘RDCOMClient’
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  void_dev.c:103:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  void_dev.c:182:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  void_dev.c:197:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/devoid.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) phihat.Rd:34: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘gurobi’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘rrelaxiv’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) TempDisaggDGP.Rd:79: Escaped LaTeX specials: \&
checkRd: (-1) disaggregate.Rd:56: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘INLA’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) sammy.Rd:51: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘discreteMTP’
Unknown package ‘discreteMTP’ in Rd xrefs
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running examples in ‘disk.frame-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: anti_join.disk.frame
> ### Title: Performs join/merge for disk.frames
> ### Aliases: anti_join.disk.frame full_join.disk.frame
> ###   inner_join.disk.frame left_join.disk.frame semi_join.disk.frame
> 
> ### ** Examples
> 
> df.df = as.disk.frame(data.frame(x = 1:3, y = 4:6), overwrite = TRUE)
> df2.df = as.disk.frame(data.frame(x = 1:2, z = 10:11), overwrite = TRUE)
> 
> anti_joined.df = anti_join(df.df, df2.df) 
Warning in anti_join.disk.frame(df.df, df2.df) :
  merge_by_chunk_id = FALSE. This will take significantly longer and the preparations needed are performed eagerly which may lead to poor performance. Consider making y a data.frame or set merge_by_chunk_id = TRUE for better performance.
Appending disk.frames: 
Appending disk.frames: 
Error in anti_join(.x, .y, by = by, copy = copy, ..., overwrite = overwrite) : 
  `...` must be empty.
✖ Problematic arguments:
• ..1 = xch
• ..2 = ych
• overwrite = overwrite
ℹ Did you forget to name an argument?
Calls: anti_join ... resolve.list -> signalConditionsASAP -> signalConditions
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) booter.Rd:68: Escaped LaTeX specials: \&
checkRd: (-1) ci.booted.Rd:53: Escaped LaTeX specials: \&
checkRd: (-1) pbooter.Rd:57: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./rfftw.h:34:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  rfftw.c:149:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  util.c:231:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./zzz.h:10:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./zzz.h:44:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/diversitree.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘Debian clang version 15.0.6’
Package suggested but not available for checking: ‘BOLTSSIRR’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Changes to previous versions
    Minor changes
    Fixes
    Previous Versions
checkRd: (-1) dlsem.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) unirootTest.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) unirootTest.Rd:20: Escaped LaTeX specials: \&
checkRd: (-1) unirootTest.Rd:26: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) dnr.Rd:12: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) block.catlg.Rd:61: Escaped LaTeX specials: \^ \^
Package which this enhances but not available for checking: ‘gurobi’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following significant warnings:

  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
poly.network 9.372  0.042   9.606
dkmap        7.861  0.091   7.477
angularity   6.487  0.321   7.691
dne          6.607  0.012   6.949
dkcrop       6.172  0.147   5.938
oedist       5.028  0.152   5.425
Found the following calls to attach():
File ‘doParallel/R/doParallel.R’:
  attach(exportEnv)
See section ‘Good practice’ in ‘?attach’.
Found the following significant warnings:
  alive.c:200:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  alive.c:277:7: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/doRedis.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    New features
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following calls to attach():
File ‘doSNOW/R/doSNOW.R’:
  attach(exportEnv)
See section ‘Good practice’ in ‘?attach’.
Package suggested but not available for checking: ‘OpenMPController’
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘myfile.ps’ ‘myfile.svg’
Unknown package ‘broomExtra’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
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: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘drawBox.pdf’ ‘drawCircle.pdf’ ‘drawCurve.pdf’ ‘drawLine.pdf’
  ‘drawPoint.pdf’ ‘drawSettingsExample.pdf’ ‘drawText.pdf’ ‘export.pdf’
'LazyData' is specified without a 'data' directory
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: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: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package required but not available: ‘ChemmineR’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Package required but not available: ‘ChemmineR’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘dsBaseClient’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [21s/26s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(dtplyr)
  > 
  > test_check("dtplyr")
  [ FAIL 1 | WARN 1 | SKIP 25 | PASS 603 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (24)
  • transmuting grouping vars with nesting is not supported (1)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-step-subset-slice.R:122'): slice_*() checks for empty ... ──────
  Error in `slice_head(dt, 5)`: `n` must be explicitly named.
  i Did you mean `slice_head(n = 5)`?
  Backtrace:
      ▆
   1. ├─testthat::expect_error(slice_head(dt, 5), class = "rlib_error_dots_nonempty") at test-step-subset-slice.R:122:2
   2. │ └─testthat:::expect_condition_matching(...)
   3. │   └─testthat:::quasi_capture(...)
   4. │     ├─testthat (local) .capture(...)
   5. │     │ └─base::withCallingHandlers(...)
   6. │     └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
   7. └─dplyr::slice_head(dt, 5)
   8.   └─dplyr:::check_slice_unnamed_n_prop(..., n = n, prop = prop)
   9.     └─rlang::abort(bullets, call = error_call)
  
  [ FAIL 1 | WARN 1 | SKIP 25 | PASS 603 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘cmdstanr’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘lle’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  arms.c:105:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  arms.c:902:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/dynsurv.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    20181118
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘example_table1.csv’ ‘example_table1.txt’ ‘example_table2.csv’
  ‘example_table2.txt’ ‘example_table3.csv’ ‘example_table3.txt’
  ‘table1.csv’ ‘table2.csv’ ‘table2.txt’ ‘table3.txt’ ‘table4.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘easyr-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: atype
> ### Title: Auto-Type
> ### Aliases: atype
> 
> ### ** Examples
> 
> # create some data in all-characters.
> x = data.frame(
+      char = c( 'abc', 'def' ),
+      num = c( '1', '2' ),
+      date = c( '1/1/2018', '2018-2-01' ),
+      na = c( NA, NA ),
+      bool = c( 'TRUE', 'FALSE' ),
+      stringsAsFactors = FALSE
+ )
> 
> # different atype options. Note how the output types change.
> str( atype( x ) )
Error in value[[3L]](cond) : 
  easyr::atype error at column [char] : Error in `<.POSIXt`(test.conversion.char, min.acceptable): object 'check_tzones' not found
Calls: str ... doTryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘gurobi’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    breaking changes
    major changes
    minor changes
    Internal
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  include/ecos_bb.h:161:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ecos_bb/ecos_bb_preproc.c:298:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ecos/include/ecos_bb.h:161:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ECOSolveR.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘filters.Rmd’ using rmarkdown
--- finished re-building ‘filters.Rmd’

--- re-building ‘metrics.Rmd’ using rmarkdown
--- finished re-building ‘metrics.Rmd’

--- re-building ‘queue.Rmd’ using rmarkdown
Quitting from lines 77-79 (queue.Rmd) 
Error: processing vignette ‘queue.Rmd’ failed with diagnostics:
ℹ In argument: `n_queued = map(date, compute_nr_queued, queue =
  queueing_times, level = level)`.
Caused by error in `map()`:
ℹ In index: 1.
Caused by error in `filter()`:
ℹ In argument: `in_queue_since < date`.
Caused by error in `<.POSIXt`:
! object ‘check_tzones’ not found
--- failed re-building ‘queue.Rmd’

--- re-building ‘work_schedules.Rmd’ using rmarkdown
Quitting from lines 102-103 (work_schedules.Rmd) 
Error: processing vignette ‘work_schedules.Rmd’ failed with diagnostics:
ℹ In argument: `s_sensored = pmax(...)`.
Caused by error in `<.POSIXt`:
! object ‘check_tzones’ not found
--- failed re-building ‘work_schedules.Rmd’

SUMMARY: processing the following files failed:
  ‘queue.Rmd’ ‘work_schedules.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    TODO:
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘eval_test_LG_ROC.pdf’ ‘test.pdf’
Package suggested but not available for checking: ‘eggCountsExtra’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./eicm.h:70:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/eicm.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
File ‘eiPack/libs/eiPack.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘eiutil.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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: \_
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  emd-rubner.c:143:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  emd-rubner.c:153:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  emd-rubner.c:640:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/emdist.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘osmar’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./utilities.h:7:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  utilities.c:14:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/emoa.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) encode.character.Rd:22: Escaped LaTeX specials: \~
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘file.path(temp_dir, gp2.csv)’
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Environmental variables.csv’ ‘Inf.txt’ ‘List of species.csv’ ‘Mean
  overlap among taxa.csv’ ‘Overlap among taxa.csv’ ‘Pointsize.dat’
  ‘Polar coordinates.csv’
'LazyData' is specified without a 'data' directory
checkRd: (-1) calibrate.Rd:151: Escaped LaTeX specials: \&
checkRd: (-1) cdfCompareCensored.Rd:299: Escaped LaTeX specials: \&
checkRd: (-1) detectionLimitCalibrate.Rd:149: Escaped LaTeX specials: \&
checkRd: (-1) ecdfPlotCensored.Rd:169: Escaped LaTeX specials: \&
checkRd: (-1) egammaAltCensored.Rd:344: Escaped LaTeX specials: \&
checkRd: (-1) egammaCensored.Rd:340: Escaped LaTeX specials: \&
checkRd: (-1) elnormAltCensored.Rd:694: Escaped LaTeX specials: \&
checkRd: (-1) elnormCensored.Rd:270: Escaped LaTeX specials: \&
checkRd: (-1) enormCensored.Rd:852: Escaped LaTeX specials: \&
checkRd: (-1) enparCensored.Rd:343: Escaped LaTeX specials: \&
checkRd: (-1) enparCensored.Rd:358: Escaped LaTeX specials: \&
checkRd: (-1) epoisCensored.Rd:354: Escaped LaTeX specials: \&
checkRd: (-1) ppointsCensored.Rd:406: Escaped LaTeX specials: \&
checkRd: (-1) predIntGammaSimultaneous.Rd:170: Escaped LaTeX specials: \&
checkRd: (-1) predIntGammaSimultaneous.Rd:171: Escaped LaTeX specials: \&
checkRd: (-1) predIntLnormSimultaneous.Rd:136: Escaped LaTeX specials: \&
checkRd: (-1) predIntLnormSimultaneous.Rd:137: Escaped LaTeX specials: \&
checkRd: (-1) predIntNormSimultaneous.Rd:204: Escaped LaTeX specials: \&
checkRd: (-1) predIntNormSimultaneous.Rd:205: Escaped LaTeX specials: \&
checkRd: (-1) predIntNormSimultaneousK.Rd:277: Escaped LaTeX specials: \&
checkRd: (-1) predIntNormSimultaneousK.Rd:278: Escaped LaTeX specials: \&
checkRd: (-1) qqPlotCensored.Rd:261: Escaped LaTeX specials: \&
checkRd: (-1) twoSampleLinearRankTest.Rd:276: Escaped LaTeX specials: \&
checkRd: (-1) twoSampleLinearRankTestCensored.Rd:324: Escaped LaTeX specials: \&
checkRd: (-1) twoSampleLinearRankTestCensored.Rd:331: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Net1-fromR.inp’
checkRd: (-1) risk.display.rd:98: Escaped LaTeX specials: \$
Package suggested but not available for checking: ‘epidict’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [4s/6s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(epikit)
  > 
  > test_check("epikit")
  [ FAIL 1 | WARN 1 | SKIP 1 | PASS 111 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (1)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-age-categories.R:179'): years alone give years ─────────────────
  Error in `forcats::fct_drop(res, droppings)`: `only` must be a character vector or `NULL`, not a logical vector.
  Backtrace:
      ▆
   1. └─epikit::group_age_categories(df, years = years, one_column = FALSE) at test-age-categories.R:179:2
   2.   └─forcats::fct_drop(only = droppings)
   3.     └─forcats:::check_character(only, allow_null = TRUE)
   4.       └─forcats:::stop_input_type(...)
   5.         └─rlang::abort(message, ..., call = call, arg = arg)
  
  [ FAIL 1 | WARN 1 | SKIP 1 | PASS 111 ]
  Error: Test failures
  Execution halted
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘episcan_1geno_cc.txt’ ‘episcan_1geno_quant.txt’
  ‘episcan_2geno_cc.txt’ ‘episcan_2geno_quant.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘taskscheduleR’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package required but not available: ‘TDA’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘etwfe.Rmd’ using rmarkdown
Quitting from lines 207-216 (etwfe.Rmd) 
Error: processing vignette ‘etwfe.Rmd’ failed with diagnostics:
Problem while computing aesthetics.
ℹ Error occurred in the 2nd layer.
Caused by error in `FUN()`:
! object ‘dydx’ not found
--- failed re-building ‘etwfe.Rmd’

SUMMARY: processing the following file failed:
  ‘etwfe.Rmd’

Error: Vignette re-building failed.
Execution halted
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) calculateGLR.Rd:43: Escaped LaTeX specials: \&
checkRd: (-1) Snoring.Rd:21: Escaped LaTeX specials: \&
Found the following files/directories:
  ‘sample .nwk’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘ExactData’
checkRd: (-1) exams2sakai.Rd:152: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cec2013’
checkRd: (-1) ccF.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) ccF.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) ccF.Rd:29: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) sp500.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) outlierPlot.Rd:30: Escaped LaTeX specials: \$
checkRd: (-1) outlierPlot.Rd:32: Escaped LaTeX specials: \$
Package suggested but not available for checking: ‘exuberdata’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Functions and objects (details)
checkRd: (-1) codePasses.Rd:64: Escaped LaTeX specials: \#
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Bogota.tex’ ‘DogBreeds1.tex’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    minor changes
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  chli.c:5:48: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/fame.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
File ‘fame/R/windows/zzz.R’:
  .onLoad calls:
    packageStartupMessage("FAME environment variable not set; assuming ",     defaultDir)
    packageStartupMessage("FAME directory ", fameDir, " not found.\n",     "If you have FAME installed, specify it's location ", "via the FAME environment variable.\n",     "Otherwise, this package is pretty useless.\n")

See section ‘Good practice’ in ‘?.onAttach’.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./lu.h:44:12: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  lu.c:828:12: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/fastclime.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Found the following files/directories:
  ‘default5.eps’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘coxKM’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  init.c:8:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/fastmap.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘fastmatch/libs/fastmatch.so’:
  Found non-API call to R: ‘match5’

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

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) FastPCS-package.Rd:29: Escaped LaTeX specials: \&
checkRd: (-1) FastPCS.Rd:104: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) Scent.Rd:37: Escaped LaTeX specials: \&
checkRd: (-1) Traffic.Rd:44: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
checkRd: (-1) Lemons.Rd:3: Escaped LaTeX specials: \&
checkRd: (-1) Lemons.Rd:5: Escaped LaTeX specials: \&
.run: no visible binding for global variable ‘init’
.run: no visible global function definition for ‘init’
.run: no visible binding for global variable ‘run’
Undefined global functions or variables:
  init run
Note: information on .o files is not available
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘NNLM’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Error(s) in re-building vignettes:
  ...
--- re-building ‘codebook.Rmd’ using rmarkdown
--- finished re-building ‘codebook.Rmd’

--- re-building ‘continuous.Rmd’ using rmarkdown
Quitting from lines 95-99 (continuous.Rmd) 
Error: processing vignette ‘continuous.Rmd’ failed with diagnostics:
Arguments in `...` must be used.
✖ Problematic arguments:
• ..1 = "var"
• ..2 = "value"
--- failed re-building ‘continuous.Rmd’

--- re-building ‘contrasts.Rmd’ using rmarkdown
--- finished re-building ‘contrasts.Rmd’

--- re-building ‘rnorm_multi.Rmd’ using rmarkdown
--- finished re-building ‘rnorm_multi.Rmd’

--- re-building ‘sim_design.Rmd’ using rmarkdown
--- finished re-building ‘sim_design.Rmd’

--- re-building ‘sim_df.Rmd’ using rmarkdown
--- finished re-building ‘sim_df.Rmd’

SUMMARY: processing the following file failed:
  ‘continuous.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following significant warnings:
  fbati_init.c:35:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  fbati_init.c:36:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  fbati_init.c:37:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  fbati_init.c:39:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  fbati_init.c:50:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  fbati_init.c:51:26: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  fbati_init.c:52:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  fbati_init.c:53:26: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/fbati.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
File ‘fbati/libs/fbati.so’:
  Found ‘sprintf’, possibly from ‘sprintf’ (C)
    Object: ‘fbatdist.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test2delete.txt’ ‘test2delete2_values.txt’ ‘test2delete_values.txt’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘.Rprofile’
Specified C++11: please update to current default of C++17
Unexported objects imported by ‘:::’ calls:
  ‘fdapace:::GCVLwls1D1’ ‘fdapace:::GetSmoothedMeanCurve’
  ‘fdapace:::HandleNumericsAndNAN’ ‘fdapace:::interp2lin’
  See the note in ?`:::` about the use of this operator.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘vert.txt’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘treesAll.txt’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \#
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    New Stuff
'LazyData' is specified without a 'data' directory
checkRd: (-1) fermicatsR.Rd:31: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./f2c.h:185:49: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./f2c.h:186:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./f2c.h:187:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./f2c.h:188:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./f2c.h:189:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./f2c.h:189:38: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./f2c.h:190:35: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./f2c.h:191:42: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./f2c.h:192:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./f2c.h:193:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./f2c.h:194:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./f2c.h:195:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/FGSG.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘MicrobeDS’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
File ‘filehash/libs/filehash.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘hash.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘diveRsity’
Unknown package ‘diveRsity’ in Rd xrefs
Found the following files/directories:
  ‘AH_genepop.txt’ ‘AH_popname.txt’ ‘JSM_MS_freq.txt’
  ‘JSM_MS_genepop.txt’ ‘JSM_genepop_clipped_both.txt’
  ‘JSM_genepop_clipped_maf.txt’ ‘JSM_genepop_clipped_name.txt’
  ‘JSM_mtDNA_freq.txt’ ‘JSM_popname.txt’ ‘result_DJ.csv’
  ‘result_EBDJ.csv’ ‘result_EBFST.csv’ ‘result_EBFST_mtDNA.csv’
  ‘result_EBGstH.csv’ ‘result_GstH.csv’ ‘result_GstN.csv’
  ‘result_GstNC.csv’ ‘result_thetaWCpair.csv’
checkRd: (-1) bitspec.Rd:8: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) fitmixEM.Rd:51: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'benchden', 'reliaR', 'STAR'
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘fivethirtyeightdata’
Package unavailable to check Rd xrefs: ‘fivethirtyeightdata’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) fk_regression.Rd:32: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
checkRd: (-1) flashClust.Rd:92: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
checkRd: (-1) cclust.Rd:78: Escaped LaTeX specials: \&
checkRd: (-1) randIndex.Rd:53: Escaped LaTeX specials: \&
checkRd: (-1) vacmot.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) vacmot.Rd:28: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  float_native.c:40:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  float_native.c:41:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  float_native.c:53:26: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  machine.c:7:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  NA.c:20:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  NA.c:76:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  NA.c:88:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/float.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following files/directories:
  ‘flux.CH4.txt’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) pseudoOptim.Rd:27: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) write.AFNI.Rd:16: Escaped LaTeX specials: \_
checkRd: (-1) write.AFNI.Rd:17: Escaped LaTeX specials: \_
checkRd: (-1) write.AFNI.Rd:20: Escaped LaTeX specials: \_
checkRd: (-1) write.AFNI.Rd:22: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘forceR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: find_strongest_peaks
> ### Title: Find Peaks
> ### Aliases: find_strongest_peaks
> 
> ### ** Examples
> 
> require(dplyr)
Loading required package: dplyr

Attaching package: ‘dplyr’

The following objects are masked from ‘package:stats’:

    filter, lag

The following objects are masked from ‘package:base’:

    intersect, setdiff, setequal, union

> # Using the forceR::df.all.200.tax dataset:
> 
> # reduce dataset
> df.all.200.tax_filtered <- forceR::df.all.200.tax %>%
+   filter(species == "species_A")
> 
> # find strongest peaks
> peaks.df <- find_strongest_peaks(df = df.all.200.tax_filtered,
+                                  no.of.peaks = 5)
Error in `slice()`:
! Arguments in `...` must be passed by position, not name.
✖ Problematic argument:
• n = 1
Backtrace:
    ▆
 1. ├─forceR::find_strongest_peaks(df = df.all.200.tax_filtered, no.of.peaks = 5)
 2. │ └─curr.plot.window %>% slice(n = 1) %>% pull(specimen)
 3. ├─dplyr::pull(., specimen)
 4. ├─dplyr::slice(., n = 1)
 5. └─dplyr:::slice.data.frame(., n = 1)
 6.   └─rlang::check_dots_unnamed()
 7.     └─rlang:::action_dots(...)
 8.       ├─base (local) try_dots(...)
 9.       └─rlang (local) action(...)
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘forceR.Rmd’ using rmarkdown
Quitting from lines 518-523 (forceR.Rmd) 
Error: processing vignette ‘forceR.Rmd’ failed with diagnostics:
Arguments in `...` must be passed by position, not name.
✖ Problematic argument:
• n = 1
--- failed re-building ‘forceR.Rmd’

SUMMARY: processing the following file failed:
  ‘forceR.Rmd’

Error: Vignette re-building failed.
Execution halted
Running examples in ‘forecasteR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: get_start
> ### Title: Get ts start of a time series
> ### Aliases: get_start
> 
> ### ** Examples
> 
> get_start(as.Date("2021-06-30"), 'days', 365)
Error in `==.POSIXt`(dates, ini) : object 'check_tzones' not found
Calls: get_start -> which -> ==.POSIXt
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Previous versions (not tagged nor released)
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'Rsocp', 'Rnlminb2', 'Rdonlp2'
Package suggested but not available for checking: ‘RandomFields’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) MultiAsset.Rd:26: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) CatalogueAccessors.Rd:249: Escaped LaTeX specials: \^ \^
checkRd: (-1) FrF2.Rd:574: Escaped LaTeX specials: \^
checkRd: (-1) FrF2.Rd:629: Escaped LaTeX specials: \^ \^
checkRd: (-1) IAPlot.Rd:87: Escaped LaTeX specials: \$
checkRd: (-1) block.Rd:121: Escaped LaTeX specials: \^
checkRd: (-1) block.Rd:150: Escaped LaTeX specials: \^ \^
checkRd: (-1) blockpick.Rd:114: Escaped LaTeX specials: \^ \^
Packages suggested but not available for checking: 'dggrids', 'INLA'
Unknown package ‘frm’ in Rd xrefs
Unknown package ‘frm’ in Rd xrefs
'LazyData' is specified without a 'data' directory
Running examples in ‘fruclimadapt-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: pollination_weather
> ### Title: Evaluation of weather conditions for pollination on a daily
> ###   series
> ### Aliases: pollination_weather
> 
> ### ** Examples
> 
> 
> # Estimate weather conditions during blooming season using the example
> # datasets included in the package
> library(tidyverse)
── Attaching packages ─────────────────────────────────────── tidyverse 1.3.2 ──
✔ ggplot2 3.4.0     ✔ purrr   1.0.1
✔ tibble  3.1.8     ✔ dplyr   1.1.0
✔ tidyr   1.3.0     ✔ stringr 1.5.0
✔ readr   2.1.3     ✔ forcats 1.0.0
── Conflicts ────────────────────────────────────────── tidyverse_conflicts() ──
✖ dplyr::filter() masks stats::filter()
✖ dplyr::lag()    masks stats::lag()
> library(lubridate)

Attaching package: ‘lubridate’

The following objects are masked from ‘package:base’:

    date, intersect, setdiff, union

> Bloom_BT <- Dates_BT %>% select(Year, sbloom, ebloom)
> Pol_weather_BT <- pollination_weather(Tudela_DW,Bloom_BT,42.13132)
Error in `right_join()`:
! `...` must be empty.
✖ Problematic argument:
• all = TRUE
Backtrace:
     ▆
  1. ├─fruclimadapt::pollination_weather(Tudela_DW, Bloom_BT, 42.13132)
  2. │ └─... %>% ...
  3. ├─dplyr::mutate(...)
  4. ├─dplyr::mutate(., h_wpol = ifelse(Prec >= 2, 0, h_wpol))
  5. ├─dplyr::right_join(., rain, by = "Date", all = TRUE)
  6. └─dplyr:::right_join.data.frame(., rain, by = "Date", all = TRUE)
  7.   └─rlang::check_dots_empty0(...)
  8.     └─rlang::check_dots_empty(call = call)
  9.       └─rlang:::action_dots(...)
 10.         ├─base (local) try_dots(...)
 11.         └─rlang (local) action(...)
Execution halted
Packages suggested but not available for checking:
  'extraTrees', 'foba', 'nodeHarvest', 'obliqueRF', 'relaxo', 'rrlda'
Found the following significant warnings:
  init.c:20:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/FSelectorRcpp.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) mean.fts.Rd:37: Escaped LaTeX specials: \&
checkRd: (-1) median.fts.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) plot.fm.Rd:38: Escaped LaTeX specials: \&
checkRd: (-1) residuals.fm.Rd:21: Escaped LaTeX specials: \&
checkRd: (-1) sd.fts.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) var.fts.Rd:38: Escaped LaTeX specials: \&
checkRd: (-1) Spec_compare_localize_freq.Rd:49: Escaped LaTeX specials: \&
checkRd: (-1) Spec_compare_localize_freq.Rd:52: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘R2BayesX’
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  gamlr.c:87:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:12:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/gamlr.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) LGAclaims.Rd:30: Escaped LaTeX specials: \_
checkRd: (-1) LGAclaims.Rd:34: Escaped LaTeX specials: \_
checkRd: (-1) LGAclaims.Rd:35: Escaped LaTeX specials: \_
checkRd: (-1) LGAclaims.Rd:36: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) GSE.Test.Main.Rd:23: Escaped LaTeX specials: \_
checkRd: (-1) meyer.Rd:11: Escaped LaTeX specials: \&
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘checkdata.csv’ ‘gbmforest.sas’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
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: \&
Package in Depends field not imported from: ‘tools’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
Unexported objects imported by ‘:::’ calls:
  ‘tools:::.Rd_get_argument_names’ ‘tools:::RdTags’ ‘tools:::fetchRdDB’
  See the note in ?`:::` about the use of this operator.
checkRd: (-1) estprops.Rd:40: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘gputools’
Package suggested but not available for checking: ‘paleofire’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following calls to attach():
File ‘g.data/R/g.data.attach.R’:
  attach(NULL, pos, basename(dir))
See section ‘Good practice’ in ‘?attach’.
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gdxrrw’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) plot_summary.Rd:14: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘genderdata’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
checkRd: (-1) SandP500.Rd:4: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following significant warnings:
  init.c:14:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/GenSA.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Found the following significant warnings:
  arms.c:99:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  arms.c:900:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/genscore.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘geofi_datasets.Rmd’ using rmarkdown
--- finished re-building ‘geofi_datasets.Rmd’

--- re-building ‘geofi_joining_attribute_data.Rmd’ using rmarkdown
Quitting from lines 218-242 (geofi_joining_attribute_data.Rmd) 
Error: processing vignette ‘geofi_joining_attribute_data.Rmd’ failed with diagnostics:
Bad Request (HTTP 400).
--- failed re-building ‘geofi_joining_attribute_data.Rmd’

--- re-building ‘geofi_making_maps.Rmd’ using rmarkdown
--- finished re-building ‘geofi_making_maps.Rmd’

--- re-building ‘geofi_spatial_analysis.Rmd’ using rmarkdown
--- finished re-building ‘geofi_spatial_analysis.Rmd’

SUMMARY: processing the following file failed:
  ‘geofi_joining_attribute_data.Rmd’

Error: Vignette re-building failed.
Execution halted
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘geomarocdata’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
File ‘geometry/libs/geometry.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘Rgeometry.o’, ‘global_r.o’, ‘rboxlib_r.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
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’.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) getopt.Rd:60: Escaped LaTeX specials: \#
'LazyData' is specified without a 'data' directory
checkRd: (-1) gexp.Rd:123: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘RGtk2’
Package suggested but not available for checking: ‘condSURV’
checkRd: (-1) estGF.Rd:106: Escaped LaTeX specials: \&
checkRd: (-1) estGF.Rd:107: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    earlier versions
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following assignments to the global environment:
File ‘ggExtra/R/ggMarginalGadget.R’:
  assign(plotname, eval(parse(text = origPlot)), envir = .GlobalEnv)
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) boot_eip.Rd:50: Escaped LaTeX specials: \&
checkRd: (-1) constrained.Rd:93: Escaped LaTeX specials: \&
checkRd: (-1) constrained.Rd:37: Escaped LaTeX specials: \&
Found the following significant warnings:
  Warning: replacing previous import ‘ape::where’ by ‘dplyr::where’ when loading ‘ggmuller’
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ggmuller.Rcheck/00install.out’ for details.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ggOceanMapsData’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    History
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'nlmixr', 'lixoftConnectors'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    * Changes all data options to .data to decrease possibility of column naming overlap
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Win CRAN check results - R Windows
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Pictures_analyzed’ ‘cutoff_vals’ ‘cutoff_vals1’ ‘gina_cran.JPG’
Unknown package ‘IC2’ in Rd xrefs
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) randPIT.Rd:52: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘mlr3proba’
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘cmdstanr’
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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:26: Escaped LaTeX specials: \&
checkRd: (-1) glmulti-class.Rd:26: Escaped LaTeX specials: \&
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.
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./extract_matrix.h:256:5: warning: ignoring return value of function declared with 'nodiscard' attribute [-Wunused-result]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/gmp.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
checkRd: (-1) replace_in_file.Rd:40: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running examples in ‘GNGTools-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: get.ts.ng.mc.df
> ### Title: Get two-sample normal-gamma MC-based data.frame
> ### Aliases: get.ts.ng.mc.df
> 
> ### ** Examples
> 
> my.ts.ng.mc.df <- get.ts.ng.mc.df()
Killed
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) barleyHeights.Rd:18: Escaped LaTeX specials: \&
checkRd: (-1) barleyHeights.Rd:22: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Unexported objects imported by ‘:::’ calls:
  ‘gargle:::secret_can_decrypt’ ‘gargle:::secret_read’
  See the note in ?`:::` about the use of this operator.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Unexported objects imported by ‘:::’ calls:
  ‘gargle:::secret_can_decrypt’ ‘gargle:::secret_read’
  See the note in ?`:::` about the use of this operator.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gvcm.cat’
Specified C++11: please update to current default of C++17
Unknown package ‘gvcm.cat’ in Rd xrefs
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) barplot2.Rd:219: Escaped LaTeX specials: \_
checkRd: (-1) colorpanel.Rd:31: Escaped LaTeX specials: \#
checkRd: (-1) qqnorm.aov.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) venn.Rd:59: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
checkRd: (-1) GPoM.FDLyapu-package.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) Plague.Rd:29: Escaped LaTeX specials: \&
checkRd: (-1) lyapFDGrond.Rd:66: Escaped LaTeX specials: \&
checkRd: (-1) lyapFDGrond.Rd:68: Escaped LaTeX specials: \&
checkRd: (-1) lyapFDGrond.Rd:69: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) mlGraphicalVAR.Rd:79: Escaped LaTeX specials: \~
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Packages suggested but not available for checking:
  'taxstats', 'taxstats1516'
Found the following significant warnings:
  Offset.c:3:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:12:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  omp_diagnose.c:5:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  omp_diagnose.c:18:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/grattan.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Found the following significant warnings:
  init.c:11:46: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/gRc.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
accrualReport: multiple local function definitions for ‘gg’ with
  different formal arguments
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Malformed Description field: should contain one or more complete sentences.
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/groupr.Rcheck/00install.out’ for details.
Malformed Description field: should contain one or more complete sentences.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
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’
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  smolyak.c:58:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  smolyak.c:79:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  smolyak.c:227:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  smolyak.c:477:10: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/gss.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
checkRd: (-1) gsym.point.Rd:143: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘RRprof.out’
checkRd: (-1) GUTS-package.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) GUTS.Rd:201: Escaped LaTeX specials: \&
checkRd: (-1) GUTS.Rd:209: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) luzdat.Rd:21: Escaped LaTeX specials: \~
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following files/directories:
  ‘testdata1.txt’ ‘testdata2.txt’ ‘testdata3.txt’
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Running ‘testthat.R’ [9s/10s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(hablar)
  > test_check("hablar")
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 418 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test.ifs.R:53'): if_else_ ─────────────────────────────────────────
  `if_else_(c(T, F, NA), 1, 1L)` did not throw an error.
  
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 418 ]
  Error: Test failures
  Execution halted
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checkRd: (-1) HWAlr.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) HWAlrPlot.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) HWClr.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) HWClrPlot.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) HWIlr.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) HWf.Rd:25: Escaped LaTeX specials: \&
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checkRd: (-1) hash-accessors.Rd:46: Escaped LaTeX specials: \$
checkRd: (-1) hash-class.Rd:44: Escaped LaTeX specials: \$
checkRd: (-1) hash-class.Rd:45: Escaped LaTeX specials: \$
checkRd: (-1) hash-package.Rd:39: Escaped LaTeX specials: \#
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GNU make is a SystemRequirements.
File ‘haven/libs/haven.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘readstat/spss/readstat_por.o’,
      ‘readstat/stata/readstat_dta_write.o’

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.
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GNU make is a SystemRequirements.
checkRd: (-1) prm09.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) prm09.Rd:26: Escaped LaTeX specials: \&
checkRd: (-1) schools.Rd:18: Escaped LaTeX specials: \&
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'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
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'LazyData' is specified without a 'data' directory
Missing link or links in documentation object ‘define_parameters.Rd’:
  ‘[dplyr:ranking]{dplyr::row_number()}’

See section ‘Cross-references’ in the ‘Writing R Extensions’ manual.
Running examples in ‘helda-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: kmeans_procedure
> ### Title: K-means procedure
> ### Aliases: kmeans_procedure
> ### Keywords: cluster kmeans sizes
> 
> ### ** Examples
> 
> library(dplyr)

Attaching package: ‘dplyr’

The following objects are masked from ‘package:stats’:

    filter, lag

The following objects are masked from ‘package:base’:

    intersect, setdiff, setequal, union

> data <- iris %>% select(Sepal.Length, Sepal.Width, Petal.Length, Petal.Width)
> features <- colnames(data)
> result <- kmeans_procedure(data = data, columns = features, threshold_min = 2, threshold = 10,
+ verbose=FALSE, seed=10)
Error in `between()`:
! Can't combine `x` <table[1d]> and `left` <double>.
Backtrace:
     ▆
  1. ├─helda::kmeans_procedure(...)
  2. │ └─dplyr::between(...)
  3. │   └─vctrs::vec_cast_common(!!!args)
  4. └─vctrs (local) `<fn>`()
  5.   └─vctrs::vec_default_ptype2(...)
  6.     ├─base::withRestarts(...)
  7.     │ └─base (local) withOneRestart(expr, restarts[[1L]])
  8.     │   └─base (local) doWithOneRestart(return(expr), restart)
  9.     └─vctrs::stop_incompatible_type(...)
 10.       └─vctrs:::stop_incompatible(...)
 11.         └─vctrs:::stop_vctrs(...)
 12.           └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = vctrs_error_call(call))
Execution halted
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘synbreed’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) erode.hexbin.Rd:43: Escaped LaTeX specials: \_ \_ \_ \_ \_ \_ \_
'LazyData' is specified without a 'data' directory
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checkRd: (-1) ohio.Rd:104: Escaped LaTeX specials: \&
checkRd: (-1) ohio.Rd:105: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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‘:::’ call which should be ‘::’: ‘ggplot2:::guide_axis’
  See the note in ?`:::` about the use of this operator.
Unexported objects imported by ‘:::’ calls:
  ‘ggplot2:::build_guides’ ‘ggplot2:::scales_list’
  See the note in ?`:::` about the use of this operator.
File ‘hier.part/libs/hier.part.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘gener.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘INLA’
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Package suggested but not available for checking: ‘colorfulVennPlot’
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'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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checkRd: (-1) Snow.Rd:118: Escaped LaTeX specials: \&
checkRd: (-1) Snow.Rd:142: Escaped LaTeX specials: \&
checkRd: (-1) Yeast.Rd:56: Escaped LaTeX specials: \&
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GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘trackr’
Package which this enhances but not available for checking: ‘HadoopStreaming’
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) disc42.Rd:28: Escaped LaTeX specials: \&
checkRd: (-1) discrimination.Rd:31: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘glmmADMB’
checkRd: (-1) Dmean.Rd:62: Escaped LaTeX specials: \&
checkRd: (-1) Dvar.Rd:63: Escaped LaTeX specials: \&
checkRd: (-1) babies.Rd:35: Escaped LaTeX specials: \&
checkRd: (-1) residuals.rsm.Rd:74: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘ROI.plugin.mosek’
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'RGtk2', 'cairoDevice'
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checkRd: (-1) attributes_speclib.Rd:73: Escaped LaTeX specials: \$
checkRd: (-1) get_reflectance.Rd:34: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./useful.h:6:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/hSDM.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
checkRd: (-1) simplePostToHost.Rd:14: Escaped LaTeX specials: \&
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GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘hurricaneexposuredata’
'LazyData' is specified without a 'data' directory
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GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) Trancura9414001.Rd:27: Escaped LaTeX specials: \_
checkRd: (-1) Trancura9414001.Rd:28: Escaped LaTeX specials: \_
checkRd: (-1) hydroPSO.Rd:390: Escaped LaTeX specials: \&
checkRd: (-1) hydroPSO.Rd:408: Escaped LaTeX specials: \&
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checkRd: (-1) SandP500.Rd:4: Escaped LaTeX specials: \&
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checkRd: (-1) palettes.Rd:25: Escaped LaTeX specials: \#
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'LazyData' is specified without a 'data' directory
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Found the following files/directories:
  ‘AIC.txt’ ‘AICc.txt’ ‘IAS.pdf’ ‘IAS2.pdf’ ‘IAS3.pdf’
  ‘P.microlepis-AIC.txt’ ‘P.microlepis-AICc.txt’ ‘P.microlepis-IAS.pdf’
  ‘P.microlepis-IAS2.pdf’ ‘P.microlepis-IAS3.pdf’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘SparkR’
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘icd’
checkRd: (-1) ICEscale.Rd:53: Escaped LaTeX specials: \^
checkRd: (-1) dpwdg.Rd:14: Escaped LaTeX specials: \$
checkRd: (-1) dpwdg.Rd:15: Escaped LaTeX specials: \$
Package suggested but not available for checking: ‘ICBayes’
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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checkRd: (-1) pulmonary.Rd:13: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
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GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘rggobi’
'LazyData' is specified without a 'data' directory
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Package suggested but not available for checking: ‘optiRum’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘IFCdata’
Found the following significant warnings:
  ../inst/include/ut_debug.h:188:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ut_debug.c:102:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ifultools.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
File ‘ifultools/libs/ifultools.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘ut_debug.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
File ‘igraph/libs/igraph.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘core/internal/glpk_support.o’, ‘vendor/uuid/unparse.o’
  Found ‘sprintf’, possibly from ‘sprintf’ (C)
    Object: ‘core/community/spinglass/NetRoutines.o’

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.
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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Package suggested but not available for checking: ‘accdata’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) school23.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) school23.Rd:35: Escaped LaTeX specials: \&
Found the following significant warnings:
  keyplayer-utils.c:24:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/influenceR.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Problems with news in ‘NEWS.md’:
No news entries found.
Package which this enhances but not available for checking: ‘gurobi’
Found the following files/directories:
  ‘c.txt’ ‘rho.txt’ ‘sta.txt’ ‘topo.txt’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    INSPECTumours (development version)
Malformed Title field: should not end in a period.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Error_Estimation_Response_1.tiff’ ‘Error_Estimation_Response_2.tiff’
  ‘Error_Estimation_Response_3.tiff’
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘TDA’
Running examples in ‘interplex-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: as_cmplx
> ### Title: Coerce objects to lists of simplices
> ### Aliases: as_cmplx as_cmplx.default as_cmplx.Rcpp_SimplexTree
> ###   as_cmplx.gudhi.simplex_tree.SimplexTree as_cmplx.igraph
> ###   as_cmplx.network
> 
> ### ** Examples
> 
> # pick the simplicial complex from a TDA filtration object
> t <- 2 * pi * c(0, 1, 3, 6) / 7
> rf <- TDA::ripsFiltration(
+   cbind(x = cos(t), y = sin(t)),
+   maxdimension = 2L, maxscale = 1.7
+ )
Error in loadNamespace(x) : there is no package called ‘TDA’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) Intervals-class.Rd:109: Escaped LaTeX specials: \_
checkRd: (-1) Intervals-class.Rd:110: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:68: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:76: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:77: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:78: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:79: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:81: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:88: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:89: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:90: Escaped LaTeX specials: \_
checkRd: (-1) sgd.Rd:12: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
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'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘surveyspec’
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘iotools/libs/iotools.so’:
  Found non-API calls to R: ‘R_GetConnection’, ‘R_ReadConnection’,
    ‘R_WriteConnection’

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

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘IPEDSuploadables-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: produce_gr_report
> ### Title: Shortcut function with all steps to provide a Graduation Rates
> ###   report
> ### Aliases: produce_gr_report
> 
> ### ** Examples
> 
> ## Don't show: 
> #set temp directory for this example (not necessary for users)
> .old_wd <- setwd(tempdir())
> ## End(Don't show)
> 
> #entire report
> produce_gr_report(gr_students)
Error in `dplyr::union_all()`:
! `x` and `y` are not compatible.
✖ Different number of columns: 5 vs 2.
Backtrace:
     ▆
  1. ├─IPEDSuploadables::produce_gr_report(gr_students)
  2. │ ├─IPEDSuploadables::write_report(...)
  3. │ └─IPEDSuploadables::make_gr_part_E(df, ugender)
  4. │   └─... %>% ...
  5. ├─dplyr::transmute(...)
  6. ├─dplyr::mutate(...)
  7. ├─dplyr::union_all(., data.frame(GRGU011 = integer(), GRGU012 = integer()))
  8. └─dplyr:::union_all.data.frame(., data.frame(GRGU011 = integer(), GRGU012 = integer()))
  9.   └─dplyr:::check_compatible(x, y)
 10.     └─rlang::abort(c("`x` and `y` are not compatible.", compat), call = error_call)
Execution halted
Running ‘testthat.R’ [30s/34s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(IPEDSuploadables)
  This version of IPEDSuploadables has been updated for 
  FALL & WINTER collection of the 2022-2023 reporting cycle.
  Spring updates coming soon.
  If you are in a later cycle or want to capture any bug fixes,
  please update the package.
  > 
  > test_check("IPEDSuploadables")
  [ FAIL 1 | WARN 71 | SKIP 0 | PASS 62 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-part-outputs.R:67'): GR parts produce expected dfs ─────────────
  Error in `dplyr::union_all(., data.frame(GRGU011 = integer(), GRGU012 = integer()))`: `x` and `y` are not compatible.
  ✖ Different number of columns: 5 vs 2.
  Backtrace:
       ▆
    1. ├─testthat::expect_equal(make_gr_part_E(gr_students, TRUE), part_outputs$gr_partE) at test-part-outputs.R:67:2
    2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
    3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
    4. ├─IPEDSuploadables::make_gr_part_E(gr_students, TRUE)
    5. │ └─... %>% ...
    6. ├─dplyr::transmute(...)
    7. ├─dplyr::mutate(...)
    8. ├─dplyr::union_all(., data.frame(GRGU011 = integer(), GRGU012 = integer()))
    9. └─dplyr:::union_all.data.frame(., data.frame(GRGU011 = integer(), GRGU012 = integer()))
   10.   └─dplyr:::check_compatible(x, y)
   11.     └─rlang::abort(c("`x` and `y` are not compatible.", compat), call = error_call)
  
  [ FAIL 1 | WARN 71 | SKIP 0 | PASS 62 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
File ‘iptools/libs/iptools.so’:
  Found ‘sprintf’, possibly from ‘sprintf’ (C)
    Object: ‘asio_bindings.o’

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.
Specified C++11: please update to current default of C++17
checkRd: (-1) constrained.Rd:49: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
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: \&
checkRd: (-1) ir_to_transmittance.Rd:49: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) pine.Rd:20: Escaped LaTeX specials: \&
Found the following significant warnings:
  trace_islasso.c:39:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/islasso.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
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: \$
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
Found the following files/directories:
  ‘RMTplot.pdf’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘gurobi’
Package suggested but not available for checking: ‘locClass’
checkRd: (-1) ivmodel.Rd:74: Escaped LaTeX specials: \&
checkRd: (-1) ivmodelFormula.Rd:79: Escaped LaTeX specials: \&
Packages suggested but not available for checking: 'gurobi', 'cplexAPI'
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
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'.
File ‘JavaGD/libs/JavaGD.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘jGDtalk.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘remMap’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘processR’
Running ‘testthat.R’ [189s/169s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(JSmediation)
  > 
  > test_check("JSmediation")
  Starting 2 test processes
  [ FAIL 1 | WARN 2 | SKIP 1 | PASS 90 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (1)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-compute_indirect_effect_for.R:92'): JSmediation approach is consistent with the {processR} approach (Mod = -1, 0, 1) ──
  <packageNotFoundError/error/condition>
  Error in `loadNamespace(x)`: there is no package called 'processR'
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at test-compute_indirect_effect_for.R:92:2
   2.   └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
   3.     └─base (local) withOneRestart(expr, restarts[[1L]])
   4.       └─base (local) doWithOneRestart(return(expr), restart)
  
  [ FAIL 1 | WARN 2 | SKIP 1 | PASS 90 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    pre-release juicr (2017 - 2021)
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
File ‘kappalab/libs/kappalab.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘core.o’

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.
Found the following files/directories:
  ‘song.wav’ ‘song4karaoke.wav’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Minor Changes
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘rkward’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:

  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Found the following files/directories:
  ‘cld1.Rdata’ ‘main.tex’ ‘myCld.Rdata’ ‘myCld3d.Rdata’ ‘scene.asy’
Found the following files/directories:
  ‘cld1.Rdata’ ‘ld.Rdata’ ‘myCld.Rdata’
Running examples in ‘kmscv-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: kms_cv
> ### Title: K-Means Based Cross-Validation
> ### Aliases: kms_cv
> 
> ### ** Examples
> 
> library(kmscv)
> 
> kms_cv(iris,k = 5,centers = NULL,max_center = 20,alpha = .1,seed = 1)
Warning in kms_cv(iris, k = 5, centers = NULL, max_center = 20, alpha = 0.1,  :
  Dropping 1 columns, numerics are used only.
Error in `map2()`:
ℹ In index: 1.
Caused by error in `dplyr::slice_sample()`:
! `n` must be a round number, not the number 7.6.
Backtrace:
     ▆
  1. └─kmscv::kms_cv(...)
  2.   └─purrr::map2_dfr(...)
  3.     └─purrr::map2(.x, .y, .f, ...)
  4.       └─purrr:::map2_("list", .x, .y, .f, ..., .progress = .progress)
  5.         ├─purrr:::with_indexed_errors(...)
  6.         │ └─base::withCallingHandlers(...)
  7.         ├─purrr:::call_with_cleanup(...)
  8.         └─kmscv (local) .f(.x[[i]], .y[[i]], ...)
  9.           ├─dplyr::slice_sample(.x, n = .y)
 10.           └─dplyr:::slice_sample.data.frame(.x, n = .y)
 11.             └─dplyr:::get_slice_size(n = n, prop = prop, allow_outsize = replace)
 12.               └─dplyr:::check_slice_n_prop(n, prop, error_call = error_call)
 13.                 └─rlang::abort(...)
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Killed after ’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘VARSEDIG’
Unknown package ‘VARSEDIG’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'koRpus.lang.de', 'koRpus.lang.es', 'koRpus.lang.fr',
  'koRpus.lang.it', 'koRpus.lang.nl', 'koRpus.lang.pt',
  'koRpus.lang.ru'

Package which this enhances but not available for checking: ‘rkward’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘KSEA Bar Plot.tiff’ ‘KSEA Kinase Scores.csv’
  ‘KSEA.Merged.Heatmap.png’ ‘Kinase-Substrate Links.csv’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) alphaOnly.Rd:25: Escaped LaTeX specials: \^
checkRd: (-1) alphaOnly.Rd:26: Escaped LaTeX specials: \$
checkRd: (-1) escape.Rd:28: Escaped LaTeX specials: \$
checkRd: (-1) natlongsurv.Rd:28: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘MYSLID.csv’ ‘tabelle.csv’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘laGP/libs/laGP.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘gp_sep.o’

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.
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [51s/63s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(dplyr)
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  > library(lans2r)
  > 
  > test_check("lans2r")
  [ FAIL 4 | WARN 18 | SKIP 0 | PASS 140 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-load-data.R:24'): test that it is possible to load multiple LANS summaries ──
  `... <- NULL` produced warnings.
  ── Failure ('test-load-data.R:43'): test that it is possible to load multiple LANS summaries ──
  `... <- NULL` produced warnings.
  ── Failure ('test-load-data.R:58'): test that it is possible to load multiple LANS summaries ──
  `... <- NULL` produced warnings.
  ── Failure ('test-load-data.R:81'): test that it is possible to load LANS maps ──
  `... <- NULL` produced warnings.
  
  [ FAIL 4 | WARN 18 | SKIP 0 | PASS 140 ]
  Error: Test failures
  Execution halted
checkRd: (-1) LaplaceApproximation.Rd:485: Escaped LaTeX specials: \&
checkRd: (-1) LossMatrix.Rd:115: Escaped LaTeX specials: \&
checkRd: (-1) LossMatrix.Rd:117: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  Warning: replacing previous import ‘dplyr::where’ by ‘imager::where’ when loading ‘LARGB’
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/LARGB.Rcheck/00install.out’ for details.
Found the following significant warnings:
  init.c:19:26: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/largeList.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘example.llo’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘ergm.userterms’
checkRd: (-1) simulate.ergmm.Rd:35: Escaped LaTeX specials: \$
checkRd: (-1) simulate.ergmm.Rd:36: Escaped LaTeX specials: \$
Unknown package ‘ergm.userterms’ in Rd xrefs
GNU make is a SystemRequirements.
Found the following significant warnings:
  init.c:12:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:18:40: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:24:40: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:27:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:51:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/later.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) LKrig.MLE.Rd:114: Escaped LaTeX specials: \$ \$
checkRd: (-1) LKrig.MLE.Rd:115: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following calls to attach():
File ‘lazyData/R/requireData.R’:
  attach(NULL, pos = pos, name = searchDataName)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) goodnessfit.Rd:105: Escaped LaTeX specials: \&
checkRd: (-1) lba.Rd:252: Escaped LaTeX specials: \&
checkRd: (-1) pregnancy.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) pregnancy.Rd:46: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    lcars.0.3.1
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘temp.float.csv’ ‘temp.result.athena.csv’
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  lcopula-init.c:15:50: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/lcopula.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) leaps.Rd:38: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  lemna.c:98:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  lemna.c:109:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  lemna.c:120:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  lemna.c:129:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  lemna.c:138:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/lemna.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./lfe.h:121:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./lfe.h:122:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  utils.c:195:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  utils.c:208:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/lfe.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
File ‘lfe/libs/lfe.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘demean.o’, ‘kaczmarz.o’, ‘utils.o’

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.
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) hydro.Rd:17: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
File ‘LibOPF/libs/LibOPF.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘code/opf_split.o’, ‘code/opf_accuracy.o’,
      ‘code/opf_accuracy4label.o’, ‘code/opf_train.o’,
      ‘code/opf_semi.o’, ‘code/opf_classify.o’, ‘code/opf_learn.o’,
      ‘code/opf_distance.o’, ‘code/opf_info.o’, ‘code/opf_fold.o’,
      ‘code/opf_merge.o’, ‘code/opf_cluster.o’, ‘code/opf_pruning.o’,
      ‘code/opfknn_train.o’, ‘code/opfknn_classify.o’

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.
checkRd: (-1) predict.lb.Rd:16: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
File ‘libstableR/libs/libstableR.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘stable_integration.o’

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.
Specified C++14: please update to current default of C++17
Packages suggested but not available for checking:
  'gWidgets', 'gWidgetsRGtk2', 'RGtk2'
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  init.c:6:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/liGP.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Running examples in ‘lillies-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: lyl_aggregated_range
> ### Title: Life Years Lost at a range of different ages using aggregated
> ###   data.
> ### Aliases: lyl_aggregated_range
> 
> ### ** Examples
> 
> # Load simulated data as example
> data(aggreg_data)
> data(pop_ref)
> 
> # Estimate remaining life expectancy and Life Years
> # Lost after each age from 40 to 89 years and before age 90 years
> lyl_summary_data <- lyl_aggregated_range(data = aggreg_data, age = age,
+                                          rates = rate, weights = new_cases,
+                                          data0 = pop_ref, age0 = age, surv0 = survival,
+                                          age_begin = 40, age_end = 89, tau = 90)
1. Preparing and checking data...
2. Estimate LYL for ages 40-89 years...
3. Almost there...
Error in `dplyr::left_join()`:
! `...` must be empty.
✖ Problematic argument:
• all.x = T
Backtrace:
    ▆
 1. └─lillies::lyl_aggregated_range(...)
 2.   ├─dplyr::mutate(...)
 3.   ├─dplyr::left_join(LYL, ages_onset, by = "age", all.x = T)
 4.   └─dplyr:::left_join.data.frame(LYL, ages_onset, by = "age", all.x = T)
 5.     └─rlang::check_dots_empty0(...)
 6.       └─rlang::check_dots_empty(call = call)
 7.         └─rlang:::action_dots(...)
 8.           ├─base (local) try_dots(...)
 9.           └─rlang (local) action(...)
Execution halted
'LazyData' is specified without a 'data' directory
checkRd: (-1) LIMEcoli.Rd:125: Escaped LaTeX specials: \_
checkRd: (-1) Read.Rd:88: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:92: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:98: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:104: Escaped LaTeX specials: \#
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checkRd: (-1) Read.Rd:106: Escaped LaTeX specials: \# \#
checkRd: (-1) Read.Rd:107: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:108: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:109: Escaped LaTeX specials: \#
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checkRd: (-1) Read.Rd:112: Escaped LaTeX specials: \# \#
checkRd: (-1) Read.Rd:113: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:114: Escaped LaTeX specials: \# \#
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) solveLP.Rd:119: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) lstats.liu.Rd:41: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
checkRd: (-1) MHDI.Rd:23: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) cauchypoly.Rd:39: Escaped LaTeX specials: \_ \_ \_
checkRd: (-1) cauchypoly.Rd:40: Escaped LaTeX specials: \_
checkRd: (-1) normpoly.Rd:38: Escaped LaTeX specials: \_ \_ \_
checkRd: (-1) normpoly.Rd:39: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
checkRd: (-1) lmSubsets-package.Rd:48: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘tTestTable.rda’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Author
    Maintainer
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) SPSloess.Rd:71: Escaped LaTeX specials: \^ \^
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
checkRd: (-1) TrafficFlow.Rd:25: Escaped LaTeX specials: \#
checkRd: (-1) ACS.Rd:13: Escaped LaTeX specials: \$
checkRd: (-1) EmployedACS.Rd:14: Escaped LaTeX specials: \$
checkRd: (-1) HomesForSale.Rd:11: Escaped LaTeX specials: \$
checkRd: (-1) HomesForSaleCA.Rd:11: Escaped LaTeX specials: \$
checkRd: (-1) HomesForSaleCanton.Rd:9: Escaped LaTeX specials: \$
checkRd: (-1) HomesForSaleNY.Rd:11: Escaped LaTeX specials: \$
checkRd: (-1) MustangPrice.Rd:13: Escaped LaTeX specials: \$
checkRd: (-1) MustangPrice.Rd:24: Escaped LaTeX specials: \$
checkRd: (-1) SalaryGender.Rd:9: Escaped LaTeX specials: \$
checkRd: (-1) SandP500.Rd:6: Escaped LaTeX specials: \&
checkRd: (-1) SandP500.Rd:24: Escaped LaTeX specials: \&
checkRd: (-1) SandP500.Rd:27: Escaped LaTeX specials: \&
checkRd: (-1) SandwichAnts.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) SandwichAnts2.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) StockChanges.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) StockChanges.Rd:15: Escaped LaTeX specials: \&
checkRd: (-1) TrafficFlow.Rd:18: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./veclib.h:316:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/logistf.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Found the following significant warnings:

  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Found the following files/directories:
  ‘main.tex’ ‘scene.asy’
'LazyData' is specified without a 'data' directory
checkRd: (-1) butstrap.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) butstrap.nri.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) butstrap.s.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) maxauc.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) maxauc.s.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) nri.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) roc.Rd:47: Escaped LaTeX specials: \&
checkRd: (-1) roc.s.Rd:47: Escaped LaTeX specials: \&
checkRd: (-1) sensspec.Rd:47: Escaped LaTeX specials: \&
checkRd: (-1) sensspec.s.Rd:47: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Model_1.cm’ ‘dambacher.dot’ ‘levins.dot’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘scio’
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  LowRankQP.c:278:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  LowRankQP_init.c:29:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/LowRankQP.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) lpepa.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) lpepa.Rd:51: Escaped LaTeX specials: \&
checkRd: (-1) lpepa.Rd:52: Escaped LaTeX specials: \&
checkRd: (-1) lpepa.Rd:57: Escaped LaTeX specials: \&
checkRd: (-1) lpepa.Rd:90: Escaped LaTeX specials: \&
checkRd: (-1) lpridge.Rd:34: Escaped LaTeX specials: \&
checkRd: (-1) lpridge.Rd:61: Escaped LaTeX specials: \&
checkRd: (-1) lpridge.Rd:65: Escaped LaTeX specials: \&
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'LazyData' is specified without a 'data' directory
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Package suggested but not available for checking: ‘kerdiest’
checkRd: (-1) specialchars.Rd:6: Escaped LaTeX specials: \&
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checkRd: (-1) LS.kalman.Rd:65: Escaped LaTeX specials: \&
checkRd: (-1) spectral.density.Rd:55: Escaped LaTeX specials: \&
File ‘LTRCforests/libs/LTRCforests.so’:
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘LTRCforests.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Missing or unexported object: ‘base::check_tzones’
Running examples in ‘lubridate-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: ymd
> ### Title: Parse dates with *y*ear, *m*onth, and *d*ay components
> ### Aliases: ymd ydm mdy myd dmy dym yq ym my
> ### Keywords: chron
> 
> ### ** Examples
> 
> x <- c("09-01-01", "09-01-02", "09-01-03")
> ymd(x)
[1] "2009-01-01" "2009-01-02" "2009-01-03"
> x <- c("2009-01-01", "2009-01-02", "2009-01-03")
> ymd(x)
[1] "2009-01-01" "2009-01-02" "2009-01-03"
> ymd(090101, 90102)
[1] "2009-01-01" "2009-01-02"
> now() > ymd(20090101)
Error in `>.POSIXt`(now(), ymd(20090101)) : 
  object 'check_tzones' not found
Execution halted
Running ‘testthat.R’ [49s/52s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(lubridate)
  
  Attaching package: 'lubridate'
  
  The following objects are masked from 'package:base':
  
      date, intersect, setdiff, union
  
  > 
  > test_check("lubridate")
  [ FAIL 1 | WARN 0 | SKIP 10 | PASS 3040 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • FIXME: time_length should be same on sides of DST? (1)
  • FIXME: ymd_hms OSz parsing (2)
  • On CRAN (7)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-ops-compare.R:8'): Comparison operators work with POSIX and Date objects ──
  Error in ``==.Date`(ymd("2016-01-03"), ymd_hms("2016-01-03 00:00:00"))`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. ├─testthat::expect_true(ymd("2016-01-03") == ymd_hms("2016-01-03 00:00:00")) at test-ops-compare.R:8:2
   2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
   3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
   4. └─lubridate (local) `==.Date`(ymd("2016-01-03"), ymd_hms("2016-01-03 00:00:00"))
  
  [ FAIL 1 | WARN 0 | SKIP 10 | PASS 3040 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Missing link or links in documentation object ‘cliBrtSunDurFrcPoints.Rd’:
  ‘[rnaturalearth]{rnaturalearth-package}’

See section ‘Cross-references’ in the ‘Writing R Extensions’ manual.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) read.magpie.Rd:20: Escaped LaTeX specials: \_ \_
checkRd: (-1) read.magpie.Rd:23: Escaped LaTeX specials: \_
checkRd: (-1) read.magpie.Rd:35: Escaped LaTeX specials: \_
checkRd: (-1) read.magpie.Rd:36: Escaped LaTeX specials: \_
checkRd: (-1) read.magpie.Rd:65: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:24: Escaped LaTeX specials: \_ \_
checkRd: (-1) write.magpie.Rd:27: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:39: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:40: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:42: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:43: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:70: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Package unavailable to check Rd xrefs: ‘INLA’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) breast_cancer_clean_features.Rd:45: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘RGtk2’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Bug Fixes
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘scrubr’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    To do
Specified C++11: please update to current default of C++17
checkRd: (-1) sw_sfac.Rd:24: Escaped LaTeX specials: \_
checkRd: (-1) Interpolation-class.Rd:41: Escaped LaTeX specials: \#
checkRd: (-1) MareyMap-class.Rd:85: Escaped LaTeX specials: \_
checkRd: (-1) MareyMap-methods.Rd:11: Escaped LaTeX specials: \_ \_ \_ \_
checkRd: (-1) MareyMap-methods.Rd:12: Escaped LaTeX specials: \_
checkRd: (-1) SpeciesMaps-methods.Rd:11: Escaped LaTeX specials: \_
checkRd: (-1) interpolation-methods.Rd:13: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
checkRd: (-1) mma.Rd:67: Escaped LaTeX specials: \&
checkRd: (-1) residuals.rsm.Rd:74: Escaped LaTeX specials: \&
checkRd: (-1) marima.Rd:223: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘flashier’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./matrix_forward_iterator.h:77:19: warning: 'iterator<std::forward_iterator_tag, double>' is deprecated [-Wdeprecated-declarations]
  ./matrix_forward_iterator.h:77:19: warning: 'iterator<std::forward_iterator_tag, int>' is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/MasterBayes.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rrelaxiv’
checkRd: (-1) size_t-class.Rd:6: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
File ‘Matrix/libs/Matrix.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘validity.o’

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.
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘utilities.R’
'LazyData' is specified without a 'data' directory
checkRd: (-1) maxControl.Rd:83: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘map_5.png’ ‘maze_5.html’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cplexAPI’
checkRd: (-1) mc.lnOR.Rd:7: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
checkRd: (-1) MCtest.Rd:39: Escaped LaTeX specials: \#
checkRd: (-1) MCtest.Rd:40: Escaped LaTeX specials: \#
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  chMatrix.c:162:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  mcmcsae_init.c:16:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/mcmcsae.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \&
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Initial version.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) glass.Rd:23: Escaped LaTeX specials: \_ \_ \_
checkRd: (-1) glass.Rd:24: Escaped LaTeX specials: \_ \_ \_ \_
checkRd: (-1) glass.Rd:25: Escaped LaTeX specials: \_ \_ \_
checkRd: (-1) glass.Rd:26: Escaped LaTeX specials: \_ \_ \_ \_
checkRd: (-1) pBED.Rd:34: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./threat-safe-random.h:58:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./threat-safe-random.h:70:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/mdgc.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘RGtk2’
'LazyData' is specified without a 'data' directory
Running examples in ‘MDP2-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: convertBinary2HMP
> ### Title: Convert a HMDP model stored in binary format to a 'hmp' (XML)
> ###   file. The function simply parse the binary files and create 'hmp'
> ###   files using the 'hmpMDPWriter()'.
> ### Aliases: convertBinary2HMP
> 
> ### ** Examples
> 
> ## Set working dir
> wd <- setwd(system.file("models", package = "MDP2"))
> 
> ## Convert the machine example to a hmp file
> prefix1 <- "machine1_"
> getBinInfoStates(prefix1)
# A tibble: 14 × 3
     sId stageStr label      
   <dbl> <chr>    <chr>      
 1     0 0,0      Dummy      
 2     1 1,0      good       
 3     2 1,1      average    
 4     3 2,0      good       
 5     4 2,1      average    
 6     5 2,2      not working
 7     6 3,0      good       
 8     7 3,1      average    
 9     8 3,2      not working
10     9 3,3      replaced   
11    10 4,0      good       
12    11 4,1      average    
13    12 4,2      not working
14    13 4,3      replaced   
> convertBinary2HMP(prefix1, duration = NULL)
Warning in write_xml.xml_document(doc, file) :
  Read-only file syste [1538]
Warning in write_xml.xml_document(doc, file) :
  Read-only file syste [1538]
Error in write_xml.xml_document(doc, file) : Error closing file
Calls: convertBinary2HMP ... <Anonymous> -> <Anonymous> -> write_xml.xml_document
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) mriTest.Rd:9: Escaped LaTeX specials: \&
checkRd: (-1) riTest.Rd:9: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘MethylCapSig’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) mebootSpear.Rd:88: Escaped LaTeX specials: \_
checkRd: (-1) ullwan.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) ullwan.Rd:8: Escaped LaTeX specials: \& \$
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Data_Correlation.txt’ ‘correlation_FDR_table.txt’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  pspp-system-for-R.c:34:39: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  pspp-system-for-R.c:1291:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/memisc.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘memo/libs/memo.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘getPointer.o’

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.
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: \#
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘genuMet’
'LazyData' is specified without a 'data' directory
Running examples in ‘metacore-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: check_inconsistent_labels
> ### Title: Optional checks to consistency of metadata
> ### Aliases: check_inconsistent_labels check_inconsistent_types
> ###   check_inconsistent_formats
> 
> ### ** Examples
> 
> ## EXAMPLE WITH DUPLICATES
> # Loads in a metacore obj called metacore
> load(metacore_example("pilot_ADaM.rda"))
> check_inconsistent_labels(metacore)
Error in `mutate()`:
ℹ In argument: `across(...)`.
ℹ In group 3: `var1 = "CHG"`.
Caused by error in `across()`:
! Can't compute column `variable`.
Caused by error in `dplyr_internal_error()`:
Backtrace:
     ▆
  1. ├─metacore::check_inconsistent_labels(metacore)
  2. │ └─metacore:::basic_check(label, metacore)
  3. │   └─... %>% select(variable = var1, everything())
  4. ├─dplyr::select(., variable = var1, everything())
  5. ├─dplyr::summarise(...)
  6. ├─dplyr::group_by(...)
  7. ├─dplyr::mutate(...)
  8. ├─dplyr:::mutate.data.frame(...)
  9. │ └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by)
 10. │   ├─base::withCallingHandlers(...)
 11. │   └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns)
 12. │     ├─base::withCallingHandlers(...)
 13. │     └─mask$eval_all_mutate(quo)
 14. │       └─dplyr (local) eval()
 15. └─dplyr:::dplyr_internal_error("dplyr:::mutate_incompatible_size", `<named list>`)
 16.   └─rlang::abort(class = c(class, "dplyr:::internal_error"), dplyr_error_data = data)
Execution halted
Found the following files/directories:
  ‘cycHumanBloodData.csv’ ‘cycHumanBloodDesign.csv’
  ‘cycMouseLiverProtein.txt’ ‘cycMouseLiverRNA.csv’ ‘cycSimu4h2d.csv’
  ‘cycYeastCycle.csv’ ‘example’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) dslp.Rd:11: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) cardiac.Rd:15: Escaped LaTeX specials: \&
checkRd: (-1) plvol.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) sbp.Rd:16: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘MetProc_output.pdf’ ‘sample_removed.csv’ ‘sample_retained.csv’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    mev v.1.9x
    mev v.1.8x
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    First release of mfe:
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  matrix.c:172:26: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/mgcv.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘structSSI’
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Package unavailable to check Rd xrefs: ‘DAPAR’
Specified C++11: please update to current default of C++17
checkRd: (-1) IPDNa.Rd:42: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./do_nothing.h:4:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  do_nothing.c:11:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:7:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  nanotimer.c:88:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/microbenchmark.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘microcontax.data’
Package unavailable to check Rd xrefs: ‘microcontax.data’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) AKMCS.Rd:215: Escaped LaTeX specials: \&
checkRd: (-1) BMP.Rd:164: Escaped LaTeX specials: \&
checkRd: (-1) IRW.Rd:144: Escaped LaTeX specials: \&
checkRd: (-1) IRW.Rd:151: Escaped LaTeX specials: \&
checkRd: (-1) MP.Rd:142: Escaped LaTeX specials: \&
checkRd: (-1) MetropolisHastings.Rd:58: Escaped LaTeX specials: \&
checkRd: (-1) SubsetSimulation.Rd:152: Escaped LaTeX specials: \&
checkRd: (-1) oscillator_d6.Rd:14: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) SLD.Rd:20: Escaped LaTeX specials: \&
Package which this enhances but not available for checking: ‘AnalyzeFMRI’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Bug Fix
    Update Vignettes
    Function Optimizing
    New Functions
    Vignette
    Optimization
    Fix Bugs
    Add New Function
    Update Description Files
    Fix bugs
    New .R files
    Update Old .R files
Specified C++11: please update to current default of C++17
checkRd: (-1) mixmeta-package.Rd:115: Escaped LaTeX specials: \&
checkRd: (-1) mixmeta.ml.Rd:56: Escaped LaTeX specials: \&
checkRd: (-1) ml.igls.Rd:62: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘mixRasch’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) ssize.propCI.Rd:38: Escaped LaTeX specials: \&
Found the following significant warnings:
  waveform.c:31:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  waveform.c:44:16: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/mlbench.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
checkRd: (-1) BreastCancer.Rd:48: Escaped LaTeX specials: \&
checkRd: (-1) Ionosphere.Rd:38: Escaped LaTeX specials: \&
checkRd: (-1) Ionosphere.Rd:59: Escaped LaTeX specials: \&
checkRd: (-1) PimaIndiansDiabetes.Rd:19: Escaped LaTeX specials: \^
'LazyData' is specified without a 'data' directory
checkRd: (-1) Texture.Rd:35: Escaped LaTeX specials: \&
checkRd: (-1) binom.diagnostics.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) AutumnLab.Rd:27: Escaped LaTeX specials: \&
checkRd: (-1) binom.diagnostics.Rd:34: Escaped LaTeX specials: \&
checkRd: (-1) gp.list.Rd:16: Escaped LaTeX specials: \#
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'ueadata1', 'ueadata2', 'ueadata3', 'ueadata4', 'ueadata5',
  'ueadata6', 'ueadata7', 'ueadata8'
Specified C++14: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following files/directories:
  ‘MM2S_Predictions_Heatmap.pdf’ ‘MM2S_Predictions_StackedBarplot.pdf’
Found the following significant warnings:
  ./Array.h:24:38: warning: 'iterator<std::forward_iterator_tag, const double>' is deprecated [-Wdeprecated-declarations]
  ./Array.h:24:38: warning: 'iterator<std::forward_iterator_tag, double>' is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/mmand.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘Flury’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Package suggested but not available for checking: ‘alstructure’

Packages which this enhances but not available for checking:
  'miraculix', 'RandomFieldsUtils', 'MoBPSmaps'
Package suggested but not available for checking: ‘ArchR’
'LazyData' is specified without a 'data' directory
checkRd: (-1) modeest-package.Rd:150: Escaped LaTeX specials: \&
checkRd: (-1) vieu.Rd:56: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) CHECKSUCCESS.Rd:44: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    * efourier with default norm=TRUE now messages about how wrong it may be
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ordsampler.c:59:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ordsampler.c:113:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ordsampler.c:124:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ordsampler.c:386:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ordsampler.c:544:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ordsampler.c:560:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ordsampler.c:710:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ordsampler.c:1102:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sampler.c:52:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sampler.c:149:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sampler.c:158:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sampler.c:729:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/monoreg.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘corpus.useR.2008.abstracts’
Specified C++11: please update to current default of C++17
checkRd: (-1) Context.Rd:27: Escaped LaTeX specials: \&
checkRd: (-1) binom.diagnostics.Rd:48: Escaped LaTeX specials: \&
checkRd: (-1) psyfun.boot.Rd:23: Escaped LaTeX specials: \&
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checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
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checkRd: (-1) F.huggins.estim.Rd:215: Escaped LaTeX specials: \$
checkRd: (-1) lines.cjs.Rd:15: Escaped LaTeX specials: \$
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
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Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Acceleration.pdf’ ‘File1.pdf’ ‘Forecast.pdf’ ‘Series.pdf’
  ‘Velocity.pdf’
checkRd: (-1) ml_g.Rd:47: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) ms_sev.Rd:31: Escaped LaTeX specials: \_
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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checkRd: (-1) mkjnw.Rd:3: Escaped LaTeX specials: \&
checkRd: (-1) mkjnw.Rd:6: Escaped LaTeX specials: \&
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) MultBiplotR-package.Rd:50: Escaped LaTeX specials: \&
checkRd: (-1) MultBiplotR-package.Rd:52: Escaped LaTeX specials: \&
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checkRd: (-1) print.multcompLetters.Rd:20: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [437s/523s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(multicolor)
  Colors cannot be applied in this environment. Please use another application, such as RStudio or a color-enabled terminal.
  Colors cannot be applied in this environment. Please use another application, such as RStudio or a color-enabled terminal.
  > 
  > test_check("multicolor")
  [ FAIL 1 | WARN 0 | SKIP 1 | PASS 29 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • use_color() is not TRUE (1)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-multicolor.R:103'): colors(), including grays, rainbow, and rbg work ──
  `suppressMessages(...)` produced warnings.
  
  [ FAIL 1 | WARN 0 | SKIP 1 | PASS 29 ]
  Error: Test failures
  Execution halted
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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File ‘multinet/libs/multinet.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘eclat/tract/src/report.o’

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.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘rrelaxiv’
checkRd: (-1) mPhen.defineOptions.Rd:4: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) bal.Rd:156: Escaped LaTeX specials: \&
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checkRd: (-1) pkb.Rd:14: Escaped LaTeX specials: \# \# \#
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'LazyData' is specified without a 'data' directory
checkRd: (-1) mvr.Rd:113: Escaped LaTeX specials: \#
checkRd: (-1) mvr.Rd:115: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Package which this enhances but not available for checking: ‘asreml’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘re2r’
Found the following significant warnings:
  namespace.c:4:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/namespace.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘spatialClust’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Version (2018-01-22)
    Version  (2017-08-22)
    Version
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘gurobi’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘re2r’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) netCoin-package.Rd:38: Escaped LaTeX specials: \&
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Specified C++11: please update to current default of C++17
checkRd: (-1) exportToTSPlibFormat.Rd:32: Escaped LaTeX specials: \_
checkRd: (-1) exportToTSPlibFormat.Rd:32: Escaped LaTeX specials: \_ \_
checkRd: (-1) makeNetwork.Rd:31: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) NetworkChange.Rd:163: Escaped LaTeX specials: \&
checkRd: (-1) NetworkChangeRobust.Rd:144: Escaped LaTeX specials: \&
checkRd: (-1) NetworkStatic.Rd:142: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘map.png’ ‘maze.html’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'ANTsR', 'ITKR', 'extrantsr', 'MNITemplate', 'RAVEL', 'neurodata'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) graphresU.fun.Rd:72: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘jpndistrict’
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) Dmean.Rd:62: Escaped LaTeX specials: \&
checkRd: (-1) Dvar.Rd:63: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) nltm.control.Rd:29: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./veclib.h:302:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/nncc.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Found the following significant warnings:
  geodesic.c:57:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/nngeo.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Other ideas
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘hurricaneexposuredata’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) simulatePop.Rd:43: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  init.c:16:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/norm.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
File ‘npcp/libs/npcp.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘set_utils.o’

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.
Specified C++11: please update to current default of C++17
checkRd: (-1) prepareplot.Rd:64: Escaped LaTeX specials: \#
checkRd: (-1) prepareplot.Rd:68: Escaped LaTeX specials: \#
checkRd: (-1) nppbib.Rd:28: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) Ardechedata.Rd:18: Escaped LaTeX specials: \_
checkRd: (-1) nsRFA-package.Rd:231: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'originr', 'parallelsugar'
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  gutsRedIT.c:34:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  gutsRedIT.c:58:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  gutsRedSD.c:36:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  gutsRedSD.c:64:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  odeGUTS_init.c:5:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  odeGUTS_init.c:6:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/odeGUTS.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cmdstanr’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘openNLPmodels.en’
File ‘openxlsx/libs/openxlsx.so’:
  Found ‘sprintf’, possibly from ‘sprintf’ (C)
    Objects: ‘read_workbook.o’, ‘write_data.o’

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.
Problems with news in ‘NEWS.md’:
No news entries found.
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Graph_layout_Doptbd_trtE’
Malformed Title field: should not end in a period.
Package which this enhances but not available for checking: ‘gurobi’
'LazyData' is specified without a 'data' directory
checkRd: (-1) quad_3D.Rd:22: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rrelaxiv’
Error(s) in re-building vignettes:
  ...
--- re-building ‘fullmatch-vignette.Rmd’ using rmarkdown
Quitting from lines 458-466 (fullmatch-vignette.Rmd) 
Error: processing vignette ‘fullmatch-vignette.Rmd’ failed with diagnostics:
Problem while computing aesthetics.
ℹ Error occurred in the 1st layer.
Caused by error in `scale_f()`:
! A continuous variable cannot be mapped to the shape aesthetic
ℹ choose a different aesthetic or use `scale_shape_binned()`
--- failed re-building ‘fullmatch-vignette.Rmd’

--- re-building ‘matching-from-foreign-software.Rmd’ using rmarkdown
--- finished re-building ‘matching-from-foreign-software.Rmd’

--- re-building ‘matching-within-subgroups.Rmd’ using rmarkdown
--- finished re-building ‘matching-within-subgroups.Rmd’

SUMMARY: processing the following file failed:
  ‘fullmatch-vignette.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following files/directories:
  ‘Graph_layout_Doptrcd_trtE’
Package suggested but not available for checking: ‘gurobi’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Error(s) in re-building vignettes:
  ...
--- re-building ‘package_introduction.Rmd’ using rmarkdown
Quitting from lines 212-219 (package_introduction.Rmd) 
Error: processing vignette ‘package_introduction.Rmd’ failed with diagnostics:
argument of length 0
--- failed re-building ‘package_introduction.Rmd’

SUMMARY: processing the following file failed:
  ‘package_introduction.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘cluster of fitted mean data.eps’ ‘cluster of fitted mean data.txt’
  ‘cluster of raw data.txt’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘result.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘getting-started.Rmd’ using rmarkdown
--- finished re-building ‘getting-started.Rmd’

--- re-building ‘overviewR_vignette.Rmd’ using rmarkdown
Quitting from lines 446-458 (overviewR_vignette.Rmd) 
Error: processing vignette ‘overviewR_vignette.Rmd’ failed with diagnostics:
`...` must be empty.
✖ Problematic arguments:
• by.x = !!dat1_id
• by.y = !!dat2_id
• all = TRUE
--- failed re-building ‘overviewR_vignette.Rmd’

SUMMARY: processing the following file failed:
  ‘overviewR_vignette.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Changes
'LazyData' is specified without a 'data' directory
checkRd: (-1) residuals_paco.Rd:10: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
Running ‘testthat.R’ [25s/28s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(padr)
  > 
  > test_check("padr")
  [ FAIL 1 | WARN 15 | SKIP 0 | PASS 614 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_thicken_cust.R:9'): warning is thrown by warn_when_filtering ───
  Error in ``<.POSIXt`(min(dt_var), min(spanned))`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. ├─testthat::expect_warning(...) at test_thicken_cust.R:9:2
   2. │ └─testthat:::quasi_capture(...)
   3. │   ├─testthat (local) .capture(...)
   4. │   │ └─base::withCallingHandlers(...)
   5. │   └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
   6. └─padr:::warning_when_filtering(dt_var, full_spanned)
   7.   └─lubridate (local) `<.POSIXt`(min(dt_var), min(spanned))
  
  [ FAIL 1 | WARN 15 | SKIP 0 | PASS 614 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘CorShrink’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) btsdemo.Rd:22: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:23: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:24: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:25: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:26: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:30: Escaped LaTeX specials: \_
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'LazyData' is specified without a 'data' directory
checkRd: (-1) pan.bd.Rd:65: Escaped LaTeX specials: \$
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'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘co2’ ‘co2.1’ ‘co2.2’ ‘co2s.1’ ‘co2s.2’ ‘ctm.1’ ‘ctm.2’ ‘m’ ‘m.1’
  ‘m.2’ ‘test’ ‘test.1’ ‘test.2’ ‘testa.1’ ‘testa.2’ ‘xfile.1’
  ‘xfile.2’
Specified C++11: please update to current default of C++17
checkRd: (-1) regul.Rd:52: Escaped LaTeX specials: \# \# \#
checkRd: (-1) regul.Rd:52: Escaped LaTeX specials: \#
'LazyData' is specified without a 'data' directory
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GNU make is a SystemRequirements.
checkRd: (-1) glue_search_tables.Rd:24: Escaped LaTeX specials: \#
checkRd: (-1) dynamodb_batch_get_item.Rd:32: Escaped LaTeX specials: \#
checkRd: (-1) dynamodb_delete_item.Rd:81: Escaped LaTeX specials: \#
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checkRd: (-1) dynamodb_put_item.Rd:98: Escaped LaTeX specials: \#
checkRd: (-1) dynamodb_query.Rd:237: Escaped LaTeX specials: \#
checkRd: (-1) dynamodb_scan.Rd:174: Escaped LaTeX specials: \#
checkRd: (-1) dynamodb_update_item.Rd:177: Escaped LaTeX specials: \#
checkRd: (-1) elasticache_create_cache_cluster.Rd:291: Escaped LaTeX specials: \#
checkRd: (-1) elasticache_create_replication_group.Rd:329: Escaped LaTeX specials: \#
checkRd: (-1) cloudwatchlogs_create_log_group.Rd:30: Escaped LaTeX specials: \#
checkRd: (-1) licensemanager_create_license_configuration.Rd:23: Escaped LaTeX specials: \#
checkRd: (-1) licensemanager_create_license_configuration.Rd:24: Escaped LaTeX specials: \#
checkRd: (-1) opsworks_update_layer.Rd:23: Escaped LaTeX specials: \_
checkRd: (-1) opsworkscm_create_server.Rd:76: Escaped LaTeX specials: \#
checkRd: (-1) ssm_send_command.Rd:47: Escaped LaTeX specials: \$
checkRd: (-1) ssm_send_command.Rd:49: Escaped LaTeX specials: \$
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checkRd: (-1) apigatewayv2_update_stage.Rd:36: Escaped LaTeX specials: \#
checkRd: (-1) iam_update_account_password_policy.Rd:21: Escaped LaTeX specials: \#
Found the following significant warnings:
  pbatR_init.c:11:26: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  pbatR_init.c:17:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pbatR.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
File ‘pbatR/libs/pbatR.so’:
  Found ‘sprintf’, possibly from ‘sprintf’ (C)
    Object: ‘data.o’

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.
File ‘pbdSLAP/libs/pbdSLAP.so’:
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘libslap.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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
File ‘PCICt/libs/PCICt.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘datetime_360.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘PythonInR’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) Peacock.test-package.Rd:28: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  PeakSegJoint_interface.c:113:32: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PeakSegJoint.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘crrstep’
checkRd: (-1) pec.Rd:250: Escaped LaTeX specials: \&
checkRd: (-1) pec.Rd:251: Escaped LaTeX specials: \&
checkRd: (-1) pec.Rd:256: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘georob’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
checkRd: (-1) breslow.Rd:27: Escaped LaTeX specials: \# \#
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) simulate.data.Rd:27: Escaped LaTeX specials: \_ \_
checkRd: (-1) simulate.data.Rd:28: Escaped LaTeX specials: \_ \_
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checkRd: (-1) my.bspline.Rd:38: Escaped LaTeX specials: \$ \$ \$
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checkRd: (-1) pendensity.Rd:52: Escaped LaTeX specials: \$
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checkRd: (-1) pendensity.Rd:96: Escaped LaTeX specials: \$
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checkRd: (-1) pendensity.Rd:109: Escaped LaTeX specials: \$
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Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
Found the following significant warnings:
  init.c:13:51: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/Peptides.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
checkRd: (-1) CAPM.RiskPremium.Rd:67: Escaped LaTeX specials: \&
checkRd: (-1) chart.ECDF.Rd:31: Escaped LaTeX specials: \#
checkRd: (-1) managers.Rd:8: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘DMwR’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘dendextendRcpp’
'LazyData' is specified without a 'data' directory
checkRd: (-1) jackal.Rd:32: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Fixed issues
'LazyData' is specified without a 'data' directory
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checkRd: (-1) PatentsRDUS.Rd:4: Escaped LaTeX specials: \&
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'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘animation.gif’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test.pdf’
Running ‘testthat.R’ [239s/264s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(PHEindicatormethods)
  > 
  > test_check("PHEindicatormethods")
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 452 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('testLifeExpectancy.R:315'): LE - warnings are generated when invalid arguments are used ──
  wideci_warning\[2\] does not match "some life expectancy values have a 95% confidence interval > 20 years; these values have been suppressed to NAs".
  Actual value: "Each row in `x` is expected to match at most 1 row in `y`\.\\nℹ Row 1 of `x` matches multiple rows\.\\nℹ If multiple matches are expected, set `multiple = "all"` to silence this\\n  warning\."
  Backtrace:
      ▆
   1. └─testthat::expect_match(wideci_warning[2], "some life expectancy values have a 95% confidence interval > 20 years; these values have been suppressed to NAs") at testLifeExpectancy.R:315:2
   2.   └─testthat:::expect_match_(...)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 452 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Running examples in ‘phenofit-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: curvefits
> ### Title: Fine Curve fitting
> ### Aliases: curvefits
> 
> ### ** Examples
> 
> data("CA_NS6")
> d = CA_NS6
> 
> nptperyear <- 23
> INPUT <- check_input(d$t, d$y, d$w, QC_flag = d$QC_flag,
+      nptperyear = nptperyear, south = FALSE,
+      maxgap = nptperyear/4, alpha = 0.02, wmin = 0.2)
> # plot_input(INPUT)
> 
> # Rough fitting and growing season dividing
> wFUN <- "wTSM"
> brks2 <- season_mov(INPUT,
+     options = list(
+         rFUN = "smooth_wWHIT", wFUN = wFUN,
+         r_min = 0.05, ypeak_min = 0.05,
+         lambda = 10,
+         verbose = FALSE
+     ))
Error in FUN(X[[i]], ...) : 
  only defined on a data frame with all numeric-alike variables
Calls: season_mov ... get_A -> %>% -> diff -> Summary.data.frame -> lapply -> FUN
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘phenofit-procedures.Rmd’ using rmarkdown
Quitting from lines 71-110 (phenofit-procedures.Rmd) 
Error: processing vignette ‘phenofit-procedures.Rmd’ failed with diagnostics:
only defined on a data frame with all numeric-alike variables
--- failed re-building ‘phenofit-procedures.Rmd’

--- re-building ‘phenofit_CA-NS6.Rmd’ using rmarkdown
Quitting from lines 126-140 (phenofit_CA-NS6.Rmd) 
Error: processing vignette ‘phenofit_CA-NS6.Rmd’ failed with diagnostics:
only defined on a data frame with all numeric-alike variables
--- failed re-building ‘phenofit_CA-NS6.Rmd’

SUMMARY: processing the following files failed:
  ‘phenofit-procedures.Rmd’ ‘phenofit_CA-NS6.Rmd’

Error: Vignette re-building failed.
Execution halted
checkRd: (-1) connectedSets.Rd:27: Escaped LaTeX specials: \_ \_
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checkRd: (-1) connectedSets.Rd:31: Escaped LaTeX specials: \_ \_
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checkRd: (-1) maxConnectedSet.Rd:47: Escaped LaTeX specials: \_ \_
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'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘1khz.wav’ ‘snd.wav’
checkRd: (-1) phylo4d-methods.Rd:209: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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checkRd: (-1) GarlandJanis.varcov.Rd:7: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
checkRd: (-1) Kcalc.Rd:13: Escaped LaTeX specials: \$
checkRd: (-1) phylosignal.Rd:13: Escaped LaTeX specials: \$
checkRd: (-1) traitgram.Rd:14: Escaped LaTeX specials: \$
checkRd: (-1) utility.Rd:37: Escaped LaTeX specials: \$ \$
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Package suggested but not available for checking: ‘ggsubplot’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) sanitize_latex.Rd:49: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘P2Run.csv’ ‘P2Run.html’ ‘P2Run.png’
Packages suggested but not available for checking:
  'Matrix.utils', 'monocle3', 'ProjecTILs', 'SeuratWrappers'
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) PLS_beta_wvc.Rd:5: Escaped LaTeX specials: \_
checkRd: (-1) plsRbeta.Rd:104: Escaped LaTeX specials: \^
Package suggested but not available for checking: ‘plsdepot’
checkRd: (-1) PLS_glm_wvc.Rd:5: Escaped LaTeX specials: \_
checkRd: (-1) PLS_lm_wvc.Rd:5: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [46s/55s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(pointblank)
  
  Attaching package: 'pointblank'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  > library(dittodb)
  Loading required package: DBI
  > test_check("pointblank")
  [ FAIL 1 | WARN 3 | SKIP 26 | PASS 1093 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (26)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-transformers.R:302'): the `tt_time_slice()` function works ─────
  Error in `dplyr::filter(., session_start < lubridate::as_date("2015-01-10"))`: ℹ In argument: `session_start < lubridate::as_date("2015-01-10")`.
  Caused by error in `<.POSIXt`:
  ! object 'check_tzones' not found
  Backtrace:
       ▆
    1. ├─... %>% ... at test-transformers.R:302:2
    2. ├─dplyr::filter(., session_start < lubridate::as_date("2015-01-10"))
    3. ├─dplyr:::filter.data.frame(., session_start < lubridate::as_date("2015-01-10"))
    4. │ └─dplyr:::filter_rows(.data, dots, by)
    5. │   └─dplyr:::filter_eval(dots, mask = mask, error_call = error_call)
    6. │     ├─base::withCallingHandlers(...)
    7. │     └─mask$eval_all_filter(dots, env_filter)
    8. │       └─dplyr (local) eval()
    9. ├─lubridate (local) `<.POSIXt`(session_start, lubridate::as_date("2015-01-10"))
   10. └─base::.handleSimpleError(...)
   11.   └─dplyr (local) h(simpleError(msg, call))
   12.     └─rlang::abort(message, class = error_class, parent = parent, call = error_call)
  
  [ FAIL 1 | WARN 3 | SKIP 26 | PASS 1093 ]
  Error: Test failures
  In addition: Warning message:
  call dbDisconnect() when finished working with a connection 
  Execution halted
Package suggested but not available for checking: ‘INLA’
Package unavailable to check Rd xrefs: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) carcinoma.Rd:8: Escaped LaTeX specials: \&
checkRd: (-1) poLCA.Rd:63: Escaped LaTeX specials: \&
checkRd: (-1) poLCA.Rd:69: Escaped LaTeX specials: \&
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Package suggested but not available for checking: ‘pollimetrydata’
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘polyfreqs-mcmc.out’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘test-data.R’ ‘test-inits.R’ ‘test.bug’ ‘test.cmd’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [6s/16s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(DBI)
  > library(pool)
  > 
  > test_check("pool")
  Error in value[[3L]](cond) : 
    (converted from warning) Object of class MockPooledObj could not be destroyed properly, but was successfully removed from pool. Error message: Destruction failed...
  Calls: <Anonymous> ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 258 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-create-destroy.R:39'): destroyObject: throws if onDestroy fails ──
  `{ ... }` threw an error with unexpected message.
  Expected match: "Object of class MockPooledObj could not be destroyed properly, but was successfully removed from pool."
  Actual message: "invoke_wrapped: throwing std::runtime_error"
  Backtrace:
      ▆
   1. ├─testthat::expect_error(...) at test-create-destroy.R:39:4
   2. │ └─testthat:::quasi_capture(...)
   3. │   ├─testthat (local) .capture(...)
   4. │   │ └─base::withCallingHandlers(...)
   5. │   └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
   6. └─later::run_now() at test-create-destroy.R:41:8
   7.   └─later:::execCallbacks(timeoutSecs, all, loop$id)
  
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 258 ]
  Error: Test failures
  Execution halted
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) Kendall.Rd:73: Escaped LaTeX specials: \&
checkRd: (-1) countCDFxt.Rd:63: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘RClone’
Found the following significant warnings:
  init.c:24:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  omp_test.c:7:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/poppr.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
checkRd: (-1) genetic_distance.Rd:106: Escaped LaTeX specials: \~
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) tradelist-class.Rd:91: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) bira2.Rd:91: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:144: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:146: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:148: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:150: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:126: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:219: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:221: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:223: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:225: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:227: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:229: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:231: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:233: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:235: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:237: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:301: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:303: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:305: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:307: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:309: Escaped LaTeX specials: \&
checkRd: (-1) med_pn.Rd:129: Escaped LaTeX specials: \&
Unknown package ‘advclust’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  sum.c:358:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  prod.c:27:32: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:28:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:29:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PreciseSums.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Package which this enhances but not available for checking: ‘ffbase’
Unknown package ‘ffbase’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘hista.png’ ‘plotcd.png’ ‘test.R’ ‘test.html’ ‘testR2html.R’
  ‘testglm.csv’ ‘testglm.html’ ‘testglm.tab’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  init.c:17:43: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:22:48: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  zhegv.c:232:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  zhegv.c:3715:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/PRIMME.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
Packages suggested but not available for checking:
  'gurobi', 'rcbc', 'cplexAPI'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) prodlim.Rd:119: Escaped LaTeX specials: \&
checkRd: (-1) plot.profileModel.Rd:69: Escaped LaTeX specials: \&
checkRd: (-1) profileModel.Rd:277: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ProFit’
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  pause.c:10:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/profvis.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cmdstanr’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘cin’
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  computeParentIonMass.c:59:9: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/protViz.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Package suggested but not available for checking: ‘rdt’
Package suggested but not available for checking: ‘rdt’
Package suggested but not available for checking: ‘rdt’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rdt’
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  util.c:6:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/pscl.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) esa.Rd:15: Escaped LaTeX specials: \&
checkRd: (-1) meta_varcov.Rd:9: Escaped LaTeX specials: \&
checkRd: (-1) meta_varcov.Rd:120: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘fulltext’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running examples in ‘PVplr-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: plr_variable_check
> ### Title: Define Standard Variable Names
> ### Aliases: plr_variable_check
> 
> ### ** Examples
> 
> var_list <- plr_variable_check(test_df)
Error in `dplyr::if_else()`:
! `false` must be a vector, not `NULL`.
Backtrace:
    ▆
 1. ├─PVplr::plr_variable_check(test_df)
 2. │ └─dplyr::if_else("wspa" %in% names, "wspa", NULL)
 3. │   └─dplyr:::vec_case_when(...)
 4. │     └─vctrs::list_check_all_vectors(values, arg = values_arg, call = call)
 5. └─vctrs:::stop_scalar_type(`<fn>`(NULL), "false", `<env>`)
 6.   └─vctrs:::stop_vctrs(...)
 7.     └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = vctrs_error_call(call))
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) Ch05-detail.Rd:23: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:24: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:25: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:31: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:32: Escaped LaTeX specials: \#
checkRd: (-1) Ch0C-plot.cpd.PwrGSD.Rd:40: Escaped LaTeX specials: \&
checkRd: (-1) aid_st2.Rd:6: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘exampleplot_1_blockdist_1.png’ ‘exampleplot_1_blockdist_2.png’
  ‘exampleplot_1_blockdist_3.png’ ‘exampleplot_1_bootdist.png’
  ‘exampleplot_1_dist.png’ ‘exampleplot_1_histogramtest_EMD.png’
  ‘exampleplot_1_roc_dynamic.png’ ‘exampleplot_1_slidedist_1.png’
  ‘exampleplot_1_slidedist_2.png’ ‘exampleplot_1_slidedist_3.png’
  ‘exampleplot_1_trimmeddist.png’ ‘exampleplot_blockdist_1.png’
  ‘exampleplot_blockdist_2.png’ ‘exampleplot_blockdist_3.png’
  ‘exampleplot_bootdist.png’ ‘exampleplot_dist.png’
  ‘exampleplot_lim_dyn.png’ ‘exampleplot_lim_sig.png’
  ‘exampleplot_lim_sta.png’ ‘exampleplot_noc.png’
  ‘exampleplot_roc_dyn.png’ ‘exampleplot_roc_sta.png’
  ‘exampleplot_slidedist_1.png’ ‘exampleplot_slidedist_2.png’
  ‘exampleplot_slidedist_3.png’ ‘exampleplot_trimmeddist.png’
  ‘myworkflow_result.xml’ ‘test_2_roc_dynamic.png’ ‘test_4_dist.png’
  ‘test_5_blockdist_1.png’ ‘test_5_blockdist_2.png’
  ‘test_5_blockdist_3.png’ ‘test_6_slidedist_1.png’
  ‘test_6_slidedist_2.png’ ‘test_6_slidedist_3.png’
  ‘test_7_trimmeddist.png’ ‘test_8_bootdist.png’ ‘test_emd_1d.png’
  ‘test_emd_2d.png’ ‘test_jsd_1d.png’ ‘test_jsd_2d.png’
  ‘test_kld_1d.png’ ‘test_kld_2d.png’ ‘test_ms_1d.png’ ‘test_ms_2d.png’
  ‘test_rms_1d.png’ ‘test_rms_2d.png’
Found the following significant warnings:
  ./lp_rlp.h:1161:33: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./lp_rlp.h:1293:49: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./lp_rlp.h:1401:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  lp_rlp.c:569:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  yacc_read.c:139:13: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  yacc_read.c:547:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/QCA.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
File ‘QCA/libs/QCA.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘lp_MPS.o’, ‘lp_lib.o’, ‘lp_params.o’, ‘lp_presolve.o’,
      ‘lp_rlp.o’, ‘yacc_read.o’
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘lusol.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘EWAS_QC_graph_effectsize.png’ ‘EWAS_QC_graph_precision.png’
  ‘EWAS_QC_legend.txt’ ‘sample1.txt.gz’ ‘sample2.txt.gz’
  ‘sample_map.txt.gz’ ‘sample_output.graph_M.png’
  ‘sample_output.graph_QQ.png’ ‘sample_output.graph_p.png’
  ‘sample_output.graph_volcano.png’ ‘sample_output.histo.png’
  ‘sample_output.txt’ ‘sample_output1.graph_M.png’
  ‘sample_output1.graph_QQ.png’ ‘sample_output1.graph_p.png’
  ‘sample_output1.graph_volcano.png’ ‘sample_output1.histo.png’
  ‘sample_output2.graph_M.png’ ‘sample_output2.graph_QQ.png’
  ‘sample_output2.graph_p.png’ ‘sample_output2.graph_volcano.png’
  ‘sample_output2.histo.png’ ‘translation_table.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  init.c:9:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:10:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/qoi.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘lambda.pdf’ ‘qqplot.pdf’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
File ‘qrjoint/libs/qrjoint.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘qrjoint.o’

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.
Malformed Description field: should contain one or more complete sentences.
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
checkRd: (-1) GRI.Rd:3: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following calls to attach():
File ‘quantmod/R/attachSymbols.R’:
  attach(NULL, pos = pos, name = DB$name)
  attach(NULL, pos = pos, name = DB$name)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  glmBias.c:84:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/QuasiSeq.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'fastshp', 'visualTest'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) qwraps2.Rd:73: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package required but not available: ‘BayesXsrc’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Package suggested but not available for checking: ‘ReGenesees’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following calls to attach():
File ‘R2OpenBUGS/R/attach.all.R’:
  attach(x, name = name)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ../inst/include/sundials/sundials_nvector.h:163:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_nonlinearsolver.h:131:56: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_matrix.h:105:41: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_linearsolver.h:137:50: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  lib/sundials/sundials_nonlinearsolver.c:26:40: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  lib/sundials/sundials_matrix.c:29:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  lib/sundials/sundials_nvector.c:28:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  lib/sundials/sundials_linearsolver.c:28:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/r2sundials.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Found the following calls to attach():
File ‘R2WinBUGS/R/attach.all.R’:
  attach(x, name = name)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/rabhit.Rcheck/00install.out’ for details.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘blcs.dot’ ‘ex1.dot’ ‘ex1bridge1.dot’ ‘ex1bridge2.dot’
  ‘ex1bridge3.dot’ ‘ex1effect1.dot’ ‘ex1effect2.dot’ ‘gcmlinear.dot’
  ‘latent.dot’ ‘lcs.dot’ ‘mimic.dot’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ri’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘googlesheets’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  sketch.c:33:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sketch.c:38:27: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sketch.c:172:9: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sketch.c:206:6: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/RaProR.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'cairoDevice', 'RGtk2'
checkRd: (-1) acquireAuditData.Rd:24: Escaped LaTeX specials: \_
checkRd: (-1) rattle.Rd:44: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘RavenR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: rvn_rvc_from_custom_output
> ### Title: Generate RVC file from Custom Output CSVs
> ### Aliases: rvn_rvc_from_custom_output
> 
> ### ** Examples
> 
> # Create array of custom output file(s)
> custout <- c(system.file("extdata","run1_SNOW_Daily_Average_ByHRU.csv",package = "RavenR"))
> 
> # Create rvc file of mean snow for each HRU
> rvn_rvc_from_custom_output(filename = file.path(tempdir(), "Blank.rvc"),
+                            custfiles = custout,
+                            FUN = mean)
Error in `!=.Date`(as.Date(init_date), init_date) : 
  object 'check_tzones' not found
Calls: rvn_rvc_from_custom_output -> rvn_rvc_write -> !=.Date
Execution halted
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppParallel/include/RcppParallel/RMatrix.h:18:24: warning: 'iterator<std::random_access_iterator_tag, double, unsigned long>' is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/rbiom.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) mn4joint1condi.Rd:39: Escaped LaTeX specials: \$
checkRd: (-1) mn4joint1condi.Rd:40: Escaped LaTeX specials: \$
checkRd: (-1) objets.Rd:66: Escaped LaTeX specials: \#
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘rcanvec.cache’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rrelaxiv’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘rrelaxiv’
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘temp.RData’
Found the following significant warnings:
  cddmp.c:23:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  cddmp.c:63:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  cddmp_f.c:24:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  cddmp_f.c:64:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  nonred.c:99:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/rcdd.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘data.csv’
Found the following significant warnings:
  RClickhouse_init.c:23:54: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  vendor/clickhouse-cpp/contrib/lz4/lz4.c:373:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  vendor/clickhouse-cpp/contrib/lz4/lz4.c:1474:26: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/RClickhouse.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘outcmaesdisp.dat’
Depends: includes the non-default packages:
  'biclust', 'fabia', 'iBBiG', 'superbiclust', 'BcDiag', 'BicARE',
  's4vd', 'BiBitR'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
'LazyData' is specified without a 'data' directory
checkRd: (-1) RcmdrPlugin.MA-package.Rd:21: Escaped LaTeX specials: \&
checkRd: (-1) RcmdrPlugin.MA-package.Rd:23: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ROpenOffice’
Depends: includes the non-default packages:
  'IQCC', 'qcc', 'qicharts2', 'randtests', 'rmarkdown',
  'TeachingDemos', 'tseries'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
Package suggested but not available for checking: ‘conics’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
File ‘RcppNumerical/libs/RcppNumerical.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘Cuhre.o’

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.
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘rredis’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  rDEA_init.c:11:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/rDEA.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  dsdp/include/dsdp5.h:206:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ../../include/dsdp5.h:206:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  dsdpcops.c:20:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  dsdpcops.c:28:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  dsdpsetoptions.c:280:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sdpalloc.c:4:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sdpexit.c:4:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  dsdperror.c:129:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/Rdsdp.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) re2_syntax.Rd:539: Escaped LaTeX specials: \_
Package suggested but not available for checking: ‘dataui’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘temp.txt’ ‘temp2.csv’ ‘temp3.rda’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
File ‘readr/libs/readr.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘grisu3.o’

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.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  libxls/endian.c:38:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  libxls/locale.c:50:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/readxl.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
File ‘readxl/libs/readxl.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘libxls/xlstool.o’

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.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘Filled.RData’ ‘cleaned.RData’ ‘days’ ‘gridded’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  redland.c:771:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  redland.c:817:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  redland.c:1846:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/redland.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘EnvironmentalA.txt’ ‘EnvironmentalB.txt’ ‘Example.txt’
  ‘Example_Predictions.txt’ ‘Example_RRDist.txt’
  ‘Example_RRDistCol.TIF’ ‘Example_RRDistGrey.TIF’ ‘GeneticA.txt’
  ‘GeneticB.txt’ ‘Inds.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  init.c:9:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:13:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/reglogit.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
checkRd: (-1) pima.Rd:24: Escaped LaTeX specials: \^
checkRd: (-1) reglogit.Rd:120: Escaped LaTeX specials: \&
checkRd: (-1) reglogit.Rd:124: Escaped LaTeX specials: \&
checkRd: (-1) reglogit.Rd:136: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) calc.relimp.Rd:41: Escaped LaTeX specials: \~
checkRd: (-1) classesmethods.relaimpo.Rd:27: Escaped LaTeX specials: \$
checkRd: (-1) classesmethods.relaimpo.Rd:104: Escaped LaTeX specials: \$
checkRd: (-1) mianalyze.relimp.Rd:69: Escaped LaTeX specials: \~
checkRd: (-1) mianalyze.relimp.Rd:73: Escaped LaTeX specials: \~
checkRd: (-1) relimplm-class.Rd:63: Escaped LaTeX specials: \$
checkRd: (-1) relimplmbootMI-class.Rd:121: Escaped LaTeX specials: \$
checkRd: (-1) relimplmbooteval-class.Rd:146: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘pbdRPC’
checkRd: (-1) ena.plot.group.Rd:44: Escaped LaTeX specials: \$
checkRd: (-1) ena.plot.group.Rd:46: Escaped LaTeX specials: \$
checkRd: (-1) ena.plot.group.Rd:48: Escaped LaTeX specials: \$
checkRd: (-1) ena.plot.trajectory.Rd:38: Escaped LaTeX specials: \$
checkRd: (-1) ena.plot.trajectory.Rd:40: Escaped LaTeX specials: \$
checkRd: (-1) ena.plot.trajectory.Rd:42: Escaped LaTeX specials: \$
Problems with news in ‘NEWS.md’:
No news entries found.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘PackageCites.bib’
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) cast.Rd:45: Escaped LaTeX specials: \_
checkRd: (-1) cast.Rd:46: Escaped LaTeX specials: \_
checkRd: (-1) as-data-frame-cast-df-v7.rd:3: Escaped LaTeX specials: \_
checkRd: (-1) as-data-frame-cast-matrix-59.rd:3: Escaped LaTeX specials: \_
checkRd: (-1) as-matrix-cast-df-bu.rd:3: Escaped LaTeX specials: \_
checkRd: (-1) as-matrix-cast-matrix-2y.rd:3: Escaped LaTeX specials: \_
checkRd: (-1) cast-9g.rd:19: Escaped LaTeX specials: \_ \_
checkRd: (-1) cast-9g.rd:41: Escaped LaTeX specials: \_
checkRd: (-1) cast-9g.rd:46: Escaped LaTeX specials: \_ \_
checkRd: (-1) clean-vars-rc.rd:13: Escaped LaTeX specials: \_
checkRd: (-1) expand-kx.rd:15: Escaped LaTeX specials: \_
checkRd: (-1) reshape-4u.rd:17: Escaped LaTeX specials: \_ \_
'LazyData' is specified without a 'data' directory
checkRd: (-1) Burns.Rd:28: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) rec.Rd:23: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) boot.james.Rd:47: Escaped LaTeX specials: \&
checkRd: (-1) boot.student2.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) coljack.means.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) collognorm.mle.Rd:69: Escaped LaTeX specials: \&
checkRd: (-1) collognorm.mle.Rd:71: Escaped LaTeX specials: \&
checkRd: (-1) fipois.reg.Rd:66: Escaped LaTeX specials: \&
checkRd: (-1) halfcauchy.mle.Rd:46: Escaped LaTeX specials: \&
checkRd: (-1) halfcauchy.mle.Rd:48: Escaped LaTeX specials: \&
checkRd: (-1) jack.mean.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) lm.parboot.Rd:37: Escaped LaTeX specials: \&
checkRd: (-1) multivm.mle.Rd:62: Escaped LaTeX specials: \&
checkRd: (-1) ancova1.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) ancovas.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) boot.ttest2.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) colnormal.mle.Rd:72: Escaped LaTeX specials: \&
checkRd: (-1) colnormal.mle.Rd:74: Escaped LaTeX specials: \&
checkRd: (-1) colnormal.mle.Rd:77: Escaped LaTeX specials: \&
checkRd: (-1) colrint.regbx.Rd:58: Escaped LaTeX specials: \&
checkRd: (-1) colvarcomps.mom.Rd:69: Escaped LaTeX specials: \&
checkRd: (-1) colvarcomps.mom.Rd:74: Escaped LaTeX specials: \&
checkRd: (-1) ftest.Rd:90: Escaped LaTeX specials: \&
checkRd: (-1) ftests.Rd:68: Escaped LaTeX specials: \&
checkRd: (-1) gammamle.Rd:81: Escaped LaTeX specials: \&
checkRd: (-1) gammamle.Rd:83: Escaped LaTeX specials: \&
checkRd: (-1) gammamle.Rd:88: Escaped LaTeX specials: \&
checkRd: (-1) rint.regbx.Rd:65: Escaped LaTeX specials: \&
checkRd: (-1) rint.regs.Rd:57: Escaped LaTeX specials: \&
checkRd: (-1) twoway.anovas.Rd:46: Escaped LaTeX specials: \&
checkRd: (-1) varcomps.mom.Rd:66: Escaped LaTeX specials: \&
checkRd: (-1) varcomps.mom.Rd:70: Escaped LaTeX specials: \&
checkRd: (-1) vm.mle.Rd:60: Escaped LaTeX specials: \&
File ‘RFCCA/libs/RFCCA.so’:
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘randomForestSRC.o’

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.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) CardioRiskFactors.Rd:35: Escaped LaTeX specials: \&
Specified C++14: please update to current default of C++17
File ‘Rfmtool/libs/Rfmtool.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘lp_MPS.o’, ‘lp_lib.o’, ‘lp_params.o’, ‘lp_presolve.o’,
      ‘mmio.o’, ‘yacc_read.o’
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘lusol.o’

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.
'LazyData' is specified without a 'data' directory
File ‘rforensicbatwing/libs/rforensicbatwing.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘myio.o’, ‘pars.o’, ‘prior.o’

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.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
File ‘RFpredInterval/libs/RFpredInterval.so’:
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘randomForestSRC.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  pcg_basic.c:69:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/RGBM.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  Rglpk_read_file.c:17:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:42:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/Rglpk.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
checkRd: (-1) Rglpk_read_file.Rd:6: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) columbus.Rd:24: Escaped LaTeX specials: \_
checkRd: (-1) columbus.Rd:25: Escaped LaTeX specials: \_
checkRd: (-1) columbus.Rd:29: Escaped LaTeX specials: \$
checkRd: (-1) columbus.Rd:30: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./qoma-hli.h:23:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./qoma-hli.h:24:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./qoma-hli.h:25:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./qoma-hli.h:26:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  qoma-hli.c:29:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  qoma-hli.c:39:20: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  qoma-hli.c:58:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  qoma-hli.c:131:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/rhli.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
File ‘rhli/libs/rhli.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘qoma-hli.o’

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.
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘mydata.rda’ ‘thedata.rda’
'LazyData' is specified without a 'data' directory
File ‘RhpcBLASctl/libs/RhpcBLASctl.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘blasctl.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'mimic.demo', 'eicu.demo'
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) acg.Rd:72: Escaped LaTeX specials: \&
checkRd: (-1) gorilla.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) grassmann.utest.Rd:63: Escaped LaTeX specials: \&
checkRd: (-1) macg.Rd:71: Escaped LaTeX specials: \&
checkRd: (-1) sphere.utest.Rd:47: Escaped LaTeX specials: \&
checkRd: (-1) stiefel.utest.Rd:64: Escaped LaTeX specials: \&
checkRd: (-1) wrap.landmark.Rd:41: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./convert.h:12:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  convert.c:79:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ring.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
File ‘RInside/libs/RInside.so’:
  Found ‘srand’, possibly from ‘srand’ (C)
    Object: ‘RInside.o’
File ‘RInside/libs/RInside.so’:
  Found non-API calls to R: ‘R_CStackLimit’, ‘R_CleanTempDir’,
    ‘R_DefParams’, ‘R_ReplDLLinit’, ‘R_RunExitFinalizers’,
    ‘R_SetParams’, ‘R_SignalHandlers’, ‘R_TempDir’, ‘Rf_endEmbeddedR’,
    ‘Rf_initEmbeddedR’, ‘run_Rmainloop’

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

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘B110711CD4.CSV’ ‘inputparam2.txt’ ‘itcout0.pdf’ ‘itcout1.eps’
  ‘origin_data.csv’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./init.h:19:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./init.h:26:28: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./init.h:30:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/rjags.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Non-standard file/directory found at top level:
  ‘jri’
Found the following possibly unsafe calls:
File ‘rJava/R/import.R’:
  unlockBinding(IMPORTER, env = env)
  assignInNamespace(IMPORTER, importer, envir = env)
File ‘rJava/R/jinit.R’:
  unlockBinding(x, .env)
  unlockBinding(x, pe)
GNU make is a SystemRequirements.
Found the following Makefile(s) with an include directive with a pathname using R_HOME:
  jri/src/Makefile.win
  jri/src/win32/Makefile
  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'.
Note: information on .o files is not available
File ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/rJava/libs/rJava.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
  Found ‘_exit’, possibly from ‘_exit’ (C)
  Found ‘stderr’, possibly from ‘stderr’ (C)
  Found ‘stdout’, possibly from ‘stdout’ (C)
File ‘rJava/libs/rJava.so’:
  Found non-API calls to R: ‘R_CStackLimit’, ‘R_CStackStart’

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. The detected symbols are linked into
the code but might come from libraries and not actually be called.
Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘rJPSGCS/libs/rJPSGCS.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘readPEDfile.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) Exponential.Rd:52: Escaped LaTeX specials: \&
checkRd: (-1) Gamma.Rd:80: Escaped LaTeX specials: \&
checkRd: (-1) college.Rd:13: Escaped LaTeX specials: \$
checkRd: (-1) college.Rd:15: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
File ‘rlang/libs/rlang.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘internal.o’

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.
Specified C++14: please update to current default of C++17
Found the following significant warnings:
  RngWrap.c:12:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  RngWrap.c:23:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  RngWrap.c:304:26: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  RngWrap.c:328:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  zzz.c:11:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  zzz.c:13:26: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  zzz.c:17:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/rlecuyer.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
File ‘RLT/libs/RLT.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘RLT.o’

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.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) cGARCHfilter-class.Rd:57: Escaped LaTeX specials: \&
checkRd: (-1) cGARCHfit-class.Rd:59: Escaped LaTeX specials: \&
checkRd: (-1) cGARCHsim-class.Rd:52: Escaped LaTeX specials: \&
checkRd: (-1) cGARCHspec-class.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) cgarchsim-methods.Rd:78: Escaped LaTeX specials: \&
checkRd: (-1) goGARCHfilter-class.Rd:155: Escaped LaTeX specials: \&
checkRd: (-1) goGARCHfit-class.Rd:166: Escaped LaTeX specials: \&
checkRd: (-1) rmgarch-package.Rd:73: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following calls to attach():
File ‘Rmosek/R/builder.R’:
  attach(builderenv, pos, name, warn.conflicts)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘rnaturalearthhires’
Malformed Title field: should not end in a period.
checkRd: (-1) NlistServersInCategory.Rd:11: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) addLR.Rd:57: Escaped LaTeX specials: \&
checkRd: (-1) addLRinv.Rd:57: Escaped LaTeX specials: \&
checkRd: (-1) adtestWrapper.Rd:69: Escaped LaTeX specials: \&
checkRd: (-1) arcticLake.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) cenLR.Rd:43: Escaped LaTeX specials: \&
checkRd: (-1) cenLRinv.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) expenditures.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) gemas.Rd:68: Escaped LaTeX specials: \&
checkRd: (-1) machineOperators.Rd:34: Escaped LaTeX specials: \&
checkRd: (-1) plot.imp.Rd:138: Escaped LaTeX specials: \&
checkRd: (-1) robCompositions-package.Rd:88: Escaped LaTeX specials: \&
checkRd: (-1) skyeLavas.Rd:31: Escaped LaTeX specials: \&
checkRd: (-1) variation.Rd:45: Escaped LaTeX specials: \&
Unknown package ‘StatDA’ in Rd xrefs
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  monitor.c:15:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/robustbase.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
checkRd: (-1) aircraft.Rd:8: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) performance.Rd:35: Escaped LaTeX specials: \#
checkRd: (-1) performance.Rd:36: Escaped LaTeX specials: \# \# \#
checkRd: (-1) performance.Rd:37: Escaped LaTeX specials: \# \#
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [7s/12s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(romic)
  > 
  > test_check("romic")
  40 features dropped due to missing values
  40 features dropped due to missing values
  2 samples dropped due to missing values
  39 features dropped due to missing values
  [ FAIL 1 | WARN 5 | SKIP 1 | PASS 15 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • empty test (1)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-conversion.R:22'): triple <-> tidy ───────────────────────────
  `triple` not equal to `brauer_2008_triple`.
  Component "features": Names: 3 string mismatches
  Component "features": Component 2: 500 string mismatches
  Component "features": Component 3: 476 string mismatches
  Component "features": Component 4: 500 string mismatches
  
  [ FAIL 1 | WARN 5 | SKIP 1 | PASS 15 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘RandomFields’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:

  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Found the following files/directories:
  ‘Rpdb.pdb’
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    IMPROVEMENTS AND ### BUG FIXES
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  conftest.c:2:9: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/RPostgreSQL.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
File ‘RPostgreSQL/libs/RPostgreSQL.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘RS-DBI.o’, ‘RS-PostgreSQL.o’

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.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
File ‘RQuantLib/libs/RQuantLib.so’:
  Found ‘sprintf’, possibly from ‘sprintf’ (C)
    Object: ‘utils.o’

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.
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘HL_H0.pdf’ ‘pi0infer.pdf’ ‘rate.txt’ ‘summary.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test.bpl’ ‘test.cr’ ‘test.ct’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘evolqg’
Unknown package ‘evolqg’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gdalUtils’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./Stopwatch.h:13:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  Stopwatch.c:4:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/rscimark.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  tls.c:29:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/Rserve.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
GNU make is a SystemRequirements.
Note: information on .o files is not available
File ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rserve/libs/Rserve.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
  Found ‘exit’, possibly from ‘exit’ (C)
  Found ‘rand’, possibly from ‘rand’ (C)
  Found ‘random’, possibly from ‘random’ (C)
  Found ‘srandom’, possibly from ‘srandom’ (C)
  Found ‘stderr’, possibly from ‘stderr’ (C)
File ‘Rserve/libs/Rserve.so’:
  Found non-API calls to R: ‘R_Consolefile’, ‘R_InputHandlers’,
    ‘R_Outputfile’, ‘R_TempDir’, ‘R_Visible’, ‘addInputHandler’,
    ‘ptr_R_Busy’, ‘ptr_R_ClearerrConsole’, ‘ptr_R_FlushConsole’,
    ‘ptr_R_ReadConsole’, ‘ptr_R_ResetConsole’, ‘ptr_R_ShowMessage’,
    ‘ptr_R_WriteConsole’, ‘ptr_R_WriteConsoleEx’

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. The detected symbols are linked into
the code but might come from libraries and not actually be called.
Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘Vdgraph’
Unknown package ‘Vdgraph’ in Rd xrefs
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [147s/213s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(RStoolbox) 
  > 
  > Sys.setenv("R_TESTS" = "") ## needed to pass R CMD check: https://github.com/hadley/testthat/issues/144
  > 
  > test_check("RStoolbox")
  [ FAIL 3 | WARN 0 | SKIP 11 | PASS 566 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (11)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-multicore.R:21'): .paraRasterFun is equal to predict, calc, overlay, Both single and multicore. ──
  overlay: multicore not equal to overlay(r, fun = f).
  Attributes: < Component "srs": Lengths (0, 1) differ (string compare on first 0) >
  ── Failure ('test-multicore.R:21'): .paraRasterFun is equal to predict, calc, overlay, Both single and multicore. ──
  overlay: multicore not equal to overlay(r, fun = f).
  Attributes: < Component "srs": Lengths (0, 1) differ (string compare on first 0) >
  ── Error ('test-superClass.R:142'): terra inputs ───────────────────────────────
  Error in `superClass(rast(lsat), trainData = poly, nSamples = 50, responseCol = "class", 
      model = "pls", tuneGrid = data.frame(ncomp = 3), tuneLength = 1, 
      trainPartition = 0.7, predict = FALSE)`: img, trainData and valData (if provided) must have the same projection
  Backtrace:
      ▆
   1. ├─testthat::expect_is(...) at test-superClass.R:142:12
   2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
   3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
   4. └─RStoolbox::superClass(...)
  
  [ FAIL 3 | WARN 0 | SKIP 11 | PASS 566 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  ./rsyslog.h:15:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  rsyslog.c:50:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/rsyslog.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test_addPageBreak.doc’ ‘test_addPlot.doc’ ‘test_addSessionInfo.doc’
  ‘test_addTable.doc’
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘cmdstanr’
Specified C++14: please update to current default of C++17
Unknown package ‘cmdstanr’ in Rd xrefs
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following files/directories:
  ‘Tsttwalk.dat’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) tracker.Rd:70: Escaped LaTeX specials: \&
checkRd: (-1) tracker.Rd:73: Escaped LaTeX specials: \&
Found the following files/directories:
  ‘results’
checkRd: (-1) run.jags.study.Rd:67: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘glmmADMB’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gpuR’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
File ‘RVowpalWabbit/libs/RVowpalWabbit.so’:
  Found ‘sprintf’, possibly from ‘sprintf’ (C)
    Object: ‘parse_args.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) mapBubbles.Rd:62: Escaped LaTeX specials: \$
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) BootsChapt.Rd:38: Escaped LaTeX specials: \&
checkRd: (-1) SemiparChangePoint.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) schapt.Rd:44: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./Gen_fun.h:17:12: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  Gen_fun.c:121:12: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./IFscratch.h:64:12: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  load_IFscratch.c:64:12: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  load_env.c:162:14: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/samon.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Found the following significant warnings:
  ./init.h:28:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./init.h:29:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/SamplerCompare.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
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: \#
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘networkTomography’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘FitARMA’
Specified C++11: please update to current default of C++17
checkRd: (-1) generef.Rd:29: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘sbde/libs/sbde.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘sbde.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Updated help pages with examples
    Updated conjugate model sampler
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Packages which this enhances but not available for checking:
  'gurobi', 'pogs'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) x.oreo.Rd:48: Escaped LaTeX specials: \_ \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./error.h:33:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/scclust.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘ssvd’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) simulateSNPs.Rd:46: Escaped LaTeX specials: \& \& \&
checkRd: (-1) simulateSNPs.Rd:80: Escaped LaTeX specials: \& \& \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘untitled_consensus_cluster’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  linsys/cpu/direct/private.c:4:36: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/scs.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘glmGamPoi’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘MC p-value.ps’ ‘Output.csv’ ‘Rh.ps’ ‘Th.ps’ ‘dataratio .Rdata’
  ‘featuresRmax.csv’ ‘featuresT.csv’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘INLA’
Package unavailable to check Rd xrefs: ‘INLA’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Packages suggested but not available for checking:
  'xbioc', 'MuSiC', 'seAMLessData'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘effect-of-climate-dependent-flux.Rmd’ using rmarkdown
Killed
--- re-building ‘introduction-to-sedproxy.Rmd’ using rmarkdown
--- finished re-building ‘introduction-to-sedproxy.Rmd’

SUMMARY: processing the following file failed:
  ‘effect-of-climate-dependent-flux.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘Intro-to-seecolor-package.Rmd’ using rmarkdown
Quitting from lines 49-60 (Intro-to-seecolor-package.Rmd) 
Error: processing vignette ‘Intro-to-seecolor-package.Rmd’ failed with diagnostics:
[1m[22m[36mℹ[39m In index: 1.
[1mCaused by error in `dplyr::if_else()`:[22m
[33m![39m `condition` must be a vector with type <logical>.
Instead, it has type <logical[,1]>.
--- failed re-building ‘Intro-to-seecolor-package.Rmd’

SUMMARY: processing the following file failed:
  ‘Intro-to-seecolor-package.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘spgrass6’
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) escape.Rd:28: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) fahst.rd:39: Escaped LaTeX specials: \^
checkRd: (-1) fahst.rd:36: Escaped LaTeX specials: \^
checkRd: (-1) fasnt.rd:46: Escaped LaTeX specials: \^
checkRd: (-1) fasnt.rd:42: Escaped LaTeX specials: \^
checkRd: (-1) fasnt.rd:43: Escaped LaTeX specials: \^
checkRd: (-1) fast.Rd:49: Escaped LaTeX specials: \^
checkRd: (-1) fast.Rd:44: Escaped LaTeX specials: \^
checkRd: (-1) fast.Rd:45: Escaped LaTeX specials: \^
checkRd: (-1) fast.Rd:46: Escaped LaTeX specials: \^
checkRd: (-1) hsortplot.rd:24: Escaped LaTeX specials: \^
checkRd: (-1) nappesortplot.Rd:30: Escaped LaTeX specials: \^
checkRd: (-1) nappesortplot.Rd:28: Escaped LaTeX specials: \^
checkRd: (-1) plot.fahst.rd:45: Escaped LaTeX specials: \^
checkRd: (-1) plot.fasnt.Rd:47: Escaped LaTeX specials: \^
checkRd: (-1) plot.fast.Rd:45: Escaped LaTeX specials: \^
checkRd: (-1) print.fahst.rd:22: Escaped LaTeX specials: \^
checkRd: (-1) print.fasnt.Rd:22: Escaped LaTeX specials: \^
checkRd: (-1) print.fast.Rd:22: Escaped LaTeX specials: \^
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) SEset_to_network.Rd:50: Escaped LaTeX specials: \&
checkRd: (-1) network_to_SEset.Rd:72: Escaped LaTeX specials: \&
checkRd: (-1) network_to_path.Rd:50: Escaped LaTeX specials: \&
checkRd: (-1) path_to_network.Rd:29: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) gPLS.Rd:72: Escaped LaTeX specials: \^
checkRd: (-1) gPLS.Rd:74: Escaped LaTeX specials: \^
checkRd: (-1) sPLS.Rd:67: Escaped LaTeX specials: \^
checkRd: (-1) sPLS.Rd:69: Escaped LaTeX specials: \^
checkRd: (-1) sgPLS.Rd:75: Escaped LaTeX specials: \^
checkRd: (-1) sgPLS.Rd:77: Escaped LaTeX specials: \^
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Other ideas
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following significant warnings:

  Warning: 'rgl.open' is deprecated.
  Warning: 'rgl.bg' is deprecated.
  Warning: 'rgl.open' is deprecated.
  Warning: 'rgl.bg' is deprecated.
  Warning: 'rgl.open' is deprecated.
  Warning: 'rgl.bg' is deprecated.
  Warning: 'rgl.open' is deprecated.
  Warning: 'rgl.bg' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
resampletest 5.297   0.04   7.086
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rCOSA’
Package unavailable to check Rd xrefs: ‘rCOSA’
Package suggested but not available for checking: ‘hydromad’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cmdstanr’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘.shiny_run’ ‘shinyShortcut.desktop’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cmdstanr’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./cairodev.h:86:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  cairodev.c:11:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./outline.h:64:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./util.h:44:39: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./util.h:47:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  outline.c:169:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  register_routines.c:8:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  showtext.c:111:18: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  util.c:43:39: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  util.c:53:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/showtext.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘MM.csv’ ‘Simul.csv’ ‘catalytic.csv’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following files/directories:
  ‘ExportFigtree1.tre’
checkRd: (-1) chol_s2Dp.Rd:147: Escaped LaTeX specials: \&
checkRd: (-1) chol_s2Dp.Rd:149: Escaped LaTeX specials: \&
checkRd: (-1) precision_builder.Rd:87: Escaped LaTeX specials: \&
checkRd: (-1) sim2D_RandSet_HPPP.Rd:93: Escaped LaTeX specials: \&
checkRd: (-1) sim2D_binarymap.Rd:157: Escaped LaTeX specials: \&
checkRd: (-1) sim_MVN_X.Rd:140: Escaped LaTeX specials: \&
checkRd: (-1) sim_Y_Binary_X.Rd:221: Escaped LaTeX specials: \&
checkRd: (-1) sim_Y_Binary_X.Rd:223: Escaped LaTeX specials: \&
checkRd: (-1) sim_Y_MVN_X.Rd:213: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘database.csv’ ‘output.csv’ ‘output_clst.csv’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following files/directories:
  ‘res_mutation.tsv’ ‘res_mutationCounts.txt’
  ‘res_processContribution.txt’ ‘res_processes.txt’
Found the following files/directories:
  ‘simu.pheno’ ‘usedpars.txt’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    simpleCache [0.0.1]
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘SimRAD-exampleRefSeq-Fasta.fa’ ‘SimRAD-exampleRefSeq.fa’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Specified C++14: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Version (Date)
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘SIPmg-vignette.Rmd’ using rmarkdown
Quitting from lines 248-256 (SIPmg-vignette.Rmd) 
Error: processing vignette ‘SIPmg-vignette.Rmd’ failed with diagnostics:
ℹ In argument: `grouped_seq_cov = purrr::map2(...)`.
Caused by error in `purrr::map2()`:
ℹ In index: 1.
Caused by error in `dplyr::na_if()`:
! Can't convert `y` <double> to match type of `x` <tbl_df>.
--- failed re-building ‘SIPmg-vignette.Rmd’

SUMMARY: processing the following file failed:
  ‘SIPmg-vignette.Rmd’

Error: Vignette re-building failed.
Execution halted
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘kmndirs’
Unavailable namespace imported from by a ‘:::’ call: ‘kmndirs’
  See the note in ?`:::` about the use of this operator.
Found the following significant warnings:
  /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/RcppParallel/include/RcppParallel/RMatrix.h:18:24: warning: 'iterator<std::random_access_iterator_tag, int, unsigned long>' is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/skm.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Debian clang version 15.0.6’
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) ex0723.Rd:29: Escaped LaTeX specials: \&
checkRd: (-1) ex0915.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) ex1515.Rd:4: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) slp-package.Rd:38: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Unknown package ‘InformationValue’ in Rd xrefs
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rPython’
'LazyData' is specified without a 'data' directory
File ‘smoof/libs/smoof.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘benchmarkshelper.o’

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.
'LazyData' is specified without a 'data' directory
checkRd: (-1) hoods2dsmooth.Rd:69: Escaped LaTeX specials: \&
checkRd: (-1) kernel2dmeitsjer.Rd:75: Escaped LaTeX specials: \&
checkRd: (-1) kernel2dsmooth.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) smoothie-package.Rd:42: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./Scythe_Matrix_Iterator.h:192:17: warning: 'iterator<std::random_access_iterator_tag, bool>' is deprecated [-Wdeprecated-declarations]
  ./Scythe_Matrix_Iterator.h:192:17: warning: 'iterator<std::random_access_iterator_tag, double>' is deprecated [-Wdeprecated-declarations]
  ./Scythe_Matrix_Iterator.h:73:17: warning: 'iterator<std::random_access_iterator_tag, double>' is deprecated [-Wdeprecated-declarations]
  ./Scythe_Matrix_Iterator.h:73:17: warning: 'iterator<std::random_access_iterator_tag, int>' is deprecated [-Wdeprecated-declarations]
  ./Scythe_Matrix_Iterator.h:192:17: warning: 'iterator<std::random_access_iterator_tag, int>' is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/smoothSurv.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Debian clang version 15.0.6’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘my_new_social_media_plot.png’
Found the following significant warnings:

  Warning: 'rgl::rgl.viewpoint' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.points' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  SnowballC_init.c:7:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  stem.c:59:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/SnowballC.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
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’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) llwrPTF.Rd:7: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) plot.som.Rd:27: Escaped LaTeX specials: \_
checkRd: (-1) som.Rd:128: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
File ‘soobench/libs/soobench.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘benchmarkshelper.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘SciencesPo’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘r2cytoscape’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘NLMR’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Unknown package ‘sparsebn’ in Rd xrefs
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) grid2latlong.Rd:22: Escaped LaTeX specials: \$
checkRd: (-1) latlong2grid.Rd:22: Escaped LaTeX specials: \$
Package suggested but not available for checking: ‘INLA’
Package suggested but not available for checking: ‘INLA’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) sarorderedprobit.Rd:84: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Depends: includes the non-default packages:
  'spatstat.geom', 'spatstat.random', 'spatstat.explore',
  'spatstat.model', 'spatstat.linnet', 'spatstat.data', 'spatstat',
  'rpanel', 'tcltk'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
Depends: includes the non-default packages:
  'spatstat.data', 'spatstat.sparse', 'spatstat.geom',
  'spatstat.random', 'spatstat.explore', 'spatstat.model',
  'spatstat.linnet', 'spatstat'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
Depends: includes the non-default packages:
  'spatstat.data', 'spatstat.sparse', 'spatstat.geom',
  'spatstat.random', 'spatstat.explore', 'spatstat.model', 'spatstat'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
Packages suggested but not available for checking:
  'RandomFields', 'RandomFieldsUtils'

Depends: includes the non-default packages:
  'spatstat.data', 'spatstat.geom', 'spatstat.random',
  'spatstat.explore', 'nlme', 'rpart'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
Package unavailable to check Rd xrefs: ‘RandomFields’
Packages suggested but not available for checking:
  'RandomFields', 'RandomFieldsUtils'
Package unavailable to check Rd xrefs: ‘RandomFields’
Depends: includes the non-default packages:
  'spatstat.data', 'spatstat.geom', 'spatstat.random',
  'spatstat.explore', 'spatstat.model', 'spatstat.linnet'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘spDataLarge’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Roadmap of specklestar package
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) image.plot.Rd:78: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘.neig’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
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’
Specified C++11: please update to current default of C++17
checkRd: (-1) PimaIndiansDiabetes_long.Rd:14: Escaped LaTeX specials: \^
checkRd: (-1) PimaIndiansDiabetes_wide.Rd:16: Escaped LaTeX specials: \^
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Feature Changes
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  timeObj.c:34:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  timeObj.c:63:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  zoneObj.c:29:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  zoneObj.c:52:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/splusTimeDate.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
File ‘splusTimeDate/libs/splusTimeDate.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘timeFormat.o’, ‘timeSpanFormat.o’

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.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./spMC.h:44:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  spMC.c:303:11: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/spMC.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    updates of 10th May 2021
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) shypEstFun.Rd:52: Escaped LaTeX specials: \$
checkRd: (-1) shypEstFun.Rd:54: Escaped LaTeX specials: \$
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) B_sraAutoreg.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) C_sraMechanistic.Rd:68: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
File ‘SSN/libs/SSN.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘dbfopenSSN.o’

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.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) Snacks.Rd:6: Escaped LaTeX specials: \~
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Major changes
    Bug fixes
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) katrina.Rd:36: Escaped LaTeX specials: \&
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘starschemar.Rmd’ using rmarkdown
Quitting from lines 354-363 (starschemar.Rmd) 
Error: processing vignette ‘starschemar.Rmd’ failed with diagnostics:
`x` must be a vector, not a <tbl_df/tbl/data.frame/dimension_table> object.
--- failed re-building ‘starschemar.Rmd’

SUMMARY: processing the following file failed:
  ‘starschemar.Rmd’

Error: Vignette re-building failed.
Execution halted
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    To do
Package suggested but not available for checking: ‘starsdata’
checkRd: (-1) multiCUMSUM.Rd:33: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘testmat.sdml’ ‘testmat2.sdml’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘asreml’
Package suggested but not available for checking: ‘asreml’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘asreml’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following possibly unsafe calls:
File ‘statnet.common/R/control.utilities.R’:
  unlockBinding("snctrl", environment(snctrl))
  unlockBinding("snctrl", environment(update_my_snctrl))
Package suggested but not available for checking: ‘networksis’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) stdGlm.Rd:93: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘INLA’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘corrviz.html’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Initial TODO
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘myNewStrat.R’
Package suggested but not available for checking: ‘StrathE2E2examples’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Malformed Title field: should not end in a period.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘STRaitRazoR’
efpFunctional: multiple local function definitions for ‘plotProcess’
  with different formal arguments
mefp.efp: multiple local function definitions for ‘computeEmpProc’ with
  different formal arguments
checkRd: (-1) SP2001.Rd:3: Escaped LaTeX specials: \&
checkRd: (-1) SP2001.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) SP2001.Rd:12: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package required but not available: ‘ChemmineR’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Found the following significant warnings:
  ../inst/include/sundials/sundials_nvector.h:163:37: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_nonlinearsolver.h:131:56: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_matrix.h:106:41: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_linearsolver.h:137:50: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sundials/sundials/sundials_linearsolver.c:28:34: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sundials/sundials/sundials_matrix.c:29:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sundials/sundials/sundials_nonlinearsolver.c:26:40: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  sundials/sundials/sundials_nvector.c:28:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/sundialr.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘extraTrees’
Unknown package ‘extraTrees’ in Rd xrefs
Package suggested but not available for checking: ‘extraTrees’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) estweights.Rd:42: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘INLA’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘distr6’
Unknown package ‘distr6’ in Rd xrefs
Found the following significant warnings:
  fastkm.c:172:34: warning: use of unary operator that may be intended as compound assignment (-=)
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/survival.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Unknown package ‘survJamda’ in Rd xrefs
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘survtmle-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: mean_tmle
> ### Title: TMLE for G-Computation of Cumulative Incidence
> ### Aliases: mean_tmle
> 
> ### ** Examples
> 
> 
> ## Single failure type examples
> # simulate data
> set.seed(1234)
> n <- 100
> trt <- rbinom(n,1,0.5)
> adjustVars <- data.frame(W1 = round(runif(n)), W2 = round(runif(n, 0, 2)))
> 
> ftime <- round(1 + runif(n, 1, 4) - trt + adjustVars$W1 + adjustVars$W2)
> ftype <- round(runif(n, 0, 1))
> 
> # Fit 1 - fit mean_tmle object with GLMs for treatment, censoring, failure
> fit1 <- mean_tmle(ftime = ftime, ftype = ftype,
+                   trt = trt, adjustVars = adjustVars,
+                   glm.trt = "W1 + W2",
+                   glm.ftime = "trt + W1 + W2",
+                   glm.ctime = "trt + W1 + W2")
'speedglm' ran into an error in withCallingHandlers.'glm' will be used instead.
Error in seq.int(min(dim(R))) : 'from' must be a finite number
Calls: mean_tmle -> estimateIteratedMean
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) diabetes.Rd:18: Escaped LaTeX specials: \^
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘swephRdata’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    CRAN release
Running examples in ‘SwimmeR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: name_reorder
> ### Title: Orders all names as "Firstname Lastname"
> ### Aliases: name_reorder
> 
> ### ** Examples
> 
> name_reorder(
+ data.frame(
+ Name = c("King, Lilly",
+  "Lilly King",
+  NA,
+  "Richards Ross, Sanya",
+  "Phelps, Michael F")),
+ verbose = TRUE
+ )
Error in `dplyr::na_if()`:
! Can't convert `y` <character> to match type of `x` <data.frame>.
Backtrace:
     ▆
  1. ├─SwimmeR::name_reorder(...)
  2. │ └─... %>% ...
  3. ├─dplyr::mutate(...)
  4. ├─dplyr::na_if(., "")
  5. │ └─vctrs::vec_cast(x = y, to = x, x_arg = "y", to_arg = "x")
  6. ├─dplyr::mutate(...)
  7. ├─dplyr::na_if(., "")
  8. │ └─vctrs::vec_cast(x = y, to = x, x_arg = "y", to_arg = "x")
  9. └─vctrs (local) `<fn>`()
 10.   └─vctrs::vec_default_cast(...)
 11.     ├─base::withRestarts(...)
 12.     │ └─base (local) withOneRestart(expr, restarts[[1L]])
 13.     │   └─base (local) doWithOneRestart(return(expr), restart)
 14.     └─vctrs::stop_incompatible_cast(...)
 15.       └─vctrs::stop_incompatible_type(...)
 16.         └─vctrs:::stop_incompatible(...)
 17.           └─vctrs:::stop_vctrs(...)
 18.             └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = vctrs_error_call(call))
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘SwimmeR.Rmd’ using rmarkdown
Quitting from lines 60-66 (SwimmeR.Rmd) 
Error: processing vignette ‘SwimmeR.Rmd’ failed with diagnostics:
Can't convert `y` <character> to match type of `x` <data.frame>.
--- failed re-building ‘SwimmeR.Rmd’

SUMMARY: processing the following file failed:
  ‘SwimmeR.Rmd’

Error: Vignette re-building failed.
Execution halted
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Additional functions and data sets
    Amendments to functions
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    pre-release switchboard (2020 - 2021)
'LazyData' is specified without a 'data' directory
Running ‘winpath.R’ [2s/3s]
Running the tests in ‘tests/winpath.R’ failed.
Complete output:
  > library(switchr)
  > ## if(getOption("repos")["CRAN"] == "@CRAN@")
  > ##     chooseCRANmirror(ind=1L)
  > graceful_inet(TRUE)
  [1] TRUE
  > checkUrlRoundtrip = function(pth) {
  +     pth = switchr:::normalizePath2(pth)
  +     furl = switchr:::makeFileURL(pth)
  +     pth2 = switchr:::fileFromFileURL(furl)
  +     if(pth != pth2)
  +         stop("Round trip result (", pth2, ") does not match original (", pth, ") when creating file URLs")
  + }
  > 
  > ## regression test to ensure that the roundtrip
  > ## between path and file url is working properly
  > checkUrlRoundtrip(getwd())
  > checkUrlRoundtrip(tempdir())
  > if(switchr:::isWindows())
  +     checkUrlRoundtrip("\\\\localhost\\c$")
  > 
  > ## regreossion test to ensure that package dependencies
  > ## are added to the dontunload list when a package
  > ## is specified
  > bef = switchrDontUnload()
  > af = switchrDontUnload("knitr")
  > stopifnot(all(c("stringr", "stringi", "magrittr") %in% af))
  Error: all(c("stringr", "stringi", "magrittr") %in% af) is not TRUE
  Execution halted
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'sylly.de', 'sylly.es'
checkRd: (-1) HINoV.SDA.rd:5: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  syncrng.c:192:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  syncrng.c:231:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  syncrng.c:236:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  syncrng.c:241:23: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/SyncRNG.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test.csv’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘.xls’ ‘attenu.xls’ ‘chick1.xls’ ‘chick2.xls’ ‘generic1.xls’
  ‘hands.xls’ ‘table1.xls’
checkRd: (-1) tmCtypes.Rd:22: Escaped LaTeX specials: \#
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) tapnet-package.Rd:40: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘tashudata’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘TDA’
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/TDA.Rcheck/00install.out’ for details.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package required but not available: ‘TDA’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘R2wd’
checkRd: (-1) R2txt.Rd:164: Escaped LaTeX specials: \#
checkRd: (-1) bct.Rd:18: Escaped LaTeX specials: \^
checkRd: (-1) bct.Rd:19: Escaped LaTeX specials: \^
checkRd: (-1) ineq.Rd:10: Escaped LaTeX specials: \&
checkRd: (-1) put.points.demo.Rd:39: Escaped LaTeX specials: \^
checkRd: (-1) run.cor.examp.Rd:10: Escaped LaTeX specials: \^
checkRd: (-1) run.cor.examp.Rd:31: Escaped LaTeX specials: \^
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gurobi’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Packages which this enhances but not available for checking:
  'mnlogit', 'Zelig'
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Unknown package ‘textreadr’ in Rd xrefs
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ./thor.h:18:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./thor.h:21:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./thor.h:23:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  ./thor.h:106:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  thor.c:9:15: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  thor.c:23:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  thor.c:35:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  thor.c:748:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/thor.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
File ‘thor/libs/thor.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘lmdb/mdb.o’, ‘util.o’

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.
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [23s/25s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(tidyCDISC)
  > library(shinyjs)
  
  Attaching package: 'shinyjs'
  
  The following objects are masked from 'package:methods':
  
      removeClass, show
  
  > 
  > test_check("tidyCDISC")
  [ FAIL 1 | WARN 13 | SKIP 15 | PASS 97 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • empty test (15)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-mod_indvExp_fct_buildEvents.R:60'): build_events fun ─────────
  colnames(...) not equal to c("START", "DECODE", "EVENTTYP", "DOMAIN", "END", "tab_st", "tab_en").
  7/7 mismatches
  x[1]: "EVENTTYP"
  y[1]: "START"
  
  x[2]: "START"
  y[2]: "DECODE"
  
  x[3]: "END"
  y[3]: "EVENTTYP"
  
  x[4]: "tab_st"
  y[4]: "DOMAIN"
  
  x[5]: "tab_en"
  y[5]: "END"
  
  [ FAIL 1 | WARN 13 | SKIP 15 | PASS 97 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Initial Release (v0.1.0)
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Minor changes:
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  common.c:36:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/tiff.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
File ‘tikzDevice/libs/tikzDevice.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘tikzDevice.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) compare.Rd:46: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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.
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘pca3d’
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'Rcampdf', 'tm.lexicon.GeneralInquirer'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘corpus.JSS.papers’
Specified C++11: please update to current default of C++17
Packages suggested but not available for checking:
  'RGtk2', 'gWidgets2RGtk2'
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘toscaData’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Enhancements
    Other changes
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘taxidata’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) dcc.Rd:227: Escaped LaTeX specials: \&
checkRd: (-1) seascorr.Rd:128: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘TreeDistData’
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Bug fixes
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  Warning: replacing previous import ‘ape::where’ by ‘dplyr::where’ when loading ‘treeplyr’
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/treeplyr.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  ../inst/include/radix/radix_tree_it.hpp:11:35: warning: 'iterator<std::forward_iterator_tag, std::pair<std::basic_string<char>, std::basic_string<char>>>' is deprecated [-Wdeprecated-declarations]
  ../inst/include/radix/radix_tree_it.hpp:11:35: warning: 'iterator<std::forward_iterator_tag, std::pair<std::basic_string<char>, int>>' is deprecated [-Wdeprecated-declarations]
  ../inst/include/radix/radix_tree_it.hpp:11:35: warning: 'iterator<std::forward_iterator_tag, std::pair<std::basic_string<char>, double>>' is deprecated [-Wdeprecated-declarations]
  ../inst/include/radix/radix_tree_it.hpp:11:35: warning: 'iterator<std::forward_iterator_tag, std::pair<std::basic_string<char>, bool>>' is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/triebeard.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Changes
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) TempDisaggDGP.Rd:79: Escaped LaTeX specials: \&
checkRd: (-1) disaggregate.Rd:56: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Updates for the development version (0.1.0.9000) on Github
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Found the following significant warnings:
  libqhull/geom2.c:1950:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/TukeyRegion.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
File ‘TukeyRegion/libs/TukeyRegion.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘libqhull/global.o’, ‘libqhull/rboxlib.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) lindner.Rd:44: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘sl3’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package required but not available: ‘ChemmineR’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  interface.c:114:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/ucminf.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘USAboundariesData’
Package suggested but not available for checking: ‘USA.state.boundaries.data’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  rand.c:90:21: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  rand.c:92:24: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  rand.c:103:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  rand.c:138:17: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/uuid.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'vaers', 'vaersND'
Packages suggested but not available for checking: 'vaers', 'vaersND'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘PredValidationPlots.pdf’ ‘RepStructValidationPlots.pdf’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) randomVarImpsRFplot.Rd:97: Escaped LaTeX specials: \&
checkRd: (-1) varSelImpSpecRF.Rd:83: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) irf.Rd:111: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ad_frequency.cpp:122:43: warning: ignoring return value of function declared with 'nodiscard' attribute [-Wunused-result]
  masplit.cpp:152:43: warning: ignoring return value of function declared with 'nodiscard' attribute [-Wunused-result]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/vcfR.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  computeCox.c:15:19: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/vdra.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) value.Rd:32: Escaped LaTeX specials: \$ \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) checkTS.VGAMextra.Rd:176: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
File ‘VIC5/libs/VIC5.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘vic/drivers/shared_all/src/compress_files.o’,
      ‘vic/drivers/shared_all/src/input_tools.o’,
      ‘vic/drivers/shared_all/src/print_library_shared.o’,
      ‘vic/drivers/shared_all/src/vic_log.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    NEW FEATURES
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    NEWS UPDATES:
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    vortexRdata pre-1.0.3
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘ReconstructedData.txt’ ‘ReconstructedDataStDev.txt’
  ‘ResampledReconstructions.txt’
  ‘ResampledReconstructionsStandardVariation.txt’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running examples in ‘wcep-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: wcep
> ### Title: Analysis of weighted composite endpoints
> ### Aliases: wcep
> 
> ### ** Examples
> 
> data(toyexample)
> #event weights
> EW <- data.frame(event = c('CHF','DTH','SHK','REMI'), weight = c(0.3,1,0.5,0.2))
> res1 <- wcep(toyexample, EW)
Error in `left_join()`:
! `...` must be empty.
✖ Problematic argument:
• stringsAsFactors = FALSE
Backtrace:
    ▆
 1. └─wcep::wcep(toyexample, EW)
 2.   └─wcep:::wcep_core(x[, 1:3], EW, alpha)
 3.     ├─dplyr::left_join(ew_h0, ew1, by = "event", stringsAsFactors = FALSE)
 4.     └─dplyr:::left_join.data.frame(ew_h0, ew1, by = "event", stringsAsFactors = FALSE)
 5.       └─rlang::check_dots_empty0(...)
 6.         └─rlang::check_dots_empty(call = call)
 7.           └─rlang:::action_dots(...)
 8.             ├─base (local) try_dots(...)
 9.             └─rlang (local) action(...)
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘prepr’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
File ‘webfakes/libs/webfakes.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘civetweb.o’

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.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Package suggested but not available for checking: ‘rgeolocate’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  init.c:11:39: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/WeightedCluster.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘ATE’
Unknown package ‘ATE’ in Rd xrefs
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Major changes
    Minor changes
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  random_wrap.c:9:22: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/wnominate.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘aphiainfo.csv’ ‘tax.csv’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Malformed Description field: should contain one or more complete sentences.
Malformed Description field: should contain one or more complete sentences.
File ‘wrassp/libs/wrassp.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘assp/acf.o’, ‘assp/mhs.o’, ‘assp/smp2dur.o’,
      ‘assp/headers.o’, ‘assp/spectra.o’, ‘assp/asspfio.o’,
      ‘assp/asspmess.o’, ‘assp/ksv.o’, ‘assp/aucheck.o’,
      ‘assp/labelobj.o’, ‘assp/numdecim.o’, ‘assp/filter.o’,
      ‘assp/zcr.o’, ‘assp/rfc.o’, ‘assp/fmt.o’, ‘assp/rms.o’,
      ‘dataobj.o’

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.
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘RP2_data_1.txt’ ‘RP2_data_4.txt’ ‘RP2_qtl_1.txt’ ‘RP2_qtl_4.txt’
  ‘hp1_effect_qtl.txt’ ‘hp1_freq_mrk.txt’ ‘hp1_freq_qtl.txt’
  ‘hp1_genome.txt’ ‘hp1_last_hp_data.txt’ ‘hp1_lm_mrk.txt’
  ‘hp1_lm_qtl.txt’ ‘hp1_lm_qtl_mrk.txt’ ‘hp1_mrk.txt’ ‘hp1_qtl.txt’
  ‘hp2_effect_qtl.txt’ ‘hp2_freq_mrk.txt’ ‘hp2_freq_qtl.txt’
  ‘hp2_genome.txt’ ‘hp2_last_hp_data.txt’ ‘hp2_lm_mrk.txt’
  ‘hp2_lm_qtl.txt’ ‘hp2_lm_qtl_mrk.txt’ ‘hp2_mrk.txt’ ‘hp2_qtl.txt’
  ‘my_RP_data_1.txt’ ‘my_RP_data_4.txt’ ‘my_RP_mrk_1.txt’
  ‘my_RP_mrk_4.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘xgb.txt’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  init.c:24:25: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:25:29: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:71:31: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
  init.c:72:30: warning: a function declaration without a prototype is deprecated in all versions of C [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/xml2.Rcheck/00install.out’ for details.
* used C compiler: ‘Debian clang version 15.0.6’
* used C++ compiler: ‘Debian clang version 15.0.6’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'ChemmineR', 'fmcsR'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) read.npc.vpc.results.Rd:16: Escaped LaTeX specials: \_
checkRd: (-1) read.npc.vpc.results.Rd:19: Escaped LaTeX specials: \_ \_ \_ \_ \_ \_
checkRd: (-1) read.npc.vpc.results.Rd:22: Escaped LaTeX specials: \_
File ‘xptr/libs/xptr.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘xptr.o’

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.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘xtable.html’ ‘xtable.tex’
Found the following files/directories:
  ‘OPT.csv’ ‘testTecan_defaultLiquid.csv’ ‘testTecan_setLiquid.csv’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'RNRCS', 'metScanR'
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘zdat’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    NEW DEPENDENCIES
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: \_
Package suggested but not available for checking: ‘SDMTools’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘acceldata2.RData’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Packages suggested but not available for checking:
  'RGtk2', 'gWidgets2RGtk2'
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Example.jpeg’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Unknown packages ‘HI’, ‘MHadaptive’ in Rd xrefs
checkRd: (-1) ada.Rd:171: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [96s/147s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(admiral)
  > 
  > test_check("admiral")
  [1] "N" "Y" NA 
  [ FAIL 1 | WARN 15 | SKIP 0 | PASS 567 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-derive_joined.R:85'): derive_vars_joined Test 3: by_vars with rename ──
  Error in `filter(dataset, !!filter)`: ℹ In argument: `FADT < TRTSDTM`.
  Caused by error in `<.Date`:
  ! object 'check_tzones' not found
  Backtrace:
       ▆
    1. ├─admiraldev::expect_dfs_equal(...) at test-derive_joined.R:85:2
    2. │ └─diffdf::diffdf(...)
    3. ├─admiral::derive_vars_joined(...)
    4. │ └─admiraldev::filter_if(data_joined, filter_join)
    5. │   ├─dplyr::filter(dataset, !!filter)
    6. │   └─dplyr:::filter.data.frame(dataset, !!filter)
    7. │     └─dplyr:::filter_rows(.data, dots, by)
    8. │       └─dplyr:::filter_eval(dots, mask = mask, error_call = error_call)
    9. │         ├─base::withCallingHandlers(...)
   10. │         └─mask$eval_all_filter(dots, env_filter)
   11. │           └─dplyr (local) eval()
   12. ├─lubridate (local) `<.Date`(FADT, TRTSDTM)
   13. └─base::.handleSimpleError(...)
   14.   └─dplyr (local) h(simpleError(msg, call))
   15.     └─rlang::abort(message, class = error_class, parent = parent, call = error_call)
  
  [ FAIL 1 | WARN 15 | SKIP 0 | PASS 567 ]
  Error: Test failures
  Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘adsl.Rmd’ using rmarkdown
--- finished re-building ‘adsl.Rmd’

--- re-building ‘bds_exposure.Rmd’ using rmarkdown
--- finished re-building ‘bds_exposure.Rmd’

--- re-building ‘bds_finding.Rmd’ using rmarkdown
--- finished re-building ‘bds_finding.Rmd’

--- re-building ‘bds_tte.Rmd’ using rmarkdown
--- finished re-building ‘bds_tte.Rmd’

--- re-building ‘generic.Rmd’ using rmarkdown
--- finished re-building ‘generic.Rmd’

--- re-building ‘higher_order.Rmd’ using rmarkdown
--- finished re-building ‘higher_order.Rmd’

--- re-building ‘imputation.Rmd’ using rmarkdown
--- finished re-building ‘imputation.Rmd’

--- re-building ‘lab_grading.Rmd’ using rmarkdown
--- finished re-building ‘lab_grading.Rmd’

--- re-building ‘occds.Rmd’ using rmarkdown
Quitting from lines 286-292 (occds.Rmd) 
Error: processing vignette ‘occds.Rmd’ failed with diagnostics:
ℹ In argument: `TRTEMFL = case_when(...)`.
Caused by error in `case_when()`:
! Failed to evaluate the left-hand side of formula 2.
Caused by error in `<.POSIXt`:
! object ‘check_tzones’ not found
--- failed re-building ‘occds.Rmd’

--- re-building ‘queries_dataset.Rmd’ using rmarkdown
--- finished re-building ‘queries_dataset.Rmd’

--- re-building ‘visits_periods.Rmd’ using rmarkdown
--- finished re-building ‘visits_periods.Rmd’

SUMMARY: processing the following file failed:
  ‘occds.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘table_AeRobiology’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) BerryMielke.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) BlairLacy.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) Kvalseth.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) consensus.variance.Rd:12: Escaped LaTeX specials: \&
checkRd: (-1) dsquared.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) l.variance.Rd:12: Escaped LaTeX specials: \&
checkRd: (-1) lsquared.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) lsquared.variance.Rd:12: Escaped LaTeX specials: \&
checkRd: (-1) var.variance.Rd:12: Escaped LaTeX specials: \&
checkRd: (-1) adapt.Rd:41: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘RandomFields’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘stuve.pdf’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
checkRd: (-1) ALF.Rd:47: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) optimalfrequency.Rd:29: Escaped LaTeX specials: \$
checkRd: (-1) optimalfrequency.Rd:30: Escaped LaTeX specials: \$
checkRd: (-1) optimalfrequency.Rd:31: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) deshrink.Rd:55: Escaped LaTeX specials: \&
checkRd: (-1) deshrink.Rd:51: Escaped LaTeX specials: \&
checkRd: (-1) plot.mat.Rd:60: Escaped LaTeX specials: \&
checkRd: (-1) plot.wa.Rd:46: Escaped LaTeX specials: \&
checkRd: (-1) predict.prcurve.Rd:5: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘BH-0.05-ListOfGenes.txt’ ‘BH-0.05-VM-ListOfGenes.txt’
  ‘CompleteListOfGenes.txt’ ‘GenesOutOfAnalysis.txt’
  ‘GenesOutOfAnalysis_NotEnoughObs.txt’
  ‘GenesOutOfAnalysis_NullVar.txt’ ‘VM-CompleteListOfGenes.txt’
  ‘bonferroni-0.05-ListOfGenes.txt’
  ‘bonferroni-0.05-VM-ListOfGenes.txt’
checkRd: (-1) AncestryMapper2.0-package.Rd:33: Escaped LaTeX specials: \~
checkRd: (-1) AncestryMapper2.0-package.Rd:38: Escaped LaTeX specials: \~
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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: \_ \_
Error(s) in re-building vignettes:
  ...
--- re-building ‘anomalize_methods.Rmd’ using rmarkdown
--- finished re-building ‘anomalize_methods.Rmd’

--- re-building ‘anomalize_quick_start_guide.Rmd’ using rmarkdown
Quitting from lines 159-171 (anomalize_quick_start_guide.Rmd) 
Error: processing vignette ‘anomalize_quick_start_guide.Rmd’ failed with diagnostics:
ℹ In argument: `date = collapse_index(...)`.
Caused by error in `validate_rounding_nunit()`:
! Rounding with week > 1 is not supported. Use aseconds for arbitrary units.
--- failed re-building ‘anomalize_quick_start_guide.Rmd’

--- re-building ‘forecasting_with_cleaned_anomalies.Rmd’ using rmarkdown
--- finished re-building ‘forecasting_with_cleaned_anomalies.Rmd’

SUMMARY: processing the following file failed:
  ‘anomalize_quick_start_guide.Rmd’

Error: Vignette re-building failed.
Execution halted
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  me.h:122:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  me.c:234:7: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ape.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following calls to attach():
File ‘apollo/R/apollo_attach.R’:
  attach(as.list(apollo_beta), warn.conflicts = FALSE)
  attach(database, warn.conflicts = FALSE)
  attach(draws, warn.conflicts = FALSE)
  attach(randcoeff, warn.conflicts = FALSE)
  attach(lcpars, warn.conflicts = FALSE)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
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’
Running ‘testthat.R’ [8s/12s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(apyramid)
  > 
  > test_check("apyramid")
  [ FAIL 1 | WARN 1 | SKIP 2 | PASS 72 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (2)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-age-pyramid.R:171'): missing split data are removed before plotting ──
  `age_pyramid(dat, age_group = "AGE", na.rm = FALSE)` produced warnings.
  
  [ FAIL 1 | WARN 1 | SKIP 2 | PASS 72 ]
  Error: Test failures
  Execution halted
checkRd: (-1) AQuadtree-package.Rd:11: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘TDA’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘argon2/libs/argon2.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘argon2/encoding.o’, ‘raw_as_char.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Packages suggested but not available for checking:
  'sfit', 'expectile', 'HaarSeg', 'mpcbs'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘ARTP’
Found the following significant warnings:
  ARTP2_init.c:17:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ARTP2.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
checkRd: (-1) breast_cancer_clean_features.Rd:45: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘asreml’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘asteRiskData’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Unknown package ‘snpar’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  driver.c:114:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  driver.c:161:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  driver.c:199:17: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/audio.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
File ‘audio/libs/audio.so’:
  Found non-API call to R: ‘R_checkActivity’

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

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  Warning: replacing previous import ‘ape::where’ by ‘dplyr::where’ when loading ‘autoGO’
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/autoGO.Rcheck/00install.out’ for details.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘a_intro.Rmd’ using rmarkdown
--- finished re-building ‘a_intro.Rmd’

--- re-building ‘b_analyze-hass-cntry.Rmd’ using rmarkdown
Quitting from lines 101-125 (b_analyze-hass-cntry.Rmd) 
Error: processing vignette ‘b_analyze-hass-cntry.Rmd’ failed with diagnostics:
ℹ In argument: `week_ending > lubridate::ymd("2017-09-10") & ...`.
Caused by error in `>.POSIXt`:
! object ‘check_tzones’ not found
--- failed re-building ‘b_analyze-hass-cntry.Rmd’

--- re-building ‘b_analyze-hass-region.Rmd’ using rmarkdown
--- finished re-building ‘b_analyze-hass-region.Rmd’

--- re-building ‘b_analyze-hass.Rmd’ using rmarkdown
--- finished re-building ‘b_analyze-hass.Rmd’

SUMMARY: processing the following file failed:
  ‘b_analyze-hass-cntry.Rmd’

Error: Vignette re-building failed.
Execution halted
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘lixoftConnectors’
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following files/directories:
  ‘exemplary_input1.txt’ ‘exemplary_input2.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  utilities.h:67:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  utilities.h:68:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  utilities.h:83:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  Ball_omp.h:6:19: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  Ball_omp.h:7:19: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  Ball_omp.h:8:19: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bd_gwas.c:260:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  utilities.c:1438:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  utilities.c:1446:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  utilities.c:1455:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/Ball.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
File ‘Ball/libs/Ball.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘utilities.o’

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.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘ArrayExpress’
'LazyData' is specified without a 'data' directory
checkRd: (-1) barcode.Rd:52: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  init.c:16:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/BART.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Error(s) in re-building vignettes:
  ...
--- re-building ‘baseballr.Rmd’ using rmarkdown
--- finished re-building ‘baseballr.Rmd’

--- re-building ‘ncaa_scraping.Rmd’ using rmarkdown
--- finished re-building ‘ncaa_scraping.Rmd’

--- re-building ‘plotting_statcast.Rmd’ using rmarkdown
--- finished re-building ‘plotting_statcast.Rmd’

--- re-building ‘using_statcast_pitch_data.Rmd’ using rmarkdown
Quitting from lines 38-40 (using_statcast_pitch_data.Rmd) 
Error: processing vignette ‘using_statcast_pitch_data.Rmd’ failed with diagnostics:
HTTP error 404.
--- failed re-building ‘using_statcast_pitch_data.Rmd’

SUMMARY: processing the following file failed:
  ‘using_statcast_pitch_data.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Earlier versions
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘rPython’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) BayesComm-package.Rd:33: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
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: \$
Found the following significant warnings:
  bayesDccGarch.c:48:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bayesDccGarch.c:110:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bayesDccGarch.c:172:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/bayesDccGarch.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:33: warning: ‘void* __builtin_memset(void*, int, long unsigned int)’ forming offset [112, 115] is out of the bounds [0, 112] of object ‘cbetaAllRow’ with type ‘arma::uvec’ {aka ‘arma::Col<unsigned int>’} [-Warray-bounds]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/bayesm.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) pulse_of_the_nation.Rd:10: Escaped LaTeX specials: \$
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
checkRd: (-1) bart.Rd:271: Escaped LaTeX specials: \_
File ‘BayesVarSel/libs/BayesVarSel.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘auxiliaryfuncs.o’

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.
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) create_ThetaMatrix.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) create_ThetaMatrix.Rd:41: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘fabiabreast.txt’
Package suggested but not available for checking: ‘INLA’
checkRd: (-1) tlsce.Rd:51: Escaped LaTeX specials: \_
checkRd: (-1) tlsce.Rd:55: Escaped LaTeX specials: \_
checkRd: (-1) tlsce.Rd:90: Escaped LaTeX specials: \_
checkRd: (-1) tlsce.Rd:93: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) Glendalough.Rd:19: Escaped LaTeX specials: \&
checkRd: (-1) Sluggan.Rd:19: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Packages suggested but not available for checking:
  'kBET', 'lisi', 'dlfUtils'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘dump.txt’
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘beast_plot_toy.pdf’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following files/directories:
  ‘alist.txt’ ‘rpkg’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  load.c:11:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  nanotime.h:6:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  nanotime.h:7:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  mark.c:75:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  mark.c:118:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  mark.c:119:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  nanotime.c:61:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  nanotime.c:71:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  process_memory.c:79:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/bench.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘SoDA’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) bgmm-package.Rd:23: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) dotPlot.Rd:56: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) Jeffreysbs.Rd:17: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  rbimax.c:326:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/biclust.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘ffbase’
Package suggested but not available for checking: ‘INLA’
Found the following significant warnings:
  lib.h:6:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  lib.c:3:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/bigGP.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
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’.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘rrelaxiv’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘outputs’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  binarizeBASCA.h:37:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  TASC.c:258:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  TASC_min.c:256:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  binarizeBASCA.c:358:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/Binarize.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) BinaryEPPM.Rd:159: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
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’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘msa’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘pointshape.dbf’ ‘pointshape.shp’ ‘pointshape.shx’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘asreml’
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) tocher.Rd:13: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  binarizeBASCA.h:37:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  TASC.c:258:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  TASC_min.c:256:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  binarizeBASCA.c:358:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/BiTrinA.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cmdstanr’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) posteriorFeasibility.Rd:25: Escaped LaTeX specials: \#
checkRd: (-1) sp500Returns.Rd:4: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:33: warning: ‘void* __builtin_memset(void*, int, long unsigned int)’ forming offset [176, 183] is out of the bounds [0, 176] of object ‘nMaxCritMet’ with type ‘arma::rowvec’ {aka ‘arma::Row<double>’} [-Warray-bounds]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/bmabasket.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  include/register.h:46:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  include/register.h:75:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  include/register.h:76:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  include/register.h:82:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  globals.c:15:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  globals.c:33:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  test.counter.c:26:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  test.counter.c:35:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/bnlearn.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘sangerseqR’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following significant warnings:
  common.c:15:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:9:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  random.h:12:22: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sat_search.c:106:10: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  symbolic_simulator.c:344:30: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/BoolNet.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
File ‘BoolNet/libs/BoolNet.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘picosat.o’

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.
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Packages suggested but not available for checking: 'cplexAPI', 'bestsubset'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    modules 0.x
'LazyData' is specified without a 'data' directory
checkRd: (-1) bpca.Rd:85: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) bp_rats.Rd:41: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
checkRd: (-1) R2txtJG.Rd:90: Escaped LaTeX specials: \#
Packages suggested but not available for checking: 'RGtk2', 'cairoDevice'
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘cmdstanr’
Package suggested but not available for checking: ‘glmmADMB’
checkRd: (-1) brr-package.Rd:33: Escaped LaTeX specials: \&
Found the following significant warnings:
  BugsHelper.c:76:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  BugsHelper.c:87:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  BugsHelper.c:88:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/BRugs.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Found the following Makefile(s) with an include directive with a pathname using R_HOME:
  src/Makefile.win
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'.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gvcm.cat’
Specified C++11: please update to current default of C++17
Unknown package ‘gvcm.cat’ in Rd xrefs
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) kink_estimator.Rd:60: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘C50/libs/C50.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘getnames.o’, ‘implicitatt.o’, ‘utility.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) deleteZeroComponents.Rd:70: Escaped LaTeX specials: \& \&
Found the following significant warnings:
  cairobem.c:50:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  Rapi.h:9:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  Rapi.h:11:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  cairotalk.c:661:23: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  cairotalk.c:1552:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  cairotalk.c:1588:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  xlib-backend.c:156:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/Cairo.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ReGenesees’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘campfin-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: all_files_new
> ### Title: Check if all files in a directory are new
> ### Aliases: all_files_new
> 
> ### ** Examples
> 
> tmp <- tempdir()
> file.create(tempfile(pattern = as.character(1:5)))
[1] TRUE TRUE TRUE TRUE TRUE
> all_files_new(tmp)
Error in `==.POSIXt`(file_days, lubridate::today()) : 
  object 'check_tzones' not found
Calls: all_files_new -> ==.POSIXt
Execution halted
Running ‘spelling.R’ [0s/1s]
  Running ‘testthat.R’ [5s/10s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(campfin)
  > 
  > test_check("campfin")
  [ FAIL 2 | WARN 4 | SKIP 6 | PASS 163 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (6)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-new-files.R:19'): the age of all files in a directory can be checked ──
  Error in ``==.POSIXt`(file_days, lubridate::today())`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. ├─testthat::expect_true(all_files_new(tmp_dir)) at test-new-files.R:19:2
   2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
   3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
   4. └─campfin::all_files_new(tmp_dir)
   5.   └─lubridate (local) `==.POSIXt`(file_days, lubridate::today())
  ── Error ('test-new-files.R:23'): the age of a single file can be checked ──────
  Error in ``==.POSIXt`(mod_day, lubridate::today())`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. ├─testthat::expect_true(this_file_new(tmp_one)) at test-new-files.R:23:2
   2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
   3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
   4. └─campfin::this_file_new(tmp_one)
   5.   └─lubridate (local) `==.POSIXt`(mod_day, lubridate::today())
  
  [ FAIL 2 | WARN 4 | SKIP 6 | PASS 163 ]
  Error: Test failures
  Execution halted
Package suggested but not available for checking: ‘RxODE’
'LazyData' is specified without a 'data' directory
Running examples in ‘camtrapR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: cameraOperation
> ### Title: Create a camera trap station operability matrix
> ### Aliases: cameraOperation
> 
> ### ** Examples
> 
> 
> 
> data(camtraps)
> 
> # no problems/malfunction
> camop_no_problem <- cameraOperation(CTtable      = camtraps,
+                                     stationCol   = "Station",
+                                     setupCol     = "Setup_date",
+                                     retrievalCol = "Retrieval_date",
+                                     writecsv     = FALSE,
+                                     hasProblems  = FALSE,
+                                     dateFormat   = "dmy"
+ )
Error in `<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01")) : 
  object 'check_tzones' not found
Calls: cameraOperation -> <.POSIXt
Execution halted
Running ‘test-all.R’ [20s/32s]
Running the tests in ‘tests/test-all.R’ failed.
Complete output:
  > library(testthat)
  > # test only if exiftool is available
  > if(Sys.which("exiftool") != ""){
  +   test_check("camtrapR")
  + }
  Loading required package: camtrapR
  [ FAIL 3 | WARN 0 | SKIP 0 | PASS 21 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_cameraOperation.R:10'): (code run outside of `test_that()`) ────
  Error in ``<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. └─camtrapR::cameraOperation(...) at test_cameraOperation.R:10:0
   2.   └─lubridate (local) `<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))
  ── Error ('test_detectionHistory.R:9'): (code run outside of `test_that()`) ────
  Error in ``<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. └─camtrapR::cameraOperation(...) at test_detectionHistory.R:9:0
   2.   └─lubridate (local) `<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))
  ── Error ('test_surveyReport.R:24'): (code run outside of `test_that()`) ───────
  Error in ``<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. └─camtrapR::cameraOperation(...) at test_surveyReport.R:24:0
   2.   └─lubridate (local) `<.POSIXt`(CTtable[, setupCol], as.Date("1970-01-01"))
  
  [ FAIL 3 | WARN 0 | SKIP 0 | PASS 21 ]
  Error: Test failures
  Execution halted
Found the following files/directories:
  ‘tmp.txt’
Found the following files/directories:
  ‘MDA231_tree.pdf’
checkRd: (-1) caic-class.Rd:14: Escaped LaTeX specials: \$ \$
checkRd: (-1) caic-class.Rd:15: Escaped LaTeX specials: \$ \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    captr .1.4
    captr .1.3
    captr .1.2
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) States.Rd:48: Escaped LaTeX specials: \$
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
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GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘GAMBoost’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘catmapdata.fixed.effects.plot.pdf’ ‘catmapdata.funnel.plot.pdf’
  ‘catmapdata.output.txt’ ‘catmapdata.random.effects.plot.pdf’
checkRd: (-1) belt.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) bipf.Rd:78: Escaped LaTeX specials: \&
checkRd: (-1) crime.Rd:17: Escaped LaTeX specials: \&
checkRd: (-1) da.cat.Rd:61: Escaped LaTeX specials: \&
checkRd: (-1) dabipf.Rd:170: Escaped LaTeX specials: \&
checkRd: (-1) ecm.cat.Rd:77: Escaped LaTeX specials: \&
checkRd: (-1) em.cat.Rd:64: Escaped LaTeX specials: \&
checkRd: (-1) ipf.Rd:74: Escaped LaTeX specials: \&
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checkRd: (-1) older.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) prelim.cat.Rd:67: Escaped LaTeX specials: \&
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'LazyData' is specified without a 'data' directory
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GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) tpcExample.Rd:30: Escaped LaTeX specials: \&
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Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    News about the ccdf R package
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘hotcold.csv’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘CirceR’
Found the following files/directories:
  ‘out.png’ ‘out1.txt’ ‘out2.txt’
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘figure01ceg.pdf’ ‘figure02ceg.pdf’ ‘staged.tree.graph.pdf’
  ‘stratified-event-tree-plot.pdf’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Unexported objects imported by ‘:::’ calls:
  ‘copula:::dCdu’ ‘copula:::fitCopStart’
  See the note in ?`:::` about the use of this operator.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘alr3’
Problems with news in ‘NEWS.md’:
No news entries found.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Major refactoring of the code
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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Package suggested but not available for checking: ‘darts’
'LazyData' is specified without a 'data' directory
checkRd: (-1) hyptis.Rd:31: Escaped LaTeX specials: \&
Found the following files/directories:
  ‘stepres00.txt’
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Package suggested but not available for checking: ‘countreg’
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Package suggested but not available for checking: ‘cmdstanr’
Package unavailable to check Rd xrefs: ‘cmdstanr’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘entab’
'LazyData' is specified without a 'data' directory
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Package suggested but not available for checking: ‘userfriendlyscience’
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Running examples in ‘circumplex-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: score
> ### Title: Score circumplex scales from item responses
> ### Aliases: score
> 
> ### ** Examples
> 
> data("raw_iipsc")
> instrument("iipsc")
> score(raw_iipsc, IIP01:IIP32, iipsc)
Error in `mutate()`:
ℹ In argument: `PA = (structure(function (..., .x = ..1, .y = ..2, . =
  ..1) ...`.
Caused by error in `dplyr::na_if()`:
! Can't convert `y` <character> to match type of `x` <double>.
Backtrace:
     ▆
  1. ├─circumplex::score(raw_iipsc, IIP01:IIP32, iipsc)
  2. │ └─... %>% dplyr::mutate_all(~ dplyr::na_if(., "NaN"))
  3. ├─dplyr::mutate_all(., ~dplyr::na_if(., "NaN"))
  4. │ ├─dplyr::mutate(.tbl, !!!funs)
  5. │ └─dplyr:::mutate.data.frame(.tbl, !!!funs)
  6. │   └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by)
  7. │     ├─base::withCallingHandlers(...)
  8. │     └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns)
  9. │       └─mask$eval_all_mutate(quo)
 10. │         └─dplyr (local) eval()
 11. ├─circumplex (local) `<inln_cl_>`(PA)
 12. │ └─rlang::eval_bare(`_quo`, base::parent.frame())
 13. ├─dplyr::na_if(., "NaN")
 14. ├─dplyr::na_if(., "NaN")
 15. │ └─vctrs::vec_cast(x = y, to = x, x_arg = "y", to_arg = "x")
 16. └─vctrs (local) `<fn>`()
 17.   └─vctrs::vec_default_cast(...)
 18.     ├─base::withRestarts(...)
 19.     │ └─base (local) withOneRestart(expr, restarts[[1L]])
 20.     │   └─base (local) doWithOneRestart(return(expr), restart)
 21.     └─vctrs::stop_incompatible_cast(...)
 22.       └─vctrs::stop_incompatible_type(...)
 23.         └─vctrs:::stop_incompatible(...)
 24.           └─vctrs:::stop_vctrs(...)
 25.             └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = vctrs_error_call(call))
Execution halted
Running ‘testthat.R’ [13s/21s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(circumplex)
  > 
  > test_check("circumplex")
  [ FAIL 1 | WARN 0 | SKIP 17 | PASS 100 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (13)
  • getRversion() > 4 is TRUE (4)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-tidying_functions.R:29'): score works ──────────────────────────
  <dplyr:::mutate_error/rlang_error/error/condition>
  Error in `mutate(.tbl, !!!funs)`: i In argument: `PA = (structure(function (..., .x = ..1, .y = ..2, . = ..1) ...`.
  Caused by error in `dplyr::na_if()`:
  ! Can't convert `y` <character> to match type of `x` <double>.
  
  [ FAIL 1 | WARN 0 | SKIP 17 | PASS 100 ]
  Error: Test failures
  Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘intermediate-ssm-analysis.Rmd’ using rmarkdown
--- finished re-building ‘intermediate-ssm-analysis.Rmd’

--- re-building ‘introduction-to-ssm-analysis.Rmd’ using rmarkdown
--- finished re-building ‘introduction-to-ssm-analysis.Rmd’

--- re-building ‘using-instruments.Rmd’ using rmarkdown
Quitting from lines 135-137 (using-instruments.Rmd) 
Error: processing vignette ‘using-instruments.Rmd’ failed with diagnostics:
ℹ In argument: `PA = (structure(function (..., .x = ..1, .y = ..2, . =
  ..1) ...`.
Caused by error in `dplyr::na_if()`:
! Can't convert `y` <character> to match type of `x` <double>.
--- failed re-building ‘using-instruments.Rmd’

SUMMARY: processing the following file failed:
  ‘using-instruments.Rmd’

Error: Vignette re-building failed.
Execution halted
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    clhs_0.7-2
    clhs_0.7-0
    clhs_0.6-0
    clhs_0.5-7
    clhs_0.5-6
    clhs_0.5-3
    clhs_0.5-2
    clhs_0.5-1
    clhs_0.5-0
    clhs_0.4-3
    clhs_0.4-2
    clhs_0.4-1
    clhs_0.4-0
    clhs_0.3-2
    clhs_0.3-1
    clhs_0.3-0
    clhs_0.2-1
    clhs_0.2-0
    clhs_0.1-0
'LazyData' is specified without a 'data' directory
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checkRd: (-1) diagwl.Rd:3: Escaped LaTeX specials: \&
checkRd: (-1) diagwl.Rd:5: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    clinfun (development version)
checkRd: (-1) coxphCPE.Rd:2: Escaped LaTeX specials: \&
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Problems with news in ‘NEWS.md’:
No news entries found.
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'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
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Found the following significant warnings:
  criteria.h:45:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  criteria.h:48:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/clusterCrit.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
File ‘clusterCrit/libs/clusterCrit.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘criteria.o’

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.
checkRd: (-1) genRandomClust.Rd:228: Escaped LaTeX specials: \_
checkRd: (-1) genRandomClust.Rd:259: Escaped LaTeX specials: \_
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Found the following files/directories:
  ‘clusterhap_reports’
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checkRd: (-1) HINoV.Mod.rd:3: Escaped LaTeX specials: \&
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checkRd: (-1) dtmvnom.Rd:30: Escaped LaTeX specials: \&
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Found the following significant warnings:
  optimal_assignment.c:47:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/clv.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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checkRd: (-1) plot.predict.crrQR.Rd:18: Escaped LaTeX specials: \#
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checkRd: (-1) plot.predict.crr.Rd:18: Escaped LaTeX specials: \#
checkRd: (-1) plot.predict.crr.Rd:22: Escaped LaTeX specials: \#
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘tobit1’
'LazyData' is specified without a 'data' directory
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GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘PopGenome’
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checkRd: (-1) drqssbc.Rd:83: Escaped LaTeX specials: \&
checkRd: (-1) qbsks.Rd:81: Escaped LaTeX specials: \&
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Package which this enhances but not available for checking: ‘rkward’
Package which this enhances but not available for checking: ‘rkward’
Package suggested but not available for checking: ‘userfriendlyscience’
Found the following files/directories:
  ‘foo.R’ ‘foo.html’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [5s/8s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(colourvalues)
  > 
  > test_check("colourvalues")
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 521 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-colour_values_hex.R:54'): matrix palette accepted ────────────
  all(...) is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  ── Failure ('test-colour_values_hex.R:66'): matrix palette accepted ────────────
  all(...) is not TRUE
  
  `actual`:   FALSE
  `expected`: TRUE 
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 521 ]
  Error: Test failures
  Execution halted
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘cometExactTest_plot.pdf’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
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'LazyData' is specified without a 'data' directory
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Package suggested but not available for checking: ‘CAM’
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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checkRd: (-1) babies.Rd:35: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘quickdemo.Rmd’ using rmarkdown
Quitting from lines 38-46 (quickdemo.Rmd) 
Error: processing vignette ‘quickdemo.Rmd’ failed with diagnostics:
ℹ In argument: `his.lag = if_else(...)`.
ℹ In group 1: `ID = 1`.
Caused by error in `nth()`:
! Can't convert `default` <character> to match type of `x` <double>.
--- failed re-building ‘quickdemo.Rmd’

--- re-building ‘selectionbias.Rmd’ using rmarkdown
Quitting from lines 154-164 (selectionbias.Rmd) 
Error: processing vignette ‘selectionbias.Rmd’ failed with diagnostics:
ℹ In argument: `his.lag = if_else(...)`.
ℹ In group 1: `ID = 1001`.
Caused by error in `nth()`:
! Can't convert `default` <character> to match type of `x` <double>.
--- failed re-building ‘selectionbias.Rmd’

SUMMARY: processing the following files failed:
  ‘quickdemo.Rmd’ ‘selectionbias.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘design_names.csv’ ‘design_numbers.csv’
  ‘encoded_orthogonal_factorial_design.csv’
  ‘orthogonal_factorial_design.csv’
Specified C++11: please update to current default of C++17
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Packages suggested but not available for checking: 'conosPanel', 'p2data'
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Specified C++11: please update to current default of C++17
checkRd: (-1) plotMCC.Rd:19: Escaped LaTeX specials: \_
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GNU make is a SystemRequirements.
Found the following significant warnings:
  brentmin.c:237:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ContaminatedMixt.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'cec2005benchmark', 'cec2013'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) BrownBigrams.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) BrownLOBPassives.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) BrownPassives.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) BrownStats.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) KrennPPV.Rd:19: Escaped LaTeX specials: \&
checkRd: (-1) KrennPPV.Rd:74: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) sgt.Rd:16: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
checkRd: (-1) egde.Rd:26: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) cosmoFns-package.Rd:34: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  bb.c:719:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ibb.c:78:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/countdata.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘covfefe_inauguration.txt’
'LazyData' is specified without a 'data' directory
File ‘CovRegRF/libs/CovRegRF.so’:
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘randomForestSRC.o’

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.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  bcplm.c:84:22: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/cplm.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Non-visible changes:
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘crop.eps’ ‘crop.pdf’ ‘crop.png’ ‘crop.ps’
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Major features
    Minor features
checkRd: (-1) handmovement.Rd:9: Escaped LaTeX specials: \_ \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  init.c:11:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ctmcd.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Hello.csv’
'LazyData' is specified without a 'data' directory
File ‘Cubist/libs/Cubist.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘construct.o’, ‘implicitatt.o’, ‘rules.o’, ‘utility.o’

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.
'LazyData' is specified without a 'data' directory
File ‘curl/libs/curl.so’:
  Found non-API call to R: ‘R_new_custom_connection’

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

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Adjusted_p_values.pdf’ ‘Effect_Size_Curves.pdf’
  ‘Mean_Difference_Curves.pdf’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Misc
checkRd: (-1) abs_d_ppv_npv.Rd:27: Escaped LaTeX specials: \_ \_ \_
Package which this enhances but not available for checking: ‘RGtk2’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages listed in more than one of Depends, Imports, Suggests, Enhances:
  ‘lattice’ ‘robustbase’
A package should be listed in only one of these fields.
Packages which this enhances but not available for checking:
  'gurobi', 'rcbc'
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) dspg.Rd:29: Escaped LaTeX specials: \^ \^
checkRd: (-1) dspgd2015.Rd:31: Escaped LaTeX specials: \^ \^
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘pca3d’
Package suggested but not available for checking: ‘dash’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘dash’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘dash’
Package suggested but not available for checking: ‘dash’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘my new data set.rds’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘stubthat’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Datastream DWE - now decommissioned by Refinitiv
    CRAN
Found the following significant warnings:
  init.c:29:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:30:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:31:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:33:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:34:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:36:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:37:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/datastructures.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘msa’
Package suggested but not available for checking: ‘SASxport’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘dblog’
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/concurrent_hash_map.h:343:23: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_queue_impl.h:744:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_queue_impl.h:1003:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_unordered_impl.h:67:36: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/RMatrix.h:18:24: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/dbmss.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  difeq.h:65:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  difeq.c:123:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  dopri.h:208:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  dopri.c:245:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/dde.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following files/directories:
  ‘res.pdf’ ‘res1.jpg’
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Changes from previous package DecompHoriuchi
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘smd_table.docx’
checkRd: (-1) lifetable.Rd:15: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
checkRd: (-1) scramb.Rd:44: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
checkRd: (-1) DendSer.Rd:50: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘Rdonlp2’
checkRd: (-1) discrimination.Rd:19: Escaped LaTeX specials: \&
checkRd: (-1) fitdmm.Rd:59: Escaped LaTeX specials: \$
Package suggested but not available for checking: ‘Rdonlp2’
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  deque.h:73:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  constructor.c:43:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  deque.c:31:10: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  dequer_native.c:9:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/dequer.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
checkRd: (-1) barriers.Rd:127: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
checkRd: (-1) geom_axis.Rd:10: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘RDCOMClient’
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  void_dev.c:103:10: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  void_dev.c:182:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  void_dev.c:197:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/devoid.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) phihat.Rd:34: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘gurobi’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘rrelaxiv’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) TempDisaggDGP.Rd:79: Escaped LaTeX specials: \&
checkRd: (-1) disaggregate.Rd:56: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘INLA’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) sammy.Rd:51: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘discreteMTP’
Unknown package ‘discreteMTP’ in Rd xrefs
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running examples in ‘disk.frame-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: anti_join.disk.frame
> ### Title: Performs join/merge for disk.frames
> ### Aliases: anti_join.disk.frame full_join.disk.frame
> ###   inner_join.disk.frame left_join.disk.frame semi_join.disk.frame
> 
> ### ** Examples
> 
> df.df = as.disk.frame(data.frame(x = 1:3, y = 4:6), overwrite = TRUE)
> df2.df = as.disk.frame(data.frame(x = 1:2, z = 10:11), overwrite = TRUE)
> 
> anti_joined.df = anti_join(df.df, df2.df) 
Warning in anti_join.disk.frame(df.df, df2.df) :
  merge_by_chunk_id = FALSE. This will take significantly longer and the preparations needed are performed eagerly which may lead to poor performance. Consider making y a data.frame or set merge_by_chunk_id = TRUE for better performance.
Appending disk.frames: 
Appending disk.frames: 
Error in anti_join(.x, .y, by = by, copy = copy, ..., overwrite = overwrite) : 
  `...` must be empty.
✖ Problematic arguments:
• ..1 = xch
• ..2 = ych
• overwrite = overwrite
ℹ Did you forget to name an argument?
Calls: anti_join ... resolve.list -> signalConditionsASAP -> signalConditions
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) booter.Rd:68: Escaped LaTeX specials: \&
checkRd: (-1) ci.booted.Rd:53: Escaped LaTeX specials: \&
checkRd: (-1) pbooter.Rd:57: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  rfftw.h:34:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  rfftw.c:149:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  util.c:231:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  zzz.h:10:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  zzz.h:44:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/diversitree.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Package suggested but not available for checking: ‘BOLTSSIRR’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Changes to previous versions
    Minor changes
    Fixes
    Previous Versions
checkRd: (-1) dlsem.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) unirootTest.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) unirootTest.Rd:20: Escaped LaTeX specials: \&
checkRd: (-1) unirootTest.Rd:26: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) dnr.Rd:12: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) block.catlg.Rd:61: Escaped LaTeX specials: \^ \^
Package which this enhances but not available for checking: ‘gurobi’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following significant warnings:

  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
  Warning: 'rgl::rgl.clear' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Examples with CPU (user + system) or elapsed time > 5s
              user system elapsed
poly.network 5.854  0.032  10.224
dkmap        5.290  0.091   7.089
angularity   4.419  0.234   7.379
dne          4.207  0.046   6.284
dkcrop       4.065  0.050   5.783
dkprofile    3.082  0.066   6.030
Found the following calls to attach():
File ‘doParallel/R/doParallel.R’:
  attach(exportEnv)
See section ‘Good practice’ in ‘?attach’.
Found the following significant warnings:
  alive.c:200:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  alive.c:277:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/doRedis.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    New features
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following calls to attach():
File ‘doSNOW/R/doSNOW.R’:
  attach(exportEnv)
See section ‘Good practice’ in ‘?attach’.
Package suggested but not available for checking: ‘OpenMPController’
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘myfile.ps’ ‘myfile.svg’
Unknown package ‘broomExtra’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
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: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘drawBox.pdf’ ‘drawCircle.pdf’ ‘drawCurve.pdf’ ‘drawLine.pdf’
  ‘drawPoint.pdf’ ‘drawSettingsExample.pdf’ ‘drawText.pdf’ ‘export.pdf’
'LazyData' is specified without a 'data' directory
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: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: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:33: warning: ‘void* __builtin_memset(void*, int, long unsigned int)’ forming offset [112, 115] is out of the bounds [0, 112] of object ‘i_end’ with type ‘arma::uvec’ {aka ‘arma::Col<unsigned int>’} [-Warray-bounds]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/dsfa.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘dsBaseClient’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [15s/22s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(dtplyr)
  > 
  > test_check("dtplyr")
  [ FAIL 1 | WARN 1 | SKIP 25 | PASS 603 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (24)
  • transmuting grouping vars with nesting is not supported (1)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-step-subset-slice.R:122'): slice_*() checks for empty ... ──────
  Error in `slice_head(dt, 5)`: `n` must be explicitly named.
  i Did you mean `slice_head(n = 5)`?
  Backtrace:
      ▆
   1. ├─testthat::expect_error(slice_head(dt, 5), class = "rlib_error_dots_nonempty") at test-step-subset-slice.R:122:2
   2. │ └─testthat:::expect_condition_matching(...)
   3. │   └─testthat:::quasi_capture(...)
   4. │     ├─testthat (local) .capture(...)
   5. │     │ └─base::withCallingHandlers(...)
   6. │     └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
   7. └─dplyr::slice_head(dt, 5)
   8.   └─dplyr:::check_slice_unnamed_n_prop(..., n = n, prop = prop)
   9.     └─rlang::abort(bullets, call = error_call)
  
  [ FAIL 1 | WARN 1 | SKIP 25 | PASS 603 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘cmdstanr’
Package unavailable to check Rd xrefs: ‘cmdstanr’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘lle’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  arms.c:105:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  arms.c:902:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/dynsurv.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    20181118
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘example_table1.csv’ ‘example_table1.txt’ ‘example_table2.csv’
  ‘example_table2.txt’ ‘example_table3.csv’ ‘example_table3.txt’
  ‘table1.csv’ ‘table2.csv’ ‘table2.txt’ ‘table3.txt’ ‘table4.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘easyr-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: atype
> ### Title: Auto-Type
> ### Aliases: atype
> 
> ### ** Examples
> 
> # create some data in all-characters.
> x = data.frame(
+      char = c( 'abc', 'def' ),
+      num = c( '1', '2' ),
+      date = c( '1/1/2018', '2018-2-01' ),
+      na = c( NA, NA ),
+      bool = c( 'TRUE', 'FALSE' ),
+      stringsAsFactors = FALSE
+ )
> 
> # different atype options. Note how the output types change.
> str( atype( x ) )
Error in value[[3L]](cond) : 
  easyr::atype error at column [char] : Error in `<.POSIXt`(test.conversion.char, min.acceptable): object 'check_tzones' not found
Calls: str ... doTryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘gurobi’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    breaking changes
    major changes
    minor changes
    Internal
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  include/ecos_bb.h:161:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ecos_bb/ecos_bb_preproc.c:298:14: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ecos/include/ecos_bb.h:161:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ECOSolveR.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘filters.Rmd’ using rmarkdown
--- finished re-building ‘filters.Rmd’

--- re-building ‘metrics.Rmd’ using rmarkdown
--- finished re-building ‘metrics.Rmd’

--- re-building ‘queue.Rmd’ using rmarkdown
Quitting from lines 77-79 (queue.Rmd) 
Error: processing vignette ‘queue.Rmd’ failed with diagnostics:
ℹ In argument: `n_queued = map(date, compute_nr_queued, queue =
  queueing_times, level = level)`.
Caused by error in `map()`:
ℹ In index: 1.
Caused by error in `filter()`:
ℹ In argument: `in_queue_since < date`.
Caused by error in `<.POSIXt`:
! object ‘check_tzones’ not found
--- failed re-building ‘queue.Rmd’

--- re-building ‘work_schedules.Rmd’ using rmarkdown
Quitting from lines 102-103 (work_schedules.Rmd) 
Error: processing vignette ‘work_schedules.Rmd’ failed with diagnostics:
ℹ In argument: `s_sensored = pmax(...)`.
Caused by error in `<.POSIXt`:
! object ‘check_tzones’ not found
--- failed re-building ‘work_schedules.Rmd’

SUMMARY: processing the following files failed:
  ‘queue.Rmd’ ‘work_schedules.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    TODO:
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘eval_test_LG_ROC.pdf’ ‘test.pdf’
Package suggested but not available for checking: ‘eggCountsExtra’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  eicm.h:70:19: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/eicm.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
File ‘eiPack/libs/eiPack.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘eiutil.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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: \_
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  emd-rubner.c:143:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  emd-rubner.c:153:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  emd-rubner.c:640:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  emd-rubner.c:810:20: warning: ‘minI’ is used uninitialized [-Wuninitialized]
  emd-rubner.c:810:26: warning: ‘minJ’ is used uninitialized [-Wuninitialized]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/emdist.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘osmar’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  utilities.h:7:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  utilities.c:14:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/emoa.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) encode.character.Rd:22: Escaped LaTeX specials: \~
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘file.path(temp_dir, gp2.csv)’
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Environmental variables.csv’ ‘Inf.txt’ ‘List of species.csv’ ‘Mean
  overlap among taxa.csv’ ‘Overlap among taxa.csv’ ‘Pointsize.dat’
  ‘Polar coordinates.csv’
'LazyData' is specified without a 'data' directory
checkRd: (-1) calibrate.Rd:151: Escaped LaTeX specials: \&
checkRd: (-1) cdfCompareCensored.Rd:299: Escaped LaTeX specials: \&
checkRd: (-1) detectionLimitCalibrate.Rd:149: Escaped LaTeX specials: \&
checkRd: (-1) ecdfPlotCensored.Rd:169: Escaped LaTeX specials: \&
checkRd: (-1) egammaAltCensored.Rd:344: Escaped LaTeX specials: \&
checkRd: (-1) egammaCensored.Rd:340: Escaped LaTeX specials: \&
checkRd: (-1) elnormAltCensored.Rd:694: Escaped LaTeX specials: \&
checkRd: (-1) elnormCensored.Rd:270: Escaped LaTeX specials: \&
checkRd: (-1) enormCensored.Rd:852: Escaped LaTeX specials: \&
checkRd: (-1) enparCensored.Rd:343: Escaped LaTeX specials: \&
checkRd: (-1) enparCensored.Rd:358: Escaped LaTeX specials: \&
checkRd: (-1) epoisCensored.Rd:354: Escaped LaTeX specials: \&
checkRd: (-1) ppointsCensored.Rd:406: Escaped LaTeX specials: \&
checkRd: (-1) predIntGammaSimultaneous.Rd:170: Escaped LaTeX specials: \&
checkRd: (-1) predIntGammaSimultaneous.Rd:171: Escaped LaTeX specials: \&
checkRd: (-1) predIntLnormSimultaneous.Rd:136: Escaped LaTeX specials: \&
checkRd: (-1) predIntLnormSimultaneous.Rd:137: Escaped LaTeX specials: \&
checkRd: (-1) predIntNormSimultaneous.Rd:204: Escaped LaTeX specials: \&
checkRd: (-1) predIntNormSimultaneous.Rd:205: Escaped LaTeX specials: \&
checkRd: (-1) predIntNormSimultaneousK.Rd:277: Escaped LaTeX specials: \&
checkRd: (-1) predIntNormSimultaneousK.Rd:278: Escaped LaTeX specials: \&
checkRd: (-1) qqPlotCensored.Rd:261: Escaped LaTeX specials: \&
checkRd: (-1) twoSampleLinearRankTest.Rd:276: Escaped LaTeX specials: \&
checkRd: (-1) twoSampleLinearRankTestCensored.Rd:324: Escaped LaTeX specials: \&
checkRd: (-1) twoSampleLinearRankTestCensored.Rd:331: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  report.c:1466:37: warning: argument to ‘sizeof’ in ‘snprintf’ call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess]
  report.c:1466:61: warning: ‘__builtin___snprintf_chk’ output may be truncated before the last format character [-Wformat-truncation=]
  rules.c:1364:40: warning: argument to ‘sizeof’ in ‘snprintf’ call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess]
  rules.c:1371:43: warning: argument to ‘sizeof’ in ‘snprintf’ call is the same expression as the destination; did you mean to provide an explicit length? [-Wsizeof-pointer-memaccess]
  rules.c:1371:58: warning: ‘%02d’ directive output may be truncated writing between 2 and 11 bytes into a region of size between 0 and 6 [-Wformat-truncation=]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/epanet2toolkit.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Found the following files/directories:
  ‘Net1-fromR.inp’
checkRd: (-1) risk.display.rd:98: Escaped LaTeX specials: \$
Package suggested but not available for checking: ‘epidict’
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [3s/6s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(epikit)
  > 
  > test_check("epikit")
  [ FAIL 1 | WARN 1 | SKIP 1 | PASS 111 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (1)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-age-categories.R:179'): years alone give years ─────────────────
  Error in `forcats::fct_drop(res, droppings)`: `only` must be a character vector or `NULL`, not a logical vector.
  Backtrace:
      ▆
   1. └─epikit::group_age_categories(df, years = years, one_column = FALSE) at test-age-categories.R:179:2
   2.   └─forcats::fct_drop(only = droppings)
   3.     └─forcats:::check_character(only, allow_null = TRUE)
   4.       └─forcats:::stop_input_type(...)
   5.         └─rlang::abort(message, ..., call = call, arg = arg)
  
  [ FAIL 1 | WARN 1 | SKIP 1 | PASS 111 ]
  Error: Test failures
  Execution halted
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘episcan_1geno_cc.txt’ ‘episcan_1geno_quant.txt’
  ‘episcan_2geno_cc.txt’ ‘episcan_2geno_quant.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘taskscheduleR’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package required but not available: ‘TDA’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘etwfe.Rmd’ using rmarkdown
Quitting from lines 207-216 (etwfe.Rmd) 
Error: processing vignette ‘etwfe.Rmd’ failed with diagnostics:
Problem while computing aesthetics.
ℹ Error occurred in the 2nd layer.
Caused by error in `FUN()`:
! object ‘dydx’ not found
--- failed re-building ‘etwfe.Rmd’

SUMMARY: processing the following file failed:
  ‘etwfe.Rmd’

Error: Vignette re-building failed.
Execution halted
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) calculateGLR.Rd:43: Escaped LaTeX specials: \&
checkRd: (-1) Snoring.Rd:21: Escaped LaTeX specials: \&
Found the following files/directories:
  ‘sample .nwk’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘ExactData’
checkRd: (-1) exams2sakai.Rd:152: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cec2013’
checkRd: (-1) ccF.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) ccF.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) ccF.Rd:29: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) sp500.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) outlierPlot.Rd:30: Escaped LaTeX specials: \$
checkRd: (-1) outlierPlot.Rd:32: Escaped LaTeX specials: \$
Package suggested but not available for checking: ‘exuberdata’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Functions and objects (details)
checkRd: (-1) codePasses.Rd:64: Escaped LaTeX specials: \#
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Bogota.tex’ ‘DogBreeds1.tex’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    minor changes
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  chli.c:5:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/fame.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
File ‘fame/R/windows/zzz.R’:
  .onLoad calls:
    packageStartupMessage("FAME environment variable not set; assuming ",     defaultDir)
    packageStartupMessage("FAME directory ", fameDir, " not found.\n",     "If you have FAME installed, specify it's location ", "via the FAME environment variable.\n",     "Otherwise, this package is pretty useless.\n")

See section ‘Good practice’ in ‘?.onAttach’.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  lu.h:44:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  lu.c:828:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/fastclime.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Found the following files/directories:
  ‘default5.eps’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘coxKM’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  init.c:8:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/fastmap.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘fastmatch/libs/fastmatch.so’:
  Found non-API call to R: ‘match5’

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

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) FastPCS-package.Rd:29: Escaped LaTeX specials: \&
checkRd: (-1) FastPCS.Rd:104: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) Scent.Rd:37: Escaped LaTeX specials: \&
checkRd: (-1) Traffic.Rd:44: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
checkRd: (-1) Lemons.Rd:3: Escaped LaTeX specials: \&
checkRd: (-1) Lemons.Rd:5: Escaped LaTeX specials: \&
Found the following significant warnings:
  Rconnection.cc:282:52: warning: format ‘%p’ expects argument of type ‘void*’, but argument 3 has type ‘Rexp*’ [-Wformat=]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/FastRWeb.Rcheck/00install.out’ for details.
.run: no visible binding for global variable ‘init’
.run: no visible global function definition for ‘init’
.run: no visible binding for global variable ‘run’
Undefined global functions or variables:
  init run
Note: information on .o files is not available
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘NNLM’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Error(s) in re-building vignettes:
  ...
--- re-building ‘codebook.Rmd’ using rmarkdown
--- finished re-building ‘codebook.Rmd’

--- re-building ‘continuous.Rmd’ using rmarkdown
Quitting from lines 95-99 (continuous.Rmd) 
Error: processing vignette ‘continuous.Rmd’ failed with diagnostics:
Arguments in `...` must be used.
✖ Problematic arguments:
• ..1 = "var"
• ..2 = "value"
--- failed re-building ‘continuous.Rmd’

--- re-building ‘contrasts.Rmd’ using rmarkdown
--- finished re-building ‘contrasts.Rmd’

--- re-building ‘rnorm_multi.Rmd’ using rmarkdown
--- finished re-building ‘rnorm_multi.Rmd’

--- re-building ‘sim_design.Rmd’ using rmarkdown
--- finished re-building ‘sim_design.Rmd’

--- re-building ‘sim_df.Rmd’ using rmarkdown
--- finished re-building ‘sim_df.Rmd’

SUMMARY: processing the following file failed:
  ‘continuous.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test2delete.txt’ ‘test2delete2_values.txt’ ‘test2delete_values.txt’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘.Rprofile’
Specified C++11: please update to current default of C++17
Unexported objects imported by ‘:::’ calls:
  ‘fdapace:::GCVLwls1D1’ ‘fdapace:::GetSmoothedMeanCurve’
  ‘fdapace:::HandleNumericsAndNAN’ ‘fdapace:::interp2lin’
  See the note in ?`:::` about the use of this operator.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘vert.txt’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘treesAll.txt’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘febr-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: readFEBR
> ### Title: Get soil data
> ### Aliases: readFEBR
> 
> ### ** Examples
> 
> res <- readFEBR(data.set = "ctb0003")
Error in curl::curl_download(input, tmpFile, mode = "wb", quiet = !showProgress) : 
  Timeout was reached: [] Connection timeout after 10000 ms
Calls: readFEBR -> readIndex -> <Anonymous> -> <Anonymous>
Execution halted
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: \#
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    New Stuff
'LazyData' is specified without a 'data' directory
checkRd: (-1) fermicatsR.Rd:31: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  f2c.h:185:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  f2c.h:186:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  f2c.h:187:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  f2c.h:188:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  f2c.h:189:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  f2c.h:190:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  f2c.h:191:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  f2c.h:192:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  f2c.h:193:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  f2c.h:194:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  f2c.h:195:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/FGSG.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘MicrobeDS’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
File ‘filehash/libs/filehash.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘hash.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘diveRsity’
Unknown package ‘diveRsity’ in Rd xrefs
Found the following files/directories:
  ‘AH_genepop.txt’ ‘AH_popname.txt’ ‘JSM_MS_freq.txt’
  ‘JSM_MS_genepop.txt’ ‘JSM_genepop_clipped_both.txt’
  ‘JSM_genepop_clipped_maf.txt’ ‘JSM_genepop_clipped_name.txt’
  ‘JSM_mtDNA_freq.txt’ ‘JSM_popname.txt’ ‘result_DJ.csv’
  ‘result_EBDJ.csv’ ‘result_EBFST.csv’ ‘result_EBFST_mtDNA.csv’
  ‘result_EBGstH.csv’ ‘result_GstH.csv’ ‘result_GstN.csv’
  ‘result_GstNC.csv’ ‘result_thetaWCpair.csv’
checkRd: (-1) bitspec.Rd:8: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘hisse’
Unknown package ‘hisse’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) fitmixEM.Rd:51: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'benchden', 'reliaR', 'STAR'
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘fivethirtyeightdata’
Package unavailable to check Rd xrefs: ‘fivethirtyeightdata’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) fk_regression.Rd:32: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
checkRd: (-1) flashClust.Rd:92: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
checkRd: (-1) cclust.Rd:78: Escaped LaTeX specials: \&
checkRd: (-1) randIndex.Rd:53: Escaped LaTeX specials: \&
checkRd: (-1) vacmot.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) vacmot.Rd:28: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  float_native.c:40:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  float_native.c:41:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  float_native.c:53:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  machine.c:7:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  NA.c:20:21: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  NA.c:76:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  NA.c:88:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/float.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following files/directories:
  ‘flux.CH4.txt’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) pseudoOptim.Rd:27: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) write.AFNI.Rd:16: Escaped LaTeX specials: \_
checkRd: (-1) write.AFNI.Rd:17: Escaped LaTeX specials: \_
checkRd: (-1) write.AFNI.Rd:20: Escaped LaTeX specials: \_
checkRd: (-1) write.AFNI.Rd:22: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘forceR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: find_strongest_peaks
> ### Title: Find Peaks
> ### Aliases: find_strongest_peaks
> 
> ### ** Examples
> 
> require(dplyr)
Loading required package: dplyr

Attaching package: ‘dplyr’

The following objects are masked from ‘package:stats’:

    filter, lag

The following objects are masked from ‘package:base’:

    intersect, setdiff, setequal, union

> # Using the forceR::df.all.200.tax dataset:
> 
> # reduce dataset
> df.all.200.tax_filtered <- forceR::df.all.200.tax %>%
+   filter(species == "species_A")
> 
> # find strongest peaks
> peaks.df <- find_strongest_peaks(df = df.all.200.tax_filtered,
+                                  no.of.peaks = 5)
Error in `slice()`:
! Arguments in `...` must be passed by position, not name.
✖ Problematic argument:
• n = 1
Backtrace:
    ▆
 1. ├─forceR::find_strongest_peaks(df = df.all.200.tax_filtered, no.of.peaks = 5)
 2. │ └─curr.plot.window %>% slice(n = 1) %>% pull(specimen)
 3. ├─dplyr::pull(., specimen)
 4. ├─dplyr::slice(., n = 1)
 5. └─dplyr:::slice.data.frame(., n = 1)
 6.   └─rlang::check_dots_unnamed()
 7.     └─rlang:::action_dots(...)
 8.       ├─base (local) try_dots(...)
 9.       └─rlang (local) action(...)
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘forceR.Rmd’ using rmarkdown
Quitting from lines 518-523 (forceR.Rmd) 
Error: processing vignette ‘forceR.Rmd’ failed with diagnostics:
Arguments in `...` must be passed by position, not name.
✖ Problematic argument:
• n = 1
--- failed re-building ‘forceR.Rmd’

SUMMARY: processing the following file failed:
  ‘forceR.Rmd’

Error: Vignette re-building failed.
Execution halted
Running examples in ‘forecasteR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: get_start
> ### Title: Get ts start of a time series
> ### Aliases: get_start
> 
> ### ** Examples
> 
> get_start(as.Date("2021-06-30"), 'days', 365)
Error in `==.POSIXt`(dates, ini) : object 'check_tzones' not found
Calls: get_start -> which -> ==.POSIXt
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Previous versions (not tagged nor released)
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'Rsocp', 'Rnlminb2', 'Rdonlp2'
Package suggested but not available for checking: ‘RandomFields’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) MultiAsset.Rd:26: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) CatalogueAccessors.Rd:249: Escaped LaTeX specials: \^ \^
checkRd: (-1) FrF2.Rd:574: Escaped LaTeX specials: \^
checkRd: (-1) FrF2.Rd:629: Escaped LaTeX specials: \^ \^
checkRd: (-1) IAPlot.Rd:87: Escaped LaTeX specials: \$
checkRd: (-1) block.Rd:121: Escaped LaTeX specials: \^
checkRd: (-1) block.Rd:150: Escaped LaTeX specials: \^ \^
checkRd: (-1) blockpick.Rd:114: Escaped LaTeX specials: \^ \^
Packages suggested but not available for checking: 'dggrids', 'INLA'
Unknown package ‘frm’ in Rd xrefs
Unknown package ‘frm’ in Rd xrefs
'LazyData' is specified without a 'data' directory
Running examples in ‘fruclimadapt-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: pollination_weather
> ### Title: Evaluation of weather conditions for pollination on a daily
> ###   series
> ### Aliases: pollination_weather
> 
> ### ** Examples
> 
> 
> # Estimate weather conditions during blooming season using the example
> # datasets included in the package
> library(tidyverse)
── Attaching packages ─────────────────────────────────────── tidyverse 1.3.2 ──
✔ ggplot2 3.4.0     ✔ purrr   1.0.1
✔ tibble  3.1.8     ✔ dplyr   1.1.0
✔ tidyr   1.3.0     ✔ stringr 1.5.0
✔ readr   2.1.3     ✔ forcats 1.0.0
── Conflicts ────────────────────────────────────────── tidyverse_conflicts() ──
✖ dplyr::filter() masks stats::filter()
✖ dplyr::lag()    masks stats::lag()
> library(lubridate)

Attaching package: ‘lubridate’

The following objects are masked from ‘package:base’:

    date, intersect, setdiff, union

> Bloom_BT <- Dates_BT %>% select(Year, sbloom, ebloom)
> Pol_weather_BT <- pollination_weather(Tudela_DW,Bloom_BT,42.13132)
Error in `right_join()`:
! `...` must be empty.
✖ Problematic argument:
• all = TRUE
Backtrace:
     ▆
  1. ├─fruclimadapt::pollination_weather(Tudela_DW, Bloom_BT, 42.13132)
  2. │ └─... %>% ...
  3. ├─dplyr::mutate(...)
  4. ├─dplyr::mutate(., h_wpol = ifelse(Prec >= 2, 0, h_wpol))
  5. ├─dplyr::right_join(., rain, by = "Date", all = TRUE)
  6. └─dplyr:::right_join.data.frame(., rain, by = "Date", all = TRUE)
  7.   └─rlang::check_dots_empty0(...)
  8.     └─rlang::check_dots_empty(call = call)
  9.       └─rlang:::action_dots(...)
 10.         ├─base (local) try_dots(...)
 11.         └─rlang (local) action(...)
Execution halted
Packages suggested but not available for checking:
  'extraTrees', 'foba', 'nodeHarvest', 'obliqueRF', 'relaxo', 'rrlda'
Found the following significant warnings:
  init.c:20:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/FSelectorRcpp.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ./src/uv-common.h:61:3: warning: ISO C90 forbids mixed declarations and code [-Wdeclaration-after-statement]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/fs.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) mean.fts.Rd:37: Escaped LaTeX specials: \&
checkRd: (-1) median.fts.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) plot.fm.Rd:38: Escaped LaTeX specials: \&
checkRd: (-1) residuals.fm.Rd:21: Escaped LaTeX specials: \&
checkRd: (-1) sd.fts.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) var.fts.Rd:38: Escaped LaTeX specials: \&
checkRd: (-1) Spec_compare_localize_freq.Rd:49: Escaped LaTeX specials: \&
checkRd: (-1) Spec_compare_localize_freq.Rd:52: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  gamlr.c:87:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:12:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/gamlr.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) LGAclaims.Rd:30: Escaped LaTeX specials: \_
checkRd: (-1) LGAclaims.Rd:34: Escaped LaTeX specials: \_
checkRd: (-1) LGAclaims.Rd:35: Escaped LaTeX specials: \_
checkRd: (-1) LGAclaims.Rd:36: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) GSE.Test.Main.Rd:23: Escaped LaTeX specials: \_
checkRd: (-1) meyer.Rd:11: Escaped LaTeX specials: \&
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘checkdata.csv’ ‘gbmforest.sas’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
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: \&
Package in Depends field not imported from: ‘tools’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
Unexported objects imported by ‘:::’ calls:
  ‘tools:::.Rd_get_argument_names’ ‘tools:::RdTags’ ‘tools:::fetchRdDB’
  See the note in ?`:::` about the use of this operator.
checkRd: (-1) estprops.Rd:40: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘gputools’
Package suggested but not available for checking: ‘paleofire’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following calls to attach():
File ‘g.data/R/g.data.attach.R’:
  attach(NULL, pos, basename(dir))
See section ‘Good practice’ in ‘?attach’.
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gdxrrw’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) plot_summary.Rd:14: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘genderdata’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
checkRd: (-1) SandP500.Rd:4: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following significant warnings:
  init.c:14:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/GenSA.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Found the following significant warnings:
  arms.c:99:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  arms.c:900:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/genscore.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘geofi_datasets.Rmd’ using rmarkdown
--- finished re-building ‘geofi_datasets.Rmd’

--- re-building ‘geofi_joining_attribute_data.Rmd’ using rmarkdown
Quitting from lines 218-242 (geofi_joining_attribute_data.Rmd) 
Error: processing vignette ‘geofi_joining_attribute_data.Rmd’ failed with diagnostics:
Bad Request (HTTP 400).
--- failed re-building ‘geofi_joining_attribute_data.Rmd’

--- re-building ‘geofi_making_maps.Rmd’ using rmarkdown
--- finished re-building ‘geofi_making_maps.Rmd’

--- re-building ‘geofi_spatial_analysis.Rmd’ using rmarkdown
--- finished re-building ‘geofi_spatial_analysis.Rmd’

SUMMARY: processing the following file failed:
  ‘geofi_joining_attribute_data.Rmd’

Error: Vignette re-building failed.
Execution halted
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘geomarocdata’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
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’.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) getopt.Rd:60: Escaped LaTeX specials: \#
'LazyData' is specified without a 'data' directory
checkRd: (-1) gexp.Rd:123: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘RGtk2’
Package suggested but not available for checking: ‘condSURV’
checkRd: (-1) estGF.Rd:106: Escaped LaTeX specials: \&
checkRd: (-1) estGF.Rd:107: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following assignments to the global environment:
File ‘ggExtra/R/ggMarginalGadget.R’:
  assign(plotname, eval(parse(text = origPlot)), envir = .GlobalEnv)
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) boot_eip.Rd:50: Escaped LaTeX specials: \&
checkRd: (-1) constrained.Rd:93: Escaped LaTeX specials: \&
checkRd: (-1) constrained.Rd:37: Escaped LaTeX specials: \&
Found the following significant warnings:
  Warning: replacing previous import ‘ape::where’ by ‘dplyr::where’ when loading ‘ggmuller’
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ggmuller.Rcheck/00install.out’ for details.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ggOceanMapsData’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    History
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'nlmixr', 'lixoftConnectors'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    * Changes all data options to .data to decrease possibility of column naming overlap
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Win CRAN check results - R Windows
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Pictures_analyzed’ ‘cutoff_vals’ ‘cutoff_vals1’ ‘gina_cran.JPG’
Unknown package ‘IC2’ in Rd xrefs
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) randPIT.Rd:52: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘mlr3proba’
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘cmdstanr’
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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:26: Escaped LaTeX specials: \&
checkRd: (-1) glmulti-class.Rd:26: Escaped LaTeX specials: \&
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.
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  extract_matrix.h:256:15: warning: ignoring return value of ‘bool std::vector<_Tp, _Alloc>::empty() const [with _Tp = int; _Alloc = std::allocator<int>]’, declared with attribute ‘nodiscard’ [-Wunused-result]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/gmp.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
checkRd: (-1) replace_in_file.Rd:40: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) barleyHeights.Rd:18: Escaped LaTeX specials: \&
checkRd: (-1) barleyHeights.Rd:22: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Unexported objects imported by ‘:::’ calls:
  ‘gargle:::secret_can_decrypt’ ‘gargle:::secret_read’
  See the note in ?`:::` about the use of this operator.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Unexported objects imported by ‘:::’ calls:
  ‘gargle:::secret_can_decrypt’ ‘gargle:::secret_read’
  See the note in ?`:::` about the use of this operator.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gvcm.cat’
Specified C++11: please update to current default of C++17
Unknown package ‘gvcm.cat’ in Rd xrefs
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) barplot2.Rd:219: Escaped LaTeX specials: \_
checkRd: (-1) colorpanel.Rd:31: Escaped LaTeX specials: \#
checkRd: (-1) qqnorm.aov.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) venn.Rd:59: Escaped LaTeX specials: \_
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checkRd: (-1) GPoM.FDLyapu-package.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) Plague.Rd:29: Escaped LaTeX specials: \&
checkRd: (-1) lyapFDGrond.Rd:66: Escaped LaTeX specials: \&
checkRd: (-1) lyapFDGrond.Rd:68: Escaped LaTeX specials: \&
checkRd: (-1) lyapFDGrond.Rd:69: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) mlGraphicalVAR.Rd:79: Escaped LaTeX specials: \~
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Packages suggested but not available for checking:
  'taxstats', 'taxstats1516'
Found the following significant warnings:
  Offset.c:3:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:12:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  omp_diagnose.c:5:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  omp_diagnose.c:18:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/grattan.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Found the following significant warnings:
  init.c:11:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/gRc.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
accrualReport: multiple local function definitions for ‘gg’ with
  different formal arguments
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Malformed Description field: should contain one or more complete sentences.
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/groupr.Rcheck/00install.out’ for details.
Malformed Description field: should contain one or more complete sentences.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
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’
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  smolyak.c:58:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  smolyak.c:79:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  smolyak.c:227:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  smolyak.c:477:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/gss.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
checkRd: (-1) gsym.point.Rd:143: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘RRprof.out’
checkRd: (-1) GUTS-package.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) GUTS.Rd:201: Escaped LaTeX specials: \&
checkRd: (-1) GUTS.Rd:209: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) luzdat.Rd:21: Escaped LaTeX specials: \~
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following files/directories:
  ‘testdata1.txt’ ‘testdata2.txt’ ‘testdata3.txt’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Running ‘testthat.R’ [7s/10s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(hablar)
  > test_check("hablar")
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 418 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test.ifs.R:53'): if_else_ ─────────────────────────────────────────
  `if_else_(c(T, F, NA), 1, 1L)` did not throw an error.
  
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 418 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) HWAlr.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) HWAlrPlot.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) HWClr.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) HWClrPlot.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) HWIlr.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) HWf.Rd:25: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
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'LazyData' is specified without a 'data' directory
checkRd: (-1) hash-accessors.Rd:46: Escaped LaTeX specials: \$
checkRd: (-1) hash-class.Rd:44: Escaped LaTeX specials: \$
checkRd: (-1) hash-class.Rd:45: Escaped LaTeX specials: \$
checkRd: (-1) hash-package.Rd:39: Escaped LaTeX specials: \#
Found the following significant warnings:
  readstat/readstat_bits.h:10:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/readstat_bits.c:11:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/readstat_variable.c:5:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/readstat_variable.c:8:25: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/sas/../readstat_bits.h:10:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/sas/ieee.c:19:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/sas/ieee.c:99:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/sas/readstat_sas.c:123:15: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/sas/readstat_xport_read.c:48:21: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/spss/readstat_por.h:34:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/spss/readstat_por.c:67:12: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/spss/readstat_por_write.c:170:25: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/spss/../readstat_bits.h:10:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  readstat/stata/../readstat_bits.h:10:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/haven.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
File ‘haven/libs/haven.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘readstat/spss/readstat_por.o’,
      ‘readstat/stata/readstat_dta_write.o’

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.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) prm09.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) prm09.Rd:26: Escaped LaTeX specials: \&
checkRd: (-1) schools.Rd:18: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Missing link or links in documentation object ‘define_parameters.Rd’:
  ‘[dplyr:ranking]{dplyr::row_number()}’

See section ‘Cross-references’ in the ‘Writing R Extensions’ manual.
Running examples in ‘helda-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: kmeans_procedure
> ### Title: K-means procedure
> ### Aliases: kmeans_procedure
> ### Keywords: cluster kmeans sizes
> 
> ### ** Examples
> 
> library(dplyr)

Attaching package: ‘dplyr’

The following objects are masked from ‘package:stats’:

    filter, lag

The following objects are masked from ‘package:base’:

    intersect, setdiff, setequal, union

> data <- iris %>% select(Sepal.Length, Sepal.Width, Petal.Length, Petal.Width)
> features <- colnames(data)
> result <- kmeans_procedure(data = data, columns = features, threshold_min = 2, threshold = 10,
+ verbose=FALSE, seed=10)
Error in `between()`:
! Can't combine `x` <table[1d]> and `left` <double>.
Backtrace:
     ▆
  1. ├─helda::kmeans_procedure(...)
  2. │ └─dplyr::between(...)
  3. │   └─vctrs::vec_cast_common(!!!args)
  4. └─vctrs (local) `<fn>`()
  5.   └─vctrs::vec_default_ptype2(...)
  6.     ├─base::withRestarts(...)
  7.     │ └─base (local) withOneRestart(expr, restarts[[1L]])
  8.     │   └─base (local) doWithOneRestart(return(expr), restart)
  9.     └─vctrs::stop_incompatible_type(...)
 10.       └─vctrs:::stop_incompatible(...)
 11.         └─vctrs:::stop_vctrs(...)
 12.           └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = vctrs_error_call(call))
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘synbreed’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) erode.hexbin.Rd:43: Escaped LaTeX specials: \_ \_ \_ \_ \_ \_ \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) ohio.Rd:104: Escaped LaTeX specials: \&
checkRd: (-1) ohio.Rd:105: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
‘:::’ call which should be ‘::’: ‘ggplot2:::guide_axis’
  See the note in ?`:::` about the use of this operator.
Unexported objects imported by ‘:::’ calls:
  ‘ggplot2:::build_guides’ ‘ggplot2:::scales_list’
  See the note in ?`:::` about the use of this operator.
File ‘hier.part/libs/hier.part.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘gener.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘INLA’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘colorfulVennPlot’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) Snow.Rd:118: Escaped LaTeX specials: \&
checkRd: (-1) Snow.Rd:142: Escaped LaTeX specials: \&
checkRd: (-1) Yeast.Rd:56: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘trackr’
Package which this enhances but not available for checking: ‘HadoopStreaming’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) disc42.Rd:28: Escaped LaTeX specials: \&
checkRd: (-1) discrimination.Rd:31: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘glmmADMB’
checkRd: (-1) Dmean.Rd:62: Escaped LaTeX specials: \&
checkRd: (-1) Dvar.Rd:63: Escaped LaTeX specials: \&
checkRd: (-1) babies.Rd:35: Escaped LaTeX specials: \&
checkRd: (-1) residuals.rsm.Rd:74: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘ROI.plugin.mosek’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/concurrent_hash_map.h:343:23: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_queue_impl.h:744:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_queue_impl.h:1003:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_unordered_impl.h:67:36: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/RMatrix.h:18:24: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/hpa.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'RGtk2', 'cairoDevice'
Specified C++11: please update to current default of C++17
checkRd: (-1) attributes_speclib.Rd:73: Escaped LaTeX specials: \$
checkRd: (-1) get_reflectance.Rd:34: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  useful.h:6:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/hSDM.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  htree.c:126:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:135:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:324:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:362:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:408:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:517:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:693:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:711:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:813:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:1476:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:1494:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:1528:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:1679:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:1754:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:1839:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:1869:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:1909:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:2906:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  htree.c:3696:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:13:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/htree.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
checkRd: (-1) simplePostToHost.Rd:14: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘hurricaneexposuredata’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) Trancura9414001.Rd:27: Escaped LaTeX specials: \_
checkRd: (-1) Trancura9414001.Rd:28: Escaped LaTeX specials: \_
checkRd: (-1) hydroPSO.Rd:390: Escaped LaTeX specials: \&
checkRd: (-1) hydroPSO.Rd:408: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
checkRd: (-1) SandP500.Rd:4: Escaped LaTeX specials: \&
checkRd: (-1) SandP500.Rd:7: Escaped LaTeX specials: \&
checkRd: (-1) palettes.Rd:25: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘AIC.txt’ ‘AICc.txt’ ‘IAS.pdf’ ‘IAS2.pdf’ ‘IAS3.pdf’
  ‘P.microlepis-AIC.txt’ ‘P.microlepis-AICc.txt’ ‘P.microlepis-IAS.pdf’
  ‘P.microlepis-IAS2.pdf’ ‘P.microlepis-IAS3.pdf’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘SparkR’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘icd’
checkRd: (-1) ICEscale.Rd:53: Escaped LaTeX specials: \^
checkRd: (-1) dpwdg.Rd:14: Escaped LaTeX specials: \$
checkRd: (-1) dpwdg.Rd:15: Escaped LaTeX specials: \$
Package suggested but not available for checking: ‘ICBayes’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) pulmonary.Rd:13: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘rggobi’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘optiRum’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘IFCdata’
Found the following significant warnings:
  ../inst/include/ut_debug.h:188:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ut_debug.c:102:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ifultools.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
File ‘ifultools/libs/ifultools.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘ut_debug.o’

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.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  core/core/error.c:65:29: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  vendor/plfit/gss.h:132:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  vendor/plfit/gss.c:60:20: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  vendor/plfit/mt.c:20:17: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  vendor/plfit/platform.c:36:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  rrandom.h:26:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:51:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:104:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  rinterface.c:2506:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  rinterface.c:2522:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  rinterface.c:9433:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  rrandom.c:108:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/igraph.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
File ‘igraph/libs/igraph.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘core/community/spinglass/NetRoutines.o’,
      ‘core/internal/glpk_support.o’, ‘vendor/uuid/unparse.o’

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.
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘accdata’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) school23.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) school23.Rd:35: Escaped LaTeX specials: \&
Found the following significant warnings:
  keyplayer-utils.c:24:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/influenceR.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Problems with news in ‘NEWS.md’:
No news entries found.
Package which this enhances but not available for checking: ‘gurobi’
Found the following files/directories:
  ‘c.txt’ ‘rho.txt’ ‘sta.txt’ ‘topo.txt’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    INSPECTumours (development version)
Malformed Title field: should not end in a period.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Error_Estimation_Response_1.tiff’ ‘Error_Estimation_Response_2.tiff’
  ‘Error_Estimation_Response_3.tiff’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘TDA’
Running examples in ‘interplex-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: as_cmplx
> ### Title: Coerce objects to lists of simplices
> ### Aliases: as_cmplx as_cmplx.default as_cmplx.Rcpp_SimplexTree
> ###   as_cmplx.gudhi.simplex_tree.SimplexTree as_cmplx.igraph
> ###   as_cmplx.network
> 
> ### ** Examples
> 
> # pick the simplicial complex from a TDA filtration object
> t <- 2 * pi * c(0, 1, 3, 6) / 7
> rf <- TDA::ripsFiltration(
+   cbind(x = cos(t), y = sin(t)),
+   maxdimension = 2L, maxscale = 1.7
+ )
Error in loadNamespace(x) : there is no package called ‘TDA’
Calls: loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) Intervals-class.Rd:109: Escaped LaTeX specials: \_
checkRd: (-1) Intervals-class.Rd:110: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:68: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:76: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:77: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:78: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:79: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:81: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:88: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:89: Escaped LaTeX specials: \_
checkRd: (-1) Intervals_virtual-class.Rd:90: Escaped LaTeX specials: \_
checkRd: (-1) sgd.Rd:12: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘surveyspec’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘iotools/libs/iotools.so’:
  Found non-API calls to R: ‘R_GetConnection’, ‘R_ReadConnection’,
    ‘R_WriteConnection’

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

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘IPEDSuploadables-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: produce_gr_report
> ### Title: Shortcut function with all steps to provide a Graduation Rates
> ###   report
> ### Aliases: produce_gr_report
> 
> ### ** Examples
> 
> ## Don't show: 
> #set temp directory for this example (not necessary for users)
> .old_wd <- setwd(tempdir())
> ## End(Don't show)
> 
> #entire report
> produce_gr_report(gr_students)
Error in `dplyr::union_all()`:
! `x` and `y` are not compatible.
✖ Different number of columns: 5 vs 2.
Backtrace:
     ▆
  1. ├─IPEDSuploadables::produce_gr_report(gr_students)
  2. │ ├─IPEDSuploadables::write_report(...)
  3. │ └─IPEDSuploadables::make_gr_part_E(df, ugender)
  4. │   └─... %>% ...
  5. ├─dplyr::transmute(...)
  6. ├─dplyr::mutate(...)
  7. ├─dplyr::union_all(., data.frame(GRGU011 = integer(), GRGU012 = integer()))
  8. └─dplyr:::union_all.data.frame(., data.frame(GRGU011 = integer(), GRGU012 = integer()))
  9.   └─dplyr:::check_compatible(x, y)
 10.     └─rlang::abort(c("`x` and `y` are not compatible.", compat), call = error_call)
Execution halted
Running ‘testthat.R’ [20s/32s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(IPEDSuploadables)
  This version of IPEDSuploadables has been updated for 
  FALL & WINTER collection of the 2022-2023 reporting cycle.
  Spring updates coming soon.
  If you are in a later cycle or want to capture any bug fixes,
  please update the package.
  > 
  > test_check("IPEDSuploadables")
  [ FAIL 1 | WARN 71 | SKIP 0 | PASS 62 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-part-outputs.R:67'): GR parts produce expected dfs ─────────────
  Error in `dplyr::union_all(., data.frame(GRGU011 = integer(), GRGU012 = integer()))`: `x` and `y` are not compatible.
  ✖ Different number of columns: 5 vs 2.
  Backtrace:
       ▆
    1. ├─testthat::expect_equal(make_gr_part_E(gr_students, TRUE), part_outputs$gr_partE) at test-part-outputs.R:67:2
    2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
    3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
    4. ├─IPEDSuploadables::make_gr_part_E(gr_students, TRUE)
    5. │ └─... %>% ...
    6. ├─dplyr::transmute(...)
    7. ├─dplyr::mutate(...)
    8. ├─dplyr::union_all(., data.frame(GRGU011 = integer(), GRGU012 = integer()))
    9. └─dplyr:::union_all.data.frame(., data.frame(GRGU011 = integer(), GRGU012 = integer()))
   10.   └─dplyr:::check_compatible(x, y)
   11.     └─rlang::abort(c("`x` and `y` are not compatible.", compat), call = error_call)
  
  [ FAIL 1 | WARN 71 | SKIP 0 | PASS 62 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
File ‘iptools/libs/iptools.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘asio_bindings.o’

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.
Specified C++11: please update to current default of C++17
checkRd: (-1) constrained.Rd:49: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
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: \&
checkRd: (-1) ir_to_transmittance.Rd:49: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) pine.Rd:20: Escaped LaTeX specials: \&
Found the following significant warnings:
  trace_islasso.c:39:14: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/islasso.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
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: \$
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
Found the following files/directories:
  ‘RMTplot.pdf’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘gurobi’
Package suggested but not available for checking: ‘locClass’
checkRd: (-1) ivmodel.Rd:74: Escaped LaTeX specials: \&
checkRd: (-1) ivmodelFormula.Rd:79: Escaped LaTeX specials: \&
Packages suggested but not available for checking: 'gurobi', 'cplexAPI'
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
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'.
File ‘JavaGD/libs/JavaGD.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘jGDtalk.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘remMap’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘processR’
Running ‘testthat.R’ [130s/147s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(JSmediation)
  > 
  > test_check("JSmediation")
  Starting 2 test processes
  [ FAIL 1 | WARN 2 | SKIP 1 | PASS 90 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (1)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-compute_indirect_effect_for.R:92'): JSmediation approach is consistent with the {processR} approach (Mod = -1, 0, 1) ──
  <packageNotFoundError/error/condition>
  Error in `loadNamespace(x)`: there is no package called 'processR'
  Backtrace:
      ▆
   1. └─base::loadNamespace(x) at test-compute_indirect_effect_for.R:92:2
   2.   └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
   3.     └─base (local) withOneRestart(expr, restarts[[1L]])
   4.       └─base (local) doWithOneRestart(return(expr), restart)
  
  [ FAIL 1 | WARN 2 | SKIP 1 | PASS 90 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    pre-release juicr (2017 - 2021)
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
File ‘kappalab/libs/kappalab.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘core.o’

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.
Found the following files/directories:
  ‘song.wav’ ‘song4karaoke.wav’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Minor Changes
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘rkward’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:

  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Found the following files/directories:
  ‘cld1.Rdata’ ‘main.tex’ ‘myCld.Rdata’ ‘myCld3d.Rdata’ ‘scene.asy’
Found the following files/directories:
  ‘cld1.Rdata’ ‘ld.Rdata’ ‘myCld.Rdata’
Running examples in ‘kmscv-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: kms_cv
> ### Title: K-Means Based Cross-Validation
> ### Aliases: kms_cv
> 
> ### ** Examples
> 
> library(kmscv)
> 
> kms_cv(iris,k = 5,centers = NULL,max_center = 20,alpha = .1,seed = 1)
Warning in kms_cv(iris, k = 5, centers = NULL, max_center = 20, alpha = 0.1,  :
  Dropping 1 columns, numerics are used only.
Error in `map2()`:
ℹ In index: 1.
Caused by error in `dplyr::slice_sample()`:
! `n` must be a round number, not the number 7.6.
Backtrace:
     ▆
  1. └─kmscv::kms_cv(...)
  2.   └─purrr::map2_dfr(...)
  3.     └─purrr::map2(.x, .y, .f, ...)
  4.       └─purrr:::map2_("list", .x, .y, .f, ..., .progress = .progress)
  5.         ├─purrr:::with_indexed_errors(...)
  6.         │ └─base::withCallingHandlers(...)
  7.         ├─purrr:::call_with_cleanup(...)
  8.         └─kmscv (local) .f(.x[[i]], .y[[i]], ...)
  9.           ├─dplyr::slice_sample(.x, n = .y)
 10.           └─dplyr:::slice_sample.data.frame(.x, n = .y)
 11.             └─dplyr:::get_slice_size(n = n, prop = prop, allow_outsize = replace)
 12.               └─dplyr:::check_slice_n_prop(n, prop, error_call = error_call)
 13.                 └─rlang::abort(...)
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Killed after ’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘VARSEDIG’
Unknown package ‘VARSEDIG’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'koRpus.lang.de', 'koRpus.lang.es', 'koRpus.lang.fr',
  'koRpus.lang.it', 'koRpus.lang.nl', 'koRpus.lang.pt',
  'koRpus.lang.ru'

Package which this enhances but not available for checking: ‘rkward’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘KSEA Bar Plot.tiff’ ‘KSEA Kinase Scores.csv’
  ‘KSEA.Merged.Heatmap.png’ ‘Kinase-Substrate Links.csv’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) alphaOnly.Rd:25: Escaped LaTeX specials: \^
checkRd: (-1) alphaOnly.Rd:26: Escaped LaTeX specials: \$
checkRd: (-1) escape.Rd:28: Escaped LaTeX specials: \$
checkRd: (-1) natlongsurv.Rd:28: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘MYSLID.csv’ ‘tabelle.csv’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [36s/55s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(dplyr)
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  > library(lans2r)
  > 
  > test_check("lans2r")
  [ FAIL 4 | WARN 18 | SKIP 0 | PASS 140 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-load-data.R:24'): test that it is possible to load multiple LANS summaries ──
  `... <- NULL` produced warnings.
  ── Failure ('test-load-data.R:43'): test that it is possible to load multiple LANS summaries ──
  `... <- NULL` produced warnings.
  ── Failure ('test-load-data.R:58'): test that it is possible to load multiple LANS summaries ──
  `... <- NULL` produced warnings.
  ── Failure ('test-load-data.R:81'): test that it is possible to load LANS maps ──
  `... <- NULL` produced warnings.
  
  [ FAIL 4 | WARN 18 | SKIP 0 | PASS 140 ]
  Error: Test failures
  Execution halted
checkRd: (-1) LaplaceApproximation.Rd:485: Escaped LaTeX specials: \&
checkRd: (-1) LossMatrix.Rd:115: Escaped LaTeX specials: \&
checkRd: (-1) LossMatrix.Rd:117: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  Warning: replacing previous import ‘dplyr::where’ by ‘imager::where’ when loading ‘LARGB’
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/LARGB.Rcheck/00install.out’ for details.
Found the following significant warnings:
  init.c:19:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/largeList.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘example.llo’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘ergm.userterms’
checkRd: (-1) simulate.ergmm.Rd:35: Escaped LaTeX specials: \$
checkRd: (-1) simulate.ergmm.Rd:36: Escaped LaTeX specials: \$
Unknown package ‘ergm.userterms’ in Rd xrefs
GNU make is a SystemRequirements.
Found the following significant warnings:
  init.c:12:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:18:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:24:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:27:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:51:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/later.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) LKrig.MLE.Rd:114: Escaped LaTeX specials: \$ \$
checkRd: (-1) LKrig.MLE.Rd:115: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following calls to attach():
File ‘lazyData/R/requireData.R’:
  attach(NULL, pos = pos, name = searchDataName)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) goodnessfit.Rd:105: Escaped LaTeX specials: \&
checkRd: (-1) lba.Rd:252: Escaped LaTeX specials: \&
checkRd: (-1) pregnancy.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) pregnancy.Rd:46: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    lcars.0.3.1
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘temp.float.csv’ ‘temp.result.athena.csv’
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  lcopula-init.c:15:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/lcopula.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) leaps.Rd:38: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  lemna.c:98:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  lemna.c:109:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  lemna.c:120:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  lemna.c:129:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  lemna.c:138:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/lemna.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  lfe.h:121:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  lfe.h:122:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  utils.c:195:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  utils.c:208:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/lfe.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
File ‘lfe/libs/lfe.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘demean.o’, ‘kaczmarz.o’, ‘utils.o’

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.
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) hydro.Rd:17: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
File ‘LibOPF/libs/LibOPF.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘code/opf_split.o’, ‘code/opf_accuracy.o’,
      ‘code/opf_accuracy4label.o’, ‘code/opf_train.o’,
      ‘code/opf_semi.o’, ‘code/opf_classify.o’, ‘code/opf_learn.o’,
      ‘code/opf_distance.o’, ‘code/opf_info.o’, ‘code/opf_fold.o’,
      ‘code/opf_merge.o’, ‘code/opf_cluster.o’, ‘code/opf_pruning.o’,
      ‘code/opfknn_train.o’, ‘code/opfknn_classify.o’

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.
checkRd: (-1) predict.lb.Rd:16: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Packages suggested but not available for checking:
  'gWidgets', 'gWidgetsRGtk2', 'RGtk2'
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  init.c:6:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/liGP.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Running examples in ‘lillies-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: lyl_aggregated_range
> ### Title: Life Years Lost at a range of different ages using aggregated
> ###   data.
> ### Aliases: lyl_aggregated_range
> 
> ### ** Examples
> 
> # Load simulated data as example
> data(aggreg_data)
> data(pop_ref)
> 
> # Estimate remaining life expectancy and Life Years
> # Lost after each age from 40 to 89 years and before age 90 years
> lyl_summary_data <- lyl_aggregated_range(data = aggreg_data, age = age,
+                                          rates = rate, weights = new_cases,
+                                          data0 = pop_ref, age0 = age, surv0 = survival,
+                                          age_begin = 40, age_end = 89, tau = 90)
1. Preparing and checking data...
2. Estimate LYL for ages 40-89 years...
3. Almost there...
Error in `dplyr::left_join()`:
! `...` must be empty.
✖ Problematic argument:
• all.x = T
Backtrace:
    ▆
 1. └─lillies::lyl_aggregated_range(...)
 2.   ├─dplyr::mutate(...)
 3.   ├─dplyr::left_join(LYL, ages_onset, by = "age", all.x = T)
 4.   └─dplyr:::left_join.data.frame(LYL, ages_onset, by = "age", all.x = T)
 5.     └─rlang::check_dots_empty0(...)
 6.       └─rlang::check_dots_empty(call = call)
 7.         └─rlang:::action_dots(...)
 8.           ├─base (local) try_dots(...)
 9.           └─rlang (local) action(...)
Execution halted
'LazyData' is specified without a 'data' directory
checkRd: (-1) LIMEcoli.Rd:125: Escaped LaTeX specials: \_
checkRd: (-1) Read.Rd:88: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:92: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:98: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:104: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:105: Escaped LaTeX specials: \# \#
checkRd: (-1) Read.Rd:106: Escaped LaTeX specials: \# \#
checkRd: (-1) Read.Rd:107: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:108: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:109: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:110: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:111: Escaped LaTeX specials: \# \#
checkRd: (-1) Read.Rd:112: Escaped LaTeX specials: \# \#
checkRd: (-1) Read.Rd:113: Escaped LaTeX specials: \#
checkRd: (-1) Read.Rd:114: Escaped LaTeX specials: \# \#
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) solveLP.Rd:119: Escaped LaTeX specials: \&
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'LazyData' is specified without a 'data' directory
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checkRd: (-1) lstats.liu.Rd:41: Escaped LaTeX specials: \&
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checkRd: (-1) MHDI.Rd:23: Escaped LaTeX specials: \&
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'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) cauchypoly.Rd:39: Escaped LaTeX specials: \_ \_ \_
checkRd: (-1) cauchypoly.Rd:40: Escaped LaTeX specials: \_
checkRd: (-1) normpoly.Rd:38: Escaped LaTeX specials: \_ \_ \_
checkRd: (-1) normpoly.Rd:39: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
checkRd: (-1) lmSubsets-package.Rd:48: Escaped LaTeX specials: \&
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'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘tTestTable.rda’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Author
    Maintainer
Specified C++11: please update to current default of C++17
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checkRd: (-1) SPSloess.Rd:71: Escaped LaTeX specials: \^ \^
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checkRd: (-1) TrafficFlow.Rd:25: Escaped LaTeX specials: \#
checkRd: (-1) ACS.Rd:13: Escaped LaTeX specials: \$
checkRd: (-1) EmployedACS.Rd:14: Escaped LaTeX specials: \$
checkRd: (-1) HomesForSale.Rd:11: Escaped LaTeX specials: \$
checkRd: (-1) HomesForSaleCA.Rd:11: Escaped LaTeX specials: \$
checkRd: (-1) HomesForSaleCanton.Rd:9: Escaped LaTeX specials: \$
checkRd: (-1) HomesForSaleNY.Rd:11: Escaped LaTeX specials: \$
checkRd: (-1) MustangPrice.Rd:13: Escaped LaTeX specials: \$
checkRd: (-1) MustangPrice.Rd:24: Escaped LaTeX specials: \$
checkRd: (-1) SalaryGender.Rd:9: Escaped LaTeX specials: \$
checkRd: (-1) SandP500.Rd:6: Escaped LaTeX specials: \&
checkRd: (-1) SandP500.Rd:24: Escaped LaTeX specials: \&
checkRd: (-1) SandP500.Rd:27: Escaped LaTeX specials: \&
checkRd: (-1) SandwichAnts.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) SandwichAnts2.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) StockChanges.Rd:11: Escaped LaTeX specials: \&
checkRd: (-1) StockChanges.Rd:15: Escaped LaTeX specials: \&
checkRd: (-1) TrafficFlow.Rd:18: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  veclib.h:316:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/logistf.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Found the following significant warnings:

  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
  Warning: 'rgl.viewpoint' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Found the following files/directories:
  ‘main.tex’ ‘scene.asy’
'LazyData' is specified without a 'data' directory
checkRd: (-1) butstrap.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) butstrap.nri.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) butstrap.s.Rd:44: Escaped LaTeX specials: \&
checkRd: (-1) maxauc.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) maxauc.s.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) nri.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) roc.Rd:47: Escaped LaTeX specials: \&
checkRd: (-1) roc.s.Rd:47: Escaped LaTeX specials: \&
checkRd: (-1) sensspec.Rd:47: Escaped LaTeX specials: \&
checkRd: (-1) sensspec.s.Rd:47: Escaped LaTeX specials: \&
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Model_1.cm’ ‘dambacher.dot’ ‘levins.dot’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘scio’
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  LowRankQP.c:278:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  LowRankQP_init.c:29:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/LowRankQP.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) lpepa.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) lpepa.Rd:51: Escaped LaTeX specials: \&
checkRd: (-1) lpepa.Rd:52: Escaped LaTeX specials: \&
checkRd: (-1) lpepa.Rd:57: Escaped LaTeX specials: \&
checkRd: (-1) lpepa.Rd:90: Escaped LaTeX specials: \&
checkRd: (-1) lpridge.Rd:34: Escaped LaTeX specials: \&
checkRd: (-1) lpridge.Rd:61: Escaped LaTeX specials: \&
checkRd: (-1) lpridge.Rd:65: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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Package suggested but not available for checking: ‘kerdiest’
checkRd: (-1) specialchars.Rd:6: Escaped LaTeX specials: \&
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'LazyData' is specified without a 'data' directory
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checkRd: (-1) LS.kalman.Rd:65: Escaped LaTeX specials: \&
checkRd: (-1) spectral.density.Rd:55: Escaped LaTeX specials: \&
File ‘LTRCforests/libs/LTRCforests.so’:
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘LTRCforests.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Missing or unexported object: ‘base::check_tzones’
Running examples in ‘lubridate-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: ymd
> ### Title: Parse dates with *y*ear, *m*onth, and *d*ay components
> ### Aliases: ymd ydm mdy myd dmy dym yq ym my
> ### Keywords: chron
> 
> ### ** Examples
> 
> x <- c("09-01-01", "09-01-02", "09-01-03")
> ymd(x)
[1] "2009-01-01" "2009-01-02" "2009-01-03"
> x <- c("2009-01-01", "2009-01-02", "2009-01-03")
> ymd(x)
[1] "2009-01-01" "2009-01-02" "2009-01-03"
> ymd(090101, 90102)
[1] "2009-01-01" "2009-01-02"
> now() > ymd(20090101)
Error in `>.POSIXt`(now(), ymd(20090101)) : 
  object 'check_tzones' not found
Execution halted
Running ‘testthat.R’ [38s/57s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(lubridate)
  
  Attaching package: 'lubridate'
  
  The following objects are masked from 'package:base':
  
      date, intersect, setdiff, union
  
  > 
  > test_check("lubridate")
  [ FAIL 1 | WARN 0 | SKIP 10 | PASS 3040 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • FIXME: time_length should be same on sides of DST? (1)
  • FIXME: ymd_hms OSz parsing (2)
  • On CRAN (7)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-ops-compare.R:8'): Comparison operators work with POSIX and Date objects ──
  Error in ``==.Date`(ymd("2016-01-03"), ymd_hms("2016-01-03 00:00:00"))`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. ├─testthat::expect_true(ymd("2016-01-03") == ymd_hms("2016-01-03 00:00:00")) at test-ops-compare.R:8:2
   2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
   3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
   4. └─lubridate (local) `==.Date`(ymd("2016-01-03"), ymd_hms("2016-01-03 00:00:00"))
  
  [ FAIL 1 | WARN 0 | SKIP 10 | PASS 3040 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Missing link or links in documentation object ‘cliBrtSunDurFrcPoints.Rd’:
  ‘[rnaturalearth]{rnaturalearth-package}’

See section ‘Cross-references’ in the ‘Writing R Extensions’ manual.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) read.magpie.Rd:20: Escaped LaTeX specials: \_ \_
checkRd: (-1) read.magpie.Rd:23: Escaped LaTeX specials: \_
checkRd: (-1) read.magpie.Rd:35: Escaped LaTeX specials: \_
checkRd: (-1) read.magpie.Rd:36: Escaped LaTeX specials: \_
checkRd: (-1) read.magpie.Rd:65: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:24: Escaped LaTeX specials: \_ \_
checkRd: (-1) write.magpie.Rd:27: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:39: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:40: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:42: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:43: Escaped LaTeX specials: \_
checkRd: (-1) write.magpie.Rd:70: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Package unavailable to check Rd xrefs: ‘INLA’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) breast_cancer_clean_features.Rd:45: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘RGtk2’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Bug Fixes
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘scrubr’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    To do
Specified C++11: please update to current default of C++17
checkRd: (-1) sw_sfac.Rd:24: Escaped LaTeX specials: \_
checkRd: (-1) Interpolation-class.Rd:41: Escaped LaTeX specials: \#
checkRd: (-1) MareyMap-class.Rd:85: Escaped LaTeX specials: \_
checkRd: (-1) MareyMap-methods.Rd:11: Escaped LaTeX specials: \_ \_ \_ \_
checkRd: (-1) MareyMap-methods.Rd:12: Escaped LaTeX specials: \_
checkRd: (-1) SpeciesMaps-methods.Rd:11: Escaped LaTeX specials: \_
checkRd: (-1) interpolation-methods.Rd:13: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
checkRd: (-1) mma.Rd:67: Escaped LaTeX specials: \&
checkRd: (-1) residuals.rsm.Rd:74: Escaped LaTeX specials: \&
checkRd: (-1) marima.Rd:223: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘flashier’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  matrix_random_access_iterator.h:97:19: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  matrix_forward_iterator.h:77:19: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  matrix_bidirectional_iterator.h:77:19: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/MasterBayes.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rrelaxiv’
checkRd: (-1) size_t-class.Rd:6: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  ../Core/cholmod_add.c:34:12: warning: argument 3 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../Core/cholmod_add.c:35:12: warning: argument 4 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../Cholesky/cholmod_factorize.c:101:12: warning: argument 2 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../Cholesky/cholmod_rowfac.c:577:12: warning: argument 3 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../Cholesky/cholmod_rowfac.c:602:12: warning: argument 3 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../Cholesky/cholmod_rowfac.c:629:12: warning: argument 3 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../MatrixOps/cholmod_sdmult.c:59:12: warning: argument 3 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../MatrixOps/cholmod_sdmult.c:60:12: warning: argument 4 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../Modify/cholmod_rowadd.c:72:12: warning: argument 3 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../Modify/cholmod_rowadd.c:116:12: warning: argument 3 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../Modify/cholmod_rowdel.c:72:12: warning: argument 3 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../Modify/cholmod_rowdel.c:104:12: warning: argument 3 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
  ../Supernodal/cholmod_super_numeric.c:102:12: warning: argument 3 of type ‘double[2]’ with mismatched bound [-Warray-parameter=]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/Matrix.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
File ‘Matrix/libs/Matrix.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘validity.o’

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.
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘utilities.R’
'LazyData' is specified without a 'data' directory
checkRd: (-1) maxControl.Rd:83: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘map_5.png’ ‘maze_5.html’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cplexAPI’
checkRd: (-1) mc.lnOR.Rd:7: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
checkRd: (-1) MCtest.Rd:39: Escaped LaTeX specials: \#
checkRd: (-1) MCtest.Rd:40: Escaped LaTeX specials: \#
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  chMatrix.c:162:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  mcmcsae_init.c:16:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/mcmcsae.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \&
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Initial version.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) glass.Rd:23: Escaped LaTeX specials: \_ \_ \_
checkRd: (-1) glass.Rd:24: Escaped LaTeX specials: \_ \_ \_ \_
checkRd: (-1) glass.Rd:25: Escaped LaTeX specials: \_ \_ \_
checkRd: (-1) glass.Rd:26: Escaped LaTeX specials: \_ \_ \_ \_
checkRd: (-1) pBED.Rd:34: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  threat-safe-random.h:58:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  threat-safe-random.h:70:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/mdgc.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘RGtk2’
'LazyData' is specified without a 'data' directory
Running examples in ‘MDP2-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: convertBinary2HMP
> ### Title: Convert a HMDP model stored in binary format to a 'hmp' (XML)
> ###   file. The function simply parse the binary files and create 'hmp'
> ###   files using the 'hmpMDPWriter()'.
> ### Aliases: convertBinary2HMP
> 
> ### ** Examples
> 
> ## Set working dir
> wd <- setwd(system.file("models", package = "MDP2"))
> 
> ## Convert the machine example to a hmp file
> prefix1 <- "machine1_"
> getBinInfoStates(prefix1)
# A tibble: 14 × 3
     sId stageStr label      
   <dbl> <chr>    <chr>      
 1     0 0,0      Dummy      
 2     1 1,0      good       
 3     2 1,1      average    
 4     3 2,0      good       
 5     4 2,1      average    
 6     5 2,2      not working
 7     6 3,0      good       
 8     7 3,1      average    
 9     8 3,2      not working
10     9 3,3      replaced   
11    10 4,0      good       
12    11 4,1      average    
13    12 4,2      not working
14    13 4,3      replaced   
> convertBinary2HMP(prefix1, duration = NULL)
Warning in write_xml.xml_document(doc, file) :
  Read-only file syste [1538]
Warning in write_xml.xml_document(doc, file) :
  Read-only file syste [1538]
Error in write_xml.xml_document(doc, file) : Error closing file
Calls: convertBinary2HMP ... <Anonymous> -> <Anonymous> -> write_xml.xml_document
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) mriTest.Rd:9: Escaped LaTeX specials: \&
checkRd: (-1) riTest.Rd:9: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘MethylCapSig’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) mebootSpear.Rd:88: Escaped LaTeX specials: \_
checkRd: (-1) ullwan.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) ullwan.Rd:8: Escaped LaTeX specials: \& \$
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Data_Correlation.txt’ ‘correlation_FDR_table.txt’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  pspp-system-for-R.c:34:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  pspp-system-for-R.c:1291:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/memisc.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘memo/libs/memo.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘getPointer.o’

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.
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: \#
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘ropls’
Package suggested but not available for checking: ‘genuMet’
'LazyData' is specified without a 'data' directory
Running examples in ‘metacore-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: check_inconsistent_labels
> ### Title: Optional checks to consistency of metadata
> ### Aliases: check_inconsistent_labels check_inconsistent_types
> ###   check_inconsistent_formats
> 
> ### ** Examples
> 
> ## EXAMPLE WITH DUPLICATES
> # Loads in a metacore obj called metacore
> load(metacore_example("pilot_ADaM.rda"))
> check_inconsistent_labels(metacore)
Error in `mutate()`:
ℹ In argument: `across(...)`.
ℹ In group 3: `var1 = "CHG"`.
Caused by error in `across()`:
! Can't compute column `variable`.
Caused by error in `dplyr_internal_error()`:
Backtrace:
     ▆
  1. ├─metacore::check_inconsistent_labels(metacore)
  2. │ └─metacore:::basic_check(label, metacore)
  3. │   └─... %>% select(variable = var1, everything())
  4. ├─dplyr::select(., variable = var1, everything())
  5. ├─dplyr::summarise(...)
  6. ├─dplyr::group_by(...)
  7. ├─dplyr::mutate(...)
  8. ├─dplyr:::mutate.data.frame(...)
  9. │ └─dplyr:::mutate_cols(.data, dplyr_quosures(...), by)
 10. │   ├─base::withCallingHandlers(...)
 11. │   └─dplyr:::mutate_col(dots[[i]], data, mask, new_columns)
 12. │     ├─base::withCallingHandlers(...)
 13. │     └─mask$eval_all_mutate(quo)
 14. │       └─dplyr (local) eval()
 15. └─dplyr:::dplyr_internal_error("dplyr:::mutate_incompatible_size", `<named list>`)
 16.   └─rlang::abort(class = c(class, "dplyr:::internal_error"), dplyr_error_data = data)
Execution halted
Found the following files/directories:
  ‘cycHumanBloodData.csv’ ‘cycHumanBloodDesign.csv’
  ‘cycMouseLiverProtein.txt’ ‘cycMouseLiverRNA.csv’ ‘cycSimu4h2d.csv’
  ‘cycYeastCycle.csv’ ‘example’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) dslp.Rd:11: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) cardiac.Rd:15: Escaped LaTeX specials: \&
checkRd: (-1) plvol.Rd:14: Escaped LaTeX specials: \&
checkRd: (-1) sbp.Rd:16: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘MetProc_output.pdf’ ‘sample_removed.csv’ ‘sample_retained.csv’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    mev v.1.9x
    mev v.1.8x
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    First release of mfe:
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘structSSI’
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Package unavailable to check Rd xrefs: ‘DAPAR’
Specified C++11: please update to current default of C++17
checkRd: (-1) IPDNa.Rd:42: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  do_nothing.h:4:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  do_nothing.c:11:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:7:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  nanotimer.c:88:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/microbenchmark.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘microcontax.data’
Package unavailable to check Rd xrefs: ‘microcontax.data’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) AKMCS.Rd:215: Escaped LaTeX specials: \&
checkRd: (-1) BMP.Rd:164: Escaped LaTeX specials: \&
checkRd: (-1) IRW.Rd:144: Escaped LaTeX specials: \&
checkRd: (-1) IRW.Rd:151: Escaped LaTeX specials: \&
checkRd: (-1) MP.Rd:142: Escaped LaTeX specials: \&
checkRd: (-1) MetropolisHastings.Rd:58: Escaped LaTeX specials: \&
checkRd: (-1) SubsetSimulation.Rd:152: Escaped LaTeX specials: \&
checkRd: (-1) oscillator_d6.Rd:14: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:33: warning: ‘void* __builtin_memset(void*, int, long unsigned int)’ forming offset [176, 183] is out of the bounds [0, 176] of object ‘b’ with type ‘arma::vec’ {aka ‘arma::Col<double>’} [-Warray-bounds]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/mixedClust.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
checkRd: (-1) SLD.Rd:20: Escaped LaTeX specials: \&
Package which this enhances but not available for checking: ‘AnalyzeFMRI’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Bug Fix
    Update Vignettes
    Function Optimizing
    New Functions
    Vignette
    Optimization
    Fix Bugs
    Add New Function
    Update Description Files
    Fix bugs
    New .R files
    Update Old .R files
Specified C++11: please update to current default of C++17
checkRd: (-1) mixmeta-package.Rd:115: Escaped LaTeX specials: \&
checkRd: (-1) mixmeta.ml.Rd:56: Escaped LaTeX specials: \&
checkRd: (-1) ml.igls.Rd:62: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘mixRasch’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) ssize.propCI.Rd:38: Escaped LaTeX specials: \&
Found the following significant warnings:
  waveform.c:31:4: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  waveform.c:44:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/mlbench.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
checkRd: (-1) BreastCancer.Rd:48: Escaped LaTeX specials: \&
checkRd: (-1) Ionosphere.Rd:38: Escaped LaTeX specials: \&
checkRd: (-1) Ionosphere.Rd:59: Escaped LaTeX specials: \&
checkRd: (-1) PimaIndiansDiabetes.Rd:19: Escaped LaTeX specials: \^
'LazyData' is specified without a 'data' directory
checkRd: (-1) Texture.Rd:35: Escaped LaTeX specials: \&
checkRd: (-1) binom.diagnostics.Rd:33: Escaped LaTeX specials: \&
checkRd: (-1) AutumnLab.Rd:27: Escaped LaTeX specials: \&
checkRd: (-1) binom.diagnostics.Rd:34: Escaped LaTeX specials: \&
checkRd: (-1) gp.list.Rd:16: Escaped LaTeX specials: \#
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'ueadata1', 'ueadata2', 'ueadata3', 'ueadata4', 'ueadata5',
  'ueadata6', 'ueadata7', 'ueadata8'
Specified C++14: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following files/directories:
  ‘MM2S_Predictions_Heatmap.pdf’ ‘MM2S_Predictions_StackedBarplot.pdf’
Found the following significant warnings:
  Array.h:24:38: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  ./lemon/maps.h:1973:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  ./lemon/maps.h:3135:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/mmand.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘Flury’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Package suggested but not available for checking: ‘alstructure’

Packages which this enhances but not available for checking:
  'miraculix', 'RandomFieldsUtils', 'MoBPSmaps'
Package suggested but not available for checking: ‘ArchR’
'LazyData' is specified without a 'data' directory
checkRd: (-1) modeest-package.Rd:150: Escaped LaTeX specials: \&
checkRd: (-1) vieu.Rd:56: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) CHECKSUCCESS.Rd:44: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    * efourier with default norm=TRUE now messages about how wrong it may be
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ordsampler.c:59:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ordsampler.c:113:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ordsampler.c:124:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ordsampler.c:386:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ordsampler.c:544:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ordsampler.c:560:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ordsampler.c:710:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ordsampler.c:1102:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sampler.c:52:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sampler.c:149:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sampler.c:158:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sampler.c:729:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/monoreg.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘corpus.useR.2008.abstracts’
Specified C++11: please update to current default of C++17
checkRd: (-1) Context.Rd:27: Escaped LaTeX specials: \&
checkRd: (-1) binom.diagnostics.Rd:48: Escaped LaTeX specials: \&
checkRd: (-1) psyfun.boot.Rd:23: Escaped LaTeX specials: \&
checkRd: (-1) psyfun.boot.Rd:28: Escaped LaTeX specials: \&
checkRd: (-1) genotype_data.Rd:7: Escaped LaTeX specials: \_
checkRd: (-1) genotype_data.Rd:18: Escaped LaTeX specials: \_
checkRd: (-1) phenotype_data.Rd:15: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) F.huggins.estim.Rd:199: Escaped LaTeX specials: \$ \$
checkRd: (-1) F.huggins.estim.Rd:205: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:206: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:207: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:208: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:209: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:210: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:212: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:213: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:214: Escaped LaTeX specials: \$
checkRd: (-1) F.huggins.estim.Rd:215: Escaped LaTeX specials: \$
checkRd: (-1) lines.cjs.Rd:15: Escaped LaTeX specials: \$
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Acceleration.pdf’ ‘File1.pdf’ ‘Forecast.pdf’ ‘Series.pdf’
  ‘Velocity.pdf’
checkRd: (-1) ml_g.Rd:47: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) ms_sev.Rd:31: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) mkjnw.Rd:3: Escaped LaTeX specials: \&
checkRd: (-1) mkjnw.Rd:6: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) MultBiplotR-package.Rd:50: Escaped LaTeX specials: \&
checkRd: (-1) MultBiplotR-package.Rd:52: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
checkRd: (-1) print.multcompLetters.Rd:20: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [320s/479s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(multicolor)
  Colors cannot be applied in this environment. Please use another application, such as RStudio or a color-enabled terminal.
  Colors cannot be applied in this environment. Please use another application, such as RStudio or a color-enabled terminal.
  > 
  > test_check("multicolor")
  [ FAIL 1 | WARN 0 | SKIP 1 | PASS 29 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • use_color() is not TRUE (1)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-multicolor.R:103'): colors(), including grays, rainbow, and rbg work ──
  `suppressMessages(...)` produced warnings.
  
  [ FAIL 1 | WARN 0 | SKIP 1 | PASS 29 ]
  Error: Test failures
  Execution halted
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
File ‘multinet/libs/multinet.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘eclat/tract/src/report.o’

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.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘rrelaxiv’
checkRd: (-1) mPhen.defineOptions.Rd:4: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) bal.Rd:156: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
checkRd: (-1) pkb.Rd:14: Escaped LaTeX specials: \# \# \#
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) mvr.Rd:113: Escaped LaTeX specials: \#
checkRd: (-1) mvr.Rd:115: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Package which this enhances but not available for checking: ‘asreml’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘re2r’
Found the following significant warnings:
  namespace.c:4:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/namespace.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘spatialClust’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Version (2018-01-22)
    Version  (2017-08-22)
    Version
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘gurobi’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘re2r’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) netCoin-package.Rd:38: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) exportToTSPlibFormat.Rd:32: Escaped LaTeX specials: \_
checkRd: (-1) exportToTSPlibFormat.Rd:32: Escaped LaTeX specials: \_ \_
checkRd: (-1) makeNetwork.Rd:31: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) NetworkChange.Rd:163: Escaped LaTeX specials: \&
checkRd: (-1) NetworkChangeRobust.Rd:144: Escaped LaTeX specials: \&
checkRd: (-1) NetworkStatic.Rd:142: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘map.png’ ‘maze.html’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'ANTsR', 'ITKR', 'extrantsr', 'MNITemplate', 'RAVEL', 'neurodata'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) graphresU.fun.Rd:72: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘jpndistrict’
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) Dmean.Rd:62: Escaped LaTeX specials: \&
checkRd: (-1) Dvar.Rd:63: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) nltm.control.Rd:29: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  veclib.h:302:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/nncc.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Found the following significant warnings:
  geodesic.c:57:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/nngeo.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Other ideas
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘hurricaneexposuredata’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) simulatePop.Rd:43: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  init.c:16:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/norm.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
File ‘npcp/libs/npcp.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘set_utils.o’

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.
Specified C++11: please update to current default of C++17
checkRd: (-1) prepareplot.Rd:64: Escaped LaTeX specials: \#
checkRd: (-1) prepareplot.Rd:68: Escaped LaTeX specials: \#
checkRd: (-1) nppbib.Rd:28: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) Ardechedata.Rd:18: Escaped LaTeX specials: \_
checkRd: (-1) nsRFA-package.Rd:231: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'originr', 'parallelsugar'
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  gutsRedIT.c:34:3: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  gutsRedIT.c:58:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  gutsRedSD.c:36:3: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  gutsRedSD.c:64:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  odeGUTS_init.c:5:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  odeGUTS_init.c:6:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/odeGUTS.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cmdstanr’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘openNLPmodels.en’
File ‘openxlsx/libs/openxlsx.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘read_workbook.o’, ‘write_data.o’

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.
Problems with news in ‘NEWS.md’:
No news entries found.
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Graph_layout_Doptbd_trtE’
Malformed Title field: should not end in a period.
Package which this enhances but not available for checking: ‘gurobi’
'LazyData' is specified without a 'data' directory
checkRd: (-1) quad_3D.Rd:22: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rrelaxiv’
Found the following files/directories:
  ‘Graph_layout_Doptrcd_trtE’
Package suggested but not available for checking: ‘gurobi’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Error(s) in re-building vignettes:
  ...
--- re-building ‘package_introduction.Rmd’ using rmarkdown
Quitting from lines 212-219 (package_introduction.Rmd) 
Error: processing vignette ‘package_introduction.Rmd’ failed with diagnostics:
argument of length 0
--- failed re-building ‘package_introduction.Rmd’

SUMMARY: processing the following file failed:
  ‘package_introduction.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:33: warning: ‘void* __builtin_memset(void*, int, long unsigned int)’ forming offset [176, 183] is out of the bounds [0, 176] of object ‘b’ with type ‘arma::vec’ {aka ‘arma::Col<double>’} [-Warray-bounds]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ordinalClust.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘cluster of fitted mean data.eps’ ‘cluster of fitted mean data.txt’
  ‘cluster of raw data.txt’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘result.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘getting-started.Rmd’ using rmarkdown
--- finished re-building ‘getting-started.Rmd’

--- re-building ‘overviewR_vignette.Rmd’ using rmarkdown
Quitting from lines 446-458 (overviewR_vignette.Rmd) 
Error: processing vignette ‘overviewR_vignette.Rmd’ failed with diagnostics:
`...` must be empty.
✖ Problematic arguments:
• by.x = !!dat1_id
• by.y = !!dat2_id
• all = TRUE
--- failed re-building ‘overviewR_vignette.Rmd’

SUMMARY: processing the following file failed:
  ‘overviewR_vignette.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Changes
'LazyData' is specified without a 'data' directory
checkRd: (-1) residuals_paco.Rd:10: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
Running ‘testthat.R’ [17s/27s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(padr)
  > 
  > test_check("padr")
  [ FAIL 1 | WARN 15 | SKIP 0 | PASS 614 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_thicken_cust.R:9'): warning is thrown by warn_when_filtering ───
  Error in ``<.POSIXt`(min(dt_var), min(spanned))`: object 'check_tzones' not found
  Backtrace:
      ▆
   1. ├─testthat::expect_warning(...) at test_thicken_cust.R:9:2
   2. │ └─testthat:::quasi_capture(...)
   3. │   ├─testthat (local) .capture(...)
   4. │   │ └─base::withCallingHandlers(...)
   5. │   └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
   6. └─padr:::warning_when_filtering(dt_var, full_spanned)
   7.   └─lubridate (local) `<.POSIXt`(min(dt_var), min(spanned))
  
  [ FAIL 1 | WARN 15 | SKIP 0 | PASS 614 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘CorShrink’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) btsdemo.Rd:22: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:23: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:24: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:25: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:26: Escaped LaTeX specials: \_
checkRd: (-1) btsdemo.Rd:30: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) pan.bd.Rd:65: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  ../inst/include/sundials/sundials_nvector.h:163:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_matrix.h:105:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_linearsolver.h:137:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/sundials/sundials_linearsolver.c:28:17: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/sundials/sundials_matrix.c:29:11: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_nonlinearsolver.h:131:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/sundials/sundials_nonlinearsolver.c:26:20: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/sundials/sundials_nvector.c:28:10: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/arkode/arkode_adapt_impl.h:125:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/arkode/arkode_impl.h:825:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/arkode/arkode.c:58:11: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/arkode/arkode_adapt.c:42:17: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/paropt.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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Found the following files/directories:
  ‘co2’ ‘co2.1’ ‘co2.2’ ‘co2s.1’ ‘co2s.2’ ‘ctm.1’ ‘ctm.2’ ‘m’ ‘m.1’
  ‘m.2’ ‘test’ ‘test.1’ ‘test.2’ ‘testa.1’ ‘testa.2’ ‘xfile.1’
  ‘xfile.2’
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checkRd: (-1) regul.Rd:52: Escaped LaTeX specials: \#
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GNU make is a SystemRequirements.
checkRd: (-1) glue_search_tables.Rd:24: Escaped LaTeX specials: \#
checkRd: (-1) dynamodb_batch_get_item.Rd:32: Escaped LaTeX specials: \#
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checkRd: (-1) iam_update_account_password_policy.Rd:21: Escaped LaTeX specials: \#
File ‘pbdSLAP/libs/pbdSLAP.so’:
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘libslap.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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
File ‘PCICt/libs/PCICt.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘datetime_360.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘PythonInR’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
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checkRd: (-1) Peacock.test-package.Rd:28: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  PeakSegJoint_interface.c:113:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/PeakSegJoint.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘crrstep’
checkRd: (-1) pec.Rd:250: Escaped LaTeX specials: \&
checkRd: (-1) pec.Rd:251: Escaped LaTeX specials: \&
checkRd: (-1) pec.Rd:256: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘georob’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
checkRd: (-1) breslow.Rd:27: Escaped LaTeX specials: \# \#
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) simulate.data.Rd:27: Escaped LaTeX specials: \_ \_
checkRd: (-1) simulate.data.Rd:28: Escaped LaTeX specials: \_ \_
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checkRd: (-1) my.bspline.Rd:38: Escaped LaTeX specials: \$ \$ \$
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Specified C++14: please update to current default of C++17
Found the following significant warnings:
  init.c:13:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/Peptides.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
checkRd: (-1) CAPM.RiskPremium.Rd:67: Escaped LaTeX specials: \&
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checkRd: (-1) managers.Rd:8: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘DMwR’
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Package suggested but not available for checking: ‘dendextendRcpp’
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checkRd: (-1) jackal.Rd:32: Escaped LaTeX specials: \&
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Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Fixed issues
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'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘animation.gif’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test.pdf’
Running ‘testthat.R’ [172s/286s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(PHEindicatormethods)
  > 
  > test_check("PHEindicatormethods")
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 452 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('testLifeExpectancy.R:315'): LE - warnings are generated when invalid arguments are used ──
  wideci_warning\[2\] does not match "some life expectancy values have a 95% confidence interval > 20 years; these values have been suppressed to NAs".
  Actual value: "Each row in `x` is expected to match at most 1 row in `y`\.\\nℹ Row 1 of `x` matches multiple rows\.\\nℹ If multiple matches are expected, set `multiple = "all"` to silence this\\n  warning\."
  Backtrace:
      ▆
   1. └─testthat::expect_match(wideci_warning[2], "some life expectancy values have a 95% confidence interval > 20 years; these values have been suppressed to NAs") at testLifeExpectancy.R:315:2
   2.   └─testthat:::expect_match_(...)
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 452 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Running examples in ‘phenofit-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: curvefits
> ### Title: Fine Curve fitting
> ### Aliases: curvefits
> 
> ### ** Examples
> 
> data("CA_NS6")
> d = CA_NS6
> 
> nptperyear <- 23
> INPUT <- check_input(d$t, d$y, d$w, QC_flag = d$QC_flag,
+      nptperyear = nptperyear, south = FALSE,
+      maxgap = nptperyear/4, alpha = 0.02, wmin = 0.2)
> # plot_input(INPUT)
> 
> # Rough fitting and growing season dividing
> wFUN <- "wTSM"
> brks2 <- season_mov(INPUT,
+     options = list(
+         rFUN = "smooth_wWHIT", wFUN = wFUN,
+         r_min = 0.05, ypeak_min = 0.05,
+         lambda = 10,
+         verbose = FALSE
+     ))
Error in FUN(X[[i]], ...) : 
  only defined on a data frame with all numeric-alike variables
Calls: season_mov ... get_A -> %>% -> diff -> Summary.data.frame -> lapply -> FUN
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘phenofit-procedures.Rmd’ using rmarkdown
Quitting from lines 71-110 (phenofit-procedures.Rmd) 
Error: processing vignette ‘phenofit-procedures.Rmd’ failed with diagnostics:
only defined on a data frame with all numeric-alike variables
--- failed re-building ‘phenofit-procedures.Rmd’

--- re-building ‘phenofit_CA-NS6.Rmd’ using rmarkdown
Quitting from lines 126-140 (phenofit_CA-NS6.Rmd) 
Error: processing vignette ‘phenofit_CA-NS6.Rmd’ failed with diagnostics:
only defined on a data frame with all numeric-alike variables
--- failed re-building ‘phenofit_CA-NS6.Rmd’

SUMMARY: processing the following files failed:
  ‘phenofit-procedures.Rmd’ ‘phenofit_CA-NS6.Rmd’

Error: Vignette re-building failed.
Execution halted
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'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘1khz.wav’ ‘snd.wav’
checkRd: (-1) phylo4d-methods.Rd:209: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  libphylocom/io.c:129:36: warning: argument 2 of type ‘char[50]’ with mismatched bound [-Warray-parameter=]
  libphylocom/io.c:597:24: warning: argument 1 of type ‘char[50]’ with mismatched bound [-Warray-parameter=]
  libphylocom/io.c:767:24: warning: argument 1 of type ‘char[50]’ with mismatched bound [-Warray-parameter=]
  libphylocom/io.c:935:26: warning: argument 1 of type ‘char[50]’ with mismatched bound [-Warray-parameter=]
  libphylocom/new2fy.c:9:19: warning: argument 1 of type ‘char[50]’ with mismatched bound [-Warray-parameter=]
  libphylocom/ecomain.c:543:23: warning: argument 1 of type ‘char[11]’ with mismatched bound [-Warray-parameter=]
  libphylocom/phylomatic.c:298:27: warning: argument 1 of type ‘char[100]’ with mismatched bound [-Warray-parameter=]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/phylocomr.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
checkRd: (-1) GarlandJanis.IC.Rd:4: Escaped LaTeX specials: \&
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checkRd: (-1) GarlandJanis.varcov.Rd:7: Escaped LaTeX specials: \&
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Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
checkRd: (-1) Kcalc.Rd:13: Escaped LaTeX specials: \$
checkRd: (-1) phylosignal.Rd:13: Escaped LaTeX specials: \$
checkRd: (-1) traitgram.Rd:14: Escaped LaTeX specials: \$
checkRd: (-1) utility.Rd:37: Escaped LaTeX specials: \$ \$
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Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Package suggested but not available for checking: ‘ggsubplot’
Specified C++11: please update to current default of C++17
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'LazyData' is specified without a 'data' directory
checkRd: (-1) sanitize_latex.Rd:49: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘P2Run.csv’ ‘P2Run.html’ ‘P2Run.png’
Packages suggested but not available for checking:
  'Matrix.utils', 'monocle3', 'ProjecTILs', 'SeuratWrappers'
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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checkRd: (-1) PLS_beta_wvc.Rd:5: Escaped LaTeX specials: \_
checkRd: (-1) plsRbeta.Rd:104: Escaped LaTeX specials: \^
Package suggested but not available for checking: ‘plsdepot’
checkRd: (-1) PLS_glm_wvc.Rd:5: Escaped LaTeX specials: \_
checkRd: (-1) PLS_lm_wvc.Rd:5: Escaped LaTeX specials: \_
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'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [35s/62s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(pointblank)
  
  Attaching package: 'pointblank'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  > library(dittodb)
  Loading required package: DBI
  > test_check("pointblank")
  [ FAIL 1 | WARN 3 | SKIP 26 | PASS 1093 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (26)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-transformers.R:302'): the `tt_time_slice()` function works ─────
  Error in `dplyr::filter(., session_start < lubridate::as_date("2015-01-10"))`: ℹ In argument: `session_start < lubridate::as_date("2015-01-10")`.
  Caused by error in `<.POSIXt`:
  ! object 'check_tzones' not found
  Backtrace:
       ▆
    1. ├─... %>% ... at test-transformers.R:302:2
    2. ├─dplyr::filter(., session_start < lubridate::as_date("2015-01-10"))
    3. ├─dplyr:::filter.data.frame(., session_start < lubridate::as_date("2015-01-10"))
    4. │ └─dplyr:::filter_rows(.data, dots, by)
    5. │   └─dplyr:::filter_eval(dots, mask = mask, error_call = error_call)
    6. │     ├─base::withCallingHandlers(...)
    7. │     └─mask$eval_all_filter(dots, env_filter)
    8. │       └─dplyr (local) eval()
    9. ├─lubridate (local) `<.POSIXt`(session_start, lubridate::as_date("2015-01-10"))
   10. └─base::.handleSimpleError(...)
   11.   └─dplyr (local) h(simpleError(msg, call))
   12.     └─rlang::abort(message, class = error_class, parent = parent, call = error_call)
  
  [ FAIL 1 | WARN 3 | SKIP 26 | PASS 1093 ]
  Error: Test failures
  In addition: Warning message:
  call dbDisconnect() when finished working with a connection 
  Execution halted
Package suggested but not available for checking: ‘INLA’
Package unavailable to check Rd xrefs: ‘INLA’
'LazyData' is specified without a 'data' directory
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'LazyData' is specified without a 'data' directory
checkRd: (-1) carcinoma.Rd:8: Escaped LaTeX specials: \&
checkRd: (-1) poLCA.Rd:63: Escaped LaTeX specials: \&
checkRd: (-1) poLCA.Rd:69: Escaped LaTeX specials: \&
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Package suggested but not available for checking: ‘pollimetrydata’
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘polyfreqs-mcmc.out’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘test-data.R’ ‘test-inits.R’ ‘test.bug’ ‘test.cmd’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [4s/16s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(DBI)
  > library(pool)
  > 
  > test_check("pool")
  Error in value[[3L]](cond) : 
    (converted from warning) Object of class MockPooledObj could not be destroyed properly, but was successfully removed from pool. Error message: Destruction failed...
  Calls: <Anonymous> ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 258 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-create-destroy.R:39'): destroyObject: throws if onDestroy fails ──
  `{ ... }` threw an error with unexpected message.
  Expected match: "Object of class MockPooledObj could not be destroyed properly, but was successfully removed from pool."
  Actual message: "invoke_wrapped: throwing std::runtime_error"
  Backtrace:
      ▆
   1. ├─testthat::expect_error(...) at test-create-destroy.R:39:4
   2. │ └─testthat:::quasi_capture(...)
   3. │   ├─testthat (local) .capture(...)
   4. │   │ └─base::withCallingHandlers(...)
   5. │   └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
   6. └─later::run_now() at test-create-destroy.R:41:8
   7.   └─later:::execCallbacks(timeoutSecs, all, loop$id)
  
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 258 ]
  Error: Test failures
  Execution halted
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) Kendall.Rd:73: Escaped LaTeX specials: \&
checkRd: (-1) countCDFxt.Rd:63: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘RClone’
Found the following significant warnings:
  init.c:24:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  omp_test.c:7:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/poppr.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
checkRd: (-1) genetic_distance.Rd:106: Escaped LaTeX specials: \~
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) tradelist-class.Rd:91: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) bira2.Rd:91: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:144: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:146: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:148: Escaped LaTeX specials: \&
checkRd: (-1) bira2.Rd:150: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:126: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:219: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:221: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:223: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:225: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:227: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:229: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:231: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:233: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:235: Escaped LaTeX specials: \&
checkRd: (-1) cra2.Rd:237: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:301: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:303: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:305: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:307: Escaped LaTeX specials: \&
checkRd: (-1) cra3.Rd:309: Escaped LaTeX specials: \&
checkRd: (-1) med_pn.Rd:129: Escaped LaTeX specials: \&
Unknown package ‘advclust’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  sum.c:358:12: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  prod.c:27:12: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:28:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:29:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/PreciseSums.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Package which this enhances but not available for checking: ‘ffbase’
Unknown package ‘ffbase’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘hista.png’ ‘plotcd.png’ ‘test.R’ ‘test.html’ ‘testR2html.R’
  ‘testglm.csv’ ‘testglm.html’ ‘testglm.tab’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  init.c:17:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:22:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  zhegv.c:232:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  zhegv.c:3715:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/PRIMME.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
Packages suggested but not available for checking:
  'gurobi', 'rcbc', 'cplexAPI'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) prodlim.Rd:119: Escaped LaTeX specials: \&
checkRd: (-1) plot.profileModel.Rd:69: Escaped LaTeX specials: \&
checkRd: (-1) profileModel.Rd:277: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ProFit’
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  pause.c:10:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/profvis.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cmdstanr’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘cin’
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  computeParentIonMass.c:59:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/protViz.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Package suggested but not available for checking: ‘rdt’
Package suggested but not available for checking: ‘rdt’
Package suggested but not available for checking: ‘rdt’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rdt’
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  util.c:6:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/pscl.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) esa.Rd:15: Escaped LaTeX specials: \&
checkRd: (-1) meta_varcov.Rd:9: Escaped LaTeX specials: \&
checkRd: (-1) meta_varcov.Rd:120: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘fulltext’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running examples in ‘PVplr-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: plr_variable_check
> ### Title: Define Standard Variable Names
> ### Aliases: plr_variable_check
> 
> ### ** Examples
> 
> var_list <- plr_variable_check(test_df)
Error in `dplyr::if_else()`:
! `false` must be a vector, not `NULL`.
Backtrace:
    ▆
 1. ├─PVplr::plr_variable_check(test_df)
 2. │ └─dplyr::if_else("wspa" %in% names, "wspa", NULL)
 3. │   └─dplyr:::vec_case_when(...)
 4. │     └─vctrs::list_check_all_vectors(values, arg = values_arg, call = call)
 5. └─vctrs:::stop_scalar_type(`<fn>`(NULL), "false", `<env>`)
 6.   └─vctrs:::stop_vctrs(...)
 7.     └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = vctrs_error_call(call))
Execution halted
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) Ch05-detail.Rd:23: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:24: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:25: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:31: Escaped LaTeX specials: \#
checkRd: (-1) Ch05-detail.Rd:32: Escaped LaTeX specials: \#
checkRd: (-1) Ch0C-plot.cpd.PwrGSD.Rd:40: Escaped LaTeX specials: \&
checkRd: (-1) aid_st2.Rd:6: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘exampleplot_1_blockdist_1.png’ ‘exampleplot_1_blockdist_2.png’
  ‘exampleplot_1_blockdist_3.png’ ‘exampleplot_1_bootdist.png’
  ‘exampleplot_1_dist.png’ ‘exampleplot_1_histogramtest_EMD.png’
  ‘exampleplot_1_roc_dynamic.png’ ‘exampleplot_1_slidedist_1.png’
  ‘exampleplot_1_slidedist_2.png’ ‘exampleplot_1_slidedist_3.png’
  ‘exampleplot_1_trimmeddist.png’ ‘exampleplot_blockdist_1.png’
  ‘exampleplot_blockdist_2.png’ ‘exampleplot_blockdist_3.png’
  ‘exampleplot_bootdist.png’ ‘exampleplot_dist.png’
  ‘exampleplot_lim_dyn.png’ ‘exampleplot_lim_sig.png’
  ‘exampleplot_lim_sta.png’ ‘exampleplot_noc.png’
  ‘exampleplot_roc_dyn.png’ ‘exampleplot_roc_sta.png’
  ‘exampleplot_slidedist_1.png’ ‘exampleplot_slidedist_2.png’
  ‘exampleplot_slidedist_3.png’ ‘exampleplot_trimmeddist.png’
  ‘myworkflow_result.xml’ ‘test_2_roc_dynamic.png’ ‘test_4_dist.png’
  ‘test_5_blockdist_1.png’ ‘test_5_blockdist_2.png’
  ‘test_5_blockdist_3.png’ ‘test_6_slidedist_1.png’
  ‘test_6_slidedist_2.png’ ‘test_6_slidedist_3.png’
  ‘test_7_trimmeddist.png’ ‘test_8_bootdist.png’ ‘test_emd_1d.png’
  ‘test_emd_2d.png’ ‘test_jsd_1d.png’ ‘test_jsd_2d.png’
  ‘test_kld_1d.png’ ‘test_kld_2d.png’ ‘test_ms_1d.png’ ‘test_ms_2d.png’
  ‘test_rms_1d.png’ ‘test_rms_2d.png’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘EWAS_QC_graph_effectsize.png’ ‘EWAS_QC_graph_precision.png’
  ‘EWAS_QC_legend.txt’ ‘sample1.txt.gz’ ‘sample2.txt.gz’
  ‘sample_map.txt.gz’ ‘sample_output.graph_M.png’
  ‘sample_output.graph_QQ.png’ ‘sample_output.graph_p.png’
  ‘sample_output.graph_volcano.png’ ‘sample_output.histo.png’
  ‘sample_output.txt’ ‘sample_output1.graph_M.png’
  ‘sample_output1.graph_QQ.png’ ‘sample_output1.graph_p.png’
  ‘sample_output1.graph_volcano.png’ ‘sample_output1.histo.png’
  ‘sample_output2.graph_M.png’ ‘sample_output2.graph_QQ.png’
  ‘sample_output2.graph_p.png’ ‘sample_output2.graph_volcano.png’
  ‘sample_output2.histo.png’ ‘translation_table.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  init.c:9:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:10:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/qoi.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘lambda.pdf’ ‘qqplot.pdf’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
File ‘qrjoint/libs/qrjoint.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘qrjoint.o’

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.
Malformed Description field: should contain one or more complete sentences.
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
checkRd: (-1) GRI.Rd:3: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following calls to attach():
File ‘quantmod/R/attachSymbols.R’:
  attach(NULL, pos = pos, name = DB$name)
  attach(NULL, pos = pos, name = DB$name)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  glmBias.c:84:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/QuasiSeq.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'fastshp', 'visualTest'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) qwraps2.Rd:73: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ReGenesees’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following calls to attach():
File ‘R2OpenBUGS/R/attach.all.R’:
  attach(x, name = name)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ../inst/include/sundials/sundials_nvector.h:163:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_nonlinearsolver.h:131:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_matrix.h:105:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_linearsolver.h:137:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  lib/sundials/sundials_nonlinearsolver.c:26:20: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  lib/sundials/sundials_matrix.c:29:11: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  lib/sundials/sundials_nvector.c:28:10: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  lib/sundials/sundials_linearsolver.c:28:17: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/r2sundials.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Found the following calls to attach():
File ‘R2WinBUGS/R/attach.all.R’:
  attach(x, name = name)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/rabhit.Rcheck/00install.out’ for details.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘blcs.dot’ ‘ex1.dot’ ‘ex1bridge1.dot’ ‘ex1bridge2.dot’
  ‘ex1bridge3.dot’ ‘ex1effect1.dot’ ‘ex1effect2.dot’ ‘gcmlinear.dot’
  ‘latent.dot’ ‘lcs.dot’ ‘mimic.dot’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ri’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘googlesheets’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  sketch.c:33:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sketch.c:38:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sketch.c:172:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sketch.c:206:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/RaProR.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'cairoDevice', 'RGtk2'
checkRd: (-1) acquireAuditData.Rd:24: Escaped LaTeX specials: \_
checkRd: (-1) rattle.Rd:44: Escaped LaTeX specials: \_
Found the following significant warnings:
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/concurrent_hash_map.h:343:23: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_queue_impl.h:744:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_queue_impl.h:1003:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_unordered_impl.h:67:36: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/RMatrix.h:18:24: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/Ravages.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘RavenR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: rvn_rvc_from_custom_output
> ### Title: Generate RVC file from Custom Output CSVs
> ### Aliases: rvn_rvc_from_custom_output
> 
> ### ** Examples
> 
> # Create array of custom output file(s)
> custout <- c(system.file("extdata","run1_SNOW_Daily_Average_ByHRU.csv",package = "RavenR"))
> 
> # Create rvc file of mean snow for each HRU
> rvn_rvc_from_custom_output(filename = file.path(tempdir(), "Blank.rvc"),
+                            custfiles = custout,
+                            FUN = mean)
Error in `!=.Date`(as.Date(init_date), init_date) : 
  object 'check_tzones' not found
Calls: rvn_rvc_from_custom_output -> rvn_rvc_write -> !=.Date
Execution halted
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  bedrock_leveldb.h:74:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bedrock_leveldb.h:100:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bedrock_leveldb.h:102:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bedrock_leveldb.h:103:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  support.h:44:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bedrock_leveldb.c:545:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bedrock_leveldb.c:785:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bedrock_leveldb.c:797:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bedrock_leveldb.c:802:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:39:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:136:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:137:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:138:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  nbt.c:35:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  random.c:44:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  random.c:56:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  random.c:90:17: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  subchunk.c:9:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  support.c:205:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/rbedrock.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Error(s) in re-building vignettes:
  ...
--- re-building ‘rbioapi.Rmd’ using rmarkdown
--- finished re-building ‘rbioapi.Rmd’

--- re-building ‘rbioapi_do_enrich.Rmd’ using rmarkdown
--- finished re-building ‘rbioapi_do_enrich.Rmd’

--- re-building ‘rbioapi_enrichr.Rmd’ using rmarkdown
--- finished re-building ‘rbioapi_enrichr.Rmd’

--- re-building ‘rbioapi_jaspar.Rmd’ using rmarkdown
--- finished re-building ‘rbioapi_jaspar.Rmd’

--- re-building ‘rbioapi_mieaa.Rmd’ using rmarkdown
Quitting from lines 71-90 (rbioapi_mieaa.Rmd) 
Error: processing vignette ‘rbioapi_mieaa.Rmd’ failed with diagnostics:
subscript out of bounds
--- failed re-building ‘rbioapi_mieaa.Rmd’

--- re-building ‘rbioapi_panther.Rmd’ using rmarkdown
--- finished re-building ‘rbioapi_panther.Rmd’

--- re-building ‘rbioapi_reactome.Rmd’ using rmarkdown
--- finished re-building ‘rbioapi_reactome.Rmd’

--- re-building ‘rbioapi_string.Rmd’ using rmarkdown
--- finished re-building ‘rbioapi_string.Rmd’

--- re-building ‘rbioapi_uniprot.Rmd’ using rmarkdown
--- finished re-building ‘rbioapi_uniprot.Rmd’

SUMMARY: processing the following file failed:
  ‘rbioapi_mieaa.Rmd’

Error: Vignette re-building failed.
Execution halted
Found the following significant warnings:
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/concurrent_hash_map.h:343:23: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_queue_impl.h:744:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_queue_impl.h:1003:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_unordered_impl.h:67:36: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/RMatrix.h:18:24: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/rbiom.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) mn4joint1condi.Rd:39: Escaped LaTeX specials: \$
checkRd: (-1) mn4joint1condi.Rd:40: Escaped LaTeX specials: \$
checkRd: (-1) objets.Rd:66: Escaped LaTeX specials: \#
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘rcanvec.cache’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rrelaxiv’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘rrelaxiv’
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘temp.RData’
Found the following significant warnings:
  nonred.c:99:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/rcdd.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘data.csv’
Found the following significant warnings:
  RClickhouse_init.c:23:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/RClickhouse.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘outcmaesdisp.dat’
Depends: includes the non-default packages:
  'biclust', 'fabia', 'iBBiG', 'superbiclust', 'BcDiag', 'BicARE',
  's4vd', 'BiBitR'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
'LazyData' is specified without a 'data' directory
checkRd: (-1) RcmdrPlugin.MA-package.Rd:21: Escaped LaTeX specials: \&
checkRd: (-1) RcmdrPlugin.MA-package.Rd:23: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘ROpenOffice’
Depends: includes the non-default packages:
  'IQCC', 'qcc', 'qicharts2', 'randtests', 'rmarkdown',
  'TeachingDemos', 'tseries'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
Package suggested but not available for checking: ‘conics’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
File ‘RcppNumerical/libs/RcppNumerical.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘Cuhre.o’

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.
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
Package suggested but not available for checking: ‘rredis’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  rDEA_init.c:11:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/rDEA.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  dsdp/include/dsdp5.h:206:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ../../include/dsdp5.h:206:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  dsdpcops.c:20:12: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  dsdpsetoptions.c:280:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sdpalloc.c:4:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/Rdsdp.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) re2_syntax.Rd:539: Escaped LaTeX specials: \_
Package suggested but not available for checking: ‘dataui’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘temp.txt’ ‘temp2.csv’ ‘temp3.rda’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
File ‘readr/libs/readr.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘grisu3.o’

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.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
File ‘readxl/libs/readxl.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘libxls/xlstool.o’

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.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘Filled.RData’ ‘cleaned.RData’ ‘days’ ‘gridded’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘TCGAbiolinks’
Error(s) in re-building vignettes:
  ...
--- re-building ‘Rediscover.Rmd’ using rmarkdown
Quitting from lines 21-30 (Rediscover.Rmd) 
Error: processing vignette ‘Rediscover.Rmd’ failed with diagnostics:
there is no package called 'TCGAbiolinks'
--- failed re-building ‘Rediscover.Rmd’

SUMMARY: processing the following file failed:
  ‘Rediscover.Rmd’

Error: Vignette re-building failed.
Execution halted
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  redland.c:771:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  redland.c:817:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  redland.c:1846:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/redland.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘EnvironmentalA.txt’ ‘EnvironmentalB.txt’ ‘Example.txt’
  ‘Example_Predictions.txt’ ‘Example_RRDist.txt’
  ‘Example_RRDistCol.TIF’ ‘Example_RRDistGrey.TIF’ ‘GeneticA.txt’
  ‘GeneticB.txt’ ‘Inds.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  init.c:9:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:13:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/reglogit.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
checkRd: (-1) pima.Rd:24: Escaped LaTeX specials: \^
checkRd: (-1) reglogit.Rd:120: Escaped LaTeX specials: \&
checkRd: (-1) reglogit.Rd:124: Escaped LaTeX specials: \&
checkRd: (-1) reglogit.Rd:136: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) calc.relimp.Rd:41: Escaped LaTeX specials: \~
checkRd: (-1) classesmethods.relaimpo.Rd:27: Escaped LaTeX specials: \$
checkRd: (-1) classesmethods.relaimpo.Rd:104: Escaped LaTeX specials: \$
checkRd: (-1) mianalyze.relimp.Rd:69: Escaped LaTeX specials: \~
checkRd: (-1) mianalyze.relimp.Rd:73: Escaped LaTeX specials: \~
checkRd: (-1) relimplm-class.Rd:63: Escaped LaTeX specials: \$
checkRd: (-1) relimplmbootMI-class.Rd:121: Escaped LaTeX specials: \$
checkRd: (-1) relimplmbooteval-class.Rd:146: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘pbdRPC’
checkRd: (-1) ena.plot.group.Rd:44: Escaped LaTeX specials: \$
checkRd: (-1) ena.plot.group.Rd:46: Escaped LaTeX specials: \$
checkRd: (-1) ena.plot.group.Rd:48: Escaped LaTeX specials: \$
checkRd: (-1) ena.plot.trajectory.Rd:38: Escaped LaTeX specials: \$
checkRd: (-1) ena.plot.trajectory.Rd:40: Escaped LaTeX specials: \$
checkRd: (-1) ena.plot.trajectory.Rd:42: Escaped LaTeX specials: \$
Problems with news in ‘NEWS.md’:
No news entries found.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘PackageCites.bib’
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
checkRd: (-1) cast.Rd:45: Escaped LaTeX specials: \_
checkRd: (-1) cast.Rd:46: Escaped LaTeX specials: \_
checkRd: (-1) as-data-frame-cast-df-v7.rd:3: Escaped LaTeX specials: \_
checkRd: (-1) as-data-frame-cast-matrix-59.rd:3: Escaped LaTeX specials: \_
checkRd: (-1) as-matrix-cast-df-bu.rd:3: Escaped LaTeX specials: \_
checkRd: (-1) as-matrix-cast-matrix-2y.rd:3: Escaped LaTeX specials: \_
checkRd: (-1) cast-9g.rd:19: Escaped LaTeX specials: \_ \_
checkRd: (-1) cast-9g.rd:41: Escaped LaTeX specials: \_
checkRd: (-1) cast-9g.rd:46: Escaped LaTeX specials: \_ \_
checkRd: (-1) clean-vars-rc.rd:13: Escaped LaTeX specials: \_
checkRd: (-1) expand-kx.rd:15: Escaped LaTeX specials: \_
checkRd: (-1) reshape-4u.rd:17: Escaped LaTeX specials: \_ \_
'LazyData' is specified without a 'data' directory
checkRd: (-1) Burns.Rd:28: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) rec.Rd:23: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) boot.james.Rd:47: Escaped LaTeX specials: \&
checkRd: (-1) boot.student2.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) coljack.means.Rd:32: Escaped LaTeX specials: \&
checkRd: (-1) collognorm.mle.Rd:69: Escaped LaTeX specials: \&
checkRd: (-1) collognorm.mle.Rd:71: Escaped LaTeX specials: \&
checkRd: (-1) fipois.reg.Rd:66: Escaped LaTeX specials: \&
checkRd: (-1) halfcauchy.mle.Rd:46: Escaped LaTeX specials: \&
checkRd: (-1) halfcauchy.mle.Rd:48: Escaped LaTeX specials: \&
checkRd: (-1) jack.mean.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) lm.parboot.Rd:37: Escaped LaTeX specials: \&
checkRd: (-1) multivm.mle.Rd:62: Escaped LaTeX specials: \&
checkRd: (-1) ancova1.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) ancovas.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) boot.ttest2.Rd:39: Escaped LaTeX specials: \&
checkRd: (-1) colnormal.mle.Rd:72: Escaped LaTeX specials: \&
checkRd: (-1) colnormal.mle.Rd:74: Escaped LaTeX specials: \&
checkRd: (-1) colnormal.mle.Rd:77: Escaped LaTeX specials: \&
checkRd: (-1) colrint.regbx.Rd:58: Escaped LaTeX specials: \&
checkRd: (-1) colvarcomps.mom.Rd:69: Escaped LaTeX specials: \&
checkRd: (-1) colvarcomps.mom.Rd:74: Escaped LaTeX specials: \&
checkRd: (-1) ftest.Rd:90: Escaped LaTeX specials: \&
checkRd: (-1) ftests.Rd:68: Escaped LaTeX specials: \&
checkRd: (-1) gammamle.Rd:81: Escaped LaTeX specials: \&
checkRd: (-1) gammamle.Rd:83: Escaped LaTeX specials: \&
checkRd: (-1) gammamle.Rd:88: Escaped LaTeX specials: \&
checkRd: (-1) rint.regbx.Rd:65: Escaped LaTeX specials: \&
checkRd: (-1) rint.regs.Rd:57: Escaped LaTeX specials: \&
checkRd: (-1) twoway.anovas.Rd:46: Escaped LaTeX specials: \&
checkRd: (-1) varcomps.mom.Rd:66: Escaped LaTeX specials: \&
checkRd: (-1) varcomps.mom.Rd:70: Escaped LaTeX specials: \&
checkRd: (-1) vm.mle.Rd:60: Escaped LaTeX specials: \&
File ‘RFCCA/libs/RFCCA.so’:
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘randomForestSRC.o’

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.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) CardioRiskFactors.Rd:35: Escaped LaTeX specials: \&
Specified C++14: please update to current default of C++17
File ‘Rfmtool/libs/Rfmtool.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘lp_MPS.o’, ‘lp_lib.o’, ‘lp_params.o’, ‘lp_presolve.o’,
      ‘mmio.o’, ‘yacc_read.o’
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘lusol.o’

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.
'LazyData' is specified without a 'data' directory
File ‘rforensicbatwing/libs/rforensicbatwing.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘myio.o’, ‘pars.o’, ‘prior.o’

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.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
File ‘RFpredInterval/libs/RFpredInterval.so’:
  Found ‘__vsprintf_chk’, possibly from ‘vsprintf’ (C)
    Object: ‘randomForestSRC.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  Rglpk_read_file.c:17:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:42:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/Rglpk.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
checkRd: (-1) Rglpk_read_file.Rd:6: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) columbus.Rd:24: Escaped LaTeX specials: \_
checkRd: (-1) columbus.Rd:25: Escaped LaTeX specials: \_
checkRd: (-1) columbus.Rd:29: Escaped LaTeX specials: \$
checkRd: (-1) columbus.Rd:30: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  qoma-hli.h:23:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  qoma-hli.h:24:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  qoma-hli.h:25:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  qoma-hli.h:26:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  qoma-hli.c:29:7: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  qoma-hli.c:39:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  qoma-hli.c:58:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  qoma-hli.c:131:7: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/rhli.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
File ‘rhli/libs/rhli.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘qoma-hli.o’

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.
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘mydata.rda’ ‘thedata.rda’
'LazyData' is specified without a 'data' directory
File ‘RhpcBLASctl/libs/RhpcBLASctl.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘blasctl.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'mimic.demo', 'eicu.demo'
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) acg.Rd:72: Escaped LaTeX specials: \&
checkRd: (-1) gorilla.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) grassmann.utest.Rd:63: Escaped LaTeX specials: \&
checkRd: (-1) macg.Rd:71: Escaped LaTeX specials: \&
checkRd: (-1) sphere.utest.Rd:47: Escaped LaTeX specials: \&
checkRd: (-1) stiefel.utest.Rd:64: Escaped LaTeX specials: \&
checkRd: (-1) wrap.landmark.Rd:41: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  convert.h:12:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  convert.c:79:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ring.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
File ‘RInside/libs/RInside.so’:
  Found ‘srand’, possibly from ‘srand’ (C)
    Object: ‘RInside.o’
File ‘RInside/libs/RInside.so’:
  Found non-API calls to R: ‘R_CStackLimit’, ‘R_CleanTempDir’,
    ‘R_DefParams’, ‘R_ReplDLLinit’, ‘R_RunExitFinalizers’,
    ‘R_SetParams’, ‘R_SignalHandlers’, ‘R_TempDir’, ‘Rf_endEmbeddedR’,
    ‘Rf_initEmbeddedR’, ‘run_Rmainloop’

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

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘B110711CD4.CSV’ ‘inputparam2.txt’ ‘itcout0.pdf’ ‘itcout1.eps’
  ‘origin_data.csv’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  init.h:19:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.h:26:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.h:30:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/rjags.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Non-standard file/directory found at top level:
  ‘jri’
Found the following possibly unsafe calls:
File ‘rJava/R/import.R’:
  unlockBinding(IMPORTER, env = env)
  assignInNamespace(IMPORTER, importer, envir = env)
File ‘rJava/R/jinit.R’:
  unlockBinding(x, .env)
  unlockBinding(x, pe)
GNU make is a SystemRequirements.
Found the following Makefile(s) with an include directive with a pathname using R_HOME:
  jri/src/Makefile.win
  jri/src/win32/Makefile
  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'.
Note: information on .o files is not available
File ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rJava/libs/rJava.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
  Found ‘_exit’, possibly from ‘_exit’ (C)
  Found ‘stderr’, possibly from ‘stderr’ (C)
  Found ‘stdout’, possibly from ‘stdout’ (C)
File ‘rJava/libs/rJava.so’:
  Found non-API calls to R: ‘R_CStackLimit’, ‘R_CStackStart’

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. The detected symbols are linked into
the code but might come from libraries and not actually be called.
Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘rJPSGCS/libs/rJPSGCS.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘readPEDfile.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) Exponential.Rd:52: Escaped LaTeX specials: \&
checkRd: (-1) Gamma.Rd:80: Escaped LaTeX specials: \&
checkRd: (-1) college.Rd:13: Escaped LaTeX specials: \$
checkRd: (-1) college.Rd:15: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
File ‘rlang/libs/rlang.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘internal.o’

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.
Specified C++14: please update to current default of C++17
Found the following significant warnings:
  RngWrap.c:12:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  RngWrap.c:23:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  RngWrap.c:304:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  zzz.c:11:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  zzz.c:13:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  zzz.c:17:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/rlecuyer.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Found the following significant warnings:
  ../inst/lemon/maps.h:1973:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  ../inst/lemon/maps.h:3135:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/rlemon.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
File ‘RLT/libs/RLT.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘RLT.o’

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.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) cGARCHfilter-class.Rd:57: Escaped LaTeX specials: \&
checkRd: (-1) cGARCHfit-class.Rd:59: Escaped LaTeX specials: \&
checkRd: (-1) cGARCHsim-class.Rd:52: Escaped LaTeX specials: \&
checkRd: (-1) cGARCHspec-class.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) cgarchsim-methods.Rd:78: Escaped LaTeX specials: \&
checkRd: (-1) goGARCHfilter-class.Rd:155: Escaped LaTeX specials: \&
checkRd: (-1) goGARCHfit-class.Rd:166: Escaped LaTeX specials: \&
checkRd: (-1) rmgarch-package.Rd:73: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following calls to attach():
File ‘Rmosek/R/builder.R’:
  attach(builderenv, pos, name, warn.conflicts)
See section ‘Good practice’ in ‘?attach’.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘rnaturalearthhires’
Malformed Title field: should not end in a period.
checkRd: (-1) NlistServersInCategory.Rd:11: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) addLR.Rd:57: Escaped LaTeX specials: \&
checkRd: (-1) addLRinv.Rd:57: Escaped LaTeX specials: \&
checkRd: (-1) adtestWrapper.Rd:69: Escaped LaTeX specials: \&
checkRd: (-1) arcticLake.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) cenLR.Rd:43: Escaped LaTeX specials: \&
checkRd: (-1) cenLRinv.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) expenditures.Rd:36: Escaped LaTeX specials: \&
checkRd: (-1) gemas.Rd:68: Escaped LaTeX specials: \&
checkRd: (-1) machineOperators.Rd:34: Escaped LaTeX specials: \&
checkRd: (-1) plot.imp.Rd:138: Escaped LaTeX specials: \&
checkRd: (-1) robCompositions-package.Rd:88: Escaped LaTeX specials: \&
checkRd: (-1) skyeLavas.Rd:31: Escaped LaTeX specials: \&
checkRd: (-1) variation.Rd:45: Escaped LaTeX specials: \&
Unknown package ‘StatDA’ in Rd xrefs
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  monitor.c:15:14: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/robustbase.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
checkRd: (-1) aircraft.Rd:8: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  /usr/lib/gcc/x86_64-linux-gnu/12/include/emmintrin.h:131:24: warning: array subscript ‘__m128d_u[0]’ is partly outside array bounds of ‘Eigen::internal::plain_matrix_type<Eigen::Product<Eigen::Block<Eigen::Matrix<double, -1, -1>, 1, -1, false>, Eigen::Transpose<Eigen::Block<Eigen::Matrix<double, -1, -1>, 1, -1, false> >, 0>, Eigen::Dense>::type [1]’ {aka ‘Eigen::Matrix<double, 1, 1, 0, 1, 1> [1]’} [-Warray-bounds]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/RobustGaSP.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) performance.Rd:35: Escaped LaTeX specials: \#
checkRd: (-1) performance.Rd:36: Escaped LaTeX specials: \# \# \#
checkRd: (-1) performance.Rd:37: Escaped LaTeX specials: \# \#
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘RandomFields’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:

  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
Found the following files/directories:
  ‘Rpdb.pdb’
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    IMPROVEMENTS AND ### BUG FIXES
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  conftest.c:2:5: warning: function declaration isn't a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/RPostgreSQL.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
File ‘RPostgreSQL/libs/RPostgreSQL.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘RS-DBI.o’, ‘RS-PostgreSQL.o’

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.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
File ‘RQuantLib/libs/RQuantLib.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘utils.o’

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.
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘HL_H0.pdf’ ‘pi0infer.pdf’ ‘rate.txt’ ‘summary.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test.bpl’ ‘test.cr’ ‘test.ct’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘evolqg’
Unknown package ‘evolqg’ in Rd xrefs
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gdalUtils’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  Stopwatch.h:13:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  Stopwatch.c:4:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/rscimark.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
Note: information on .o files is not available
File ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rserve/libs/Rserve.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
  Found ‘exit’, possibly from ‘exit’ (C)
  Found ‘rand’, possibly from ‘rand’ (C)
  Found ‘random’, possibly from ‘random’ (C)
  Found ‘srandom’, possibly from ‘srandom’ (C)
  Found ‘stderr’, possibly from ‘stderr’ (C)
File ‘Rserve/libs/Rserve.so’:
  Found non-API calls to R: ‘R_Consolefile’, ‘R_InputHandlers’,
    ‘R_Outputfile’, ‘R_TempDir’, ‘R_Visible’, ‘addInputHandler’,
    ‘ptr_R_Busy’, ‘ptr_R_ClearerrConsole’, ‘ptr_R_FlushConsole’,
    ‘ptr_R_ReadConsole’, ‘ptr_R_ResetConsole’, ‘ptr_R_ShowMessage’,
    ‘ptr_R_WriteConsole’, ‘ptr_R_WriteConsoleEx’

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. The detected symbols are linked into
the code but might come from libraries and not actually be called.
Compiled code should not call non-API entry points in R.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘Vdgraph’
Unknown package ‘Vdgraph’ in Rd xrefs
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Running ‘testthat.R’ [116s/238s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(RStoolbox) 
  > 
  > Sys.setenv("R_TESTS" = "") ## needed to pass R CMD check: https://github.com/hadley/testthat/issues/144
  > 
  > test_check("RStoolbox")
  [ FAIL 3 | WARN 0 | SKIP 11 | PASS 566 ]
  
  ══ Skipped tests ═══════════════════════════════════════════════════════════════
  • On CRAN (11)
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-multicore.R:21'): .paraRasterFun is equal to predict, calc, overlay, Both single and multicore. ──
  overlay: multicore not equal to overlay(r, fun = f).
  Attributes: < Component "srs": Lengths (0, 1) differ (string compare on first 0) >
  ── Failure ('test-multicore.R:21'): .paraRasterFun is equal to predict, calc, overlay, Both single and multicore. ──
  overlay: multicore not equal to overlay(r, fun = f).
  Attributes: < Component "srs": Lengths (0, 1) differ (string compare on first 0) >
  ── Error ('test-superClass.R:142'): terra inputs ───────────────────────────────
  Error in `superClass(rast(lsat), trainData = poly, nSamples = 50, responseCol = "class", 
      model = "pls", tuneGrid = data.frame(ncomp = 3), tuneLength = 1, 
      trainPartition = 0.7, predict = FALSE)`: img, trainData and valData (if provided) must have the same projection
  Backtrace:
      ▆
   1. ├─testthat::expect_is(...) at test-superClass.R:142:12
   2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
   3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
   4. └─RStoolbox::superClass(...)
  
  [ FAIL 3 | WARN 0 | SKIP 11 | PASS 566 ]
  Error: Test failures
  Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  rsyslog.h:15:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  rsyslog.c:50:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/rsyslog.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test_addPageBreak.doc’ ‘test_addPlot.doc’ ‘test_addSessionInfo.doc’
  ‘test_addTable.doc’
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘cmdstanr’
Specified C++14: please update to current default of C++17
Unknown package ‘cmdstanr’ in Rd xrefs
GNU make is a SystemRequirements.
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following files/directories:
  ‘Tsttwalk.dat’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) tracker.Rd:70: Escaped LaTeX specials: \&
checkRd: (-1) tracker.Rd:73: Escaped LaTeX specials: \&
Found the following files/directories:
  ‘results’
checkRd: (-1) run.jags.study.Rd:67: Escaped LaTeX specials: \$
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘glmmADMB’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gpuR’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
File ‘RVowpalWabbit/libs/RVowpalWabbit.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘parse_args.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) mapBubbles.Rd:62: Escaped LaTeX specials: \$
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) BootsChapt.Rd:38: Escaped LaTeX specials: \&
checkRd: (-1) SemiparChangePoint.Rd:30: Escaped LaTeX specials: \&
checkRd: (-1) schapt.Rd:44: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  Gen_fun.h:17:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  Gen_fun.c:121:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  IFscratch.h:64:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  load_IFscratch.c:64:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/samon.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Found the following significant warnings:
  init.h:28:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.h:29:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/SamplerCompare.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
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: \#
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘networkTomography’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘FitARMA’
Specified C++11: please update to current default of C++17
checkRd: (-1) generef.Rd:29: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
File ‘sbde/libs/sbde.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘sbde.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Updated help pages with examples
    Updated conjugate model sampler
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Packages which this enhances but not available for checking:
  'gurobi', 'pogs'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) x.oreo.Rd:48: Escaped LaTeX specials: \_ \_
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  error.h:33:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/scclust.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘ssvd’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) simulateSNPs.Rd:46: Escaped LaTeX specials: \& \& \&
checkRd: (-1) simulateSNPs.Rd:80: Escaped LaTeX specials: \& \& \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘untitled_consensus_cluster’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘glmGamPoi’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘MC p-value.ps’ ‘Output.csv’ ‘Rh.ps’ ‘Th.ps’ ‘dataratio .Rdata’
  ‘featuresRmax.csv’ ‘featuresT.csv’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘INLA’
Package unavailable to check Rd xrefs: ‘INLA’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Packages suggested but not available for checking:
  'xbioc', 'MuSiC', 'seAMLessData'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘Intro-to-seecolor-package.Rmd’ using rmarkdown
Quitting from lines 49-60 (Intro-to-seecolor-package.Rmd) 
Error: processing vignette ‘Intro-to-seecolor-package.Rmd’ failed with diagnostics:
[1m[22m[36mℹ[39m In index: 1.
[1mCaused by error in `dplyr::if_else()`:[22m
[33m![39m `condition` must be a vector with type <logical>.
Instead, it has type <logical[,1]>.
--- failed re-building ‘Intro-to-seecolor-package.Rmd’

SUMMARY: processing the following file failed:
  ‘Intro-to-seecolor-package.Rmd’

Error: Vignette re-building failed.
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package required but not available: ‘ArrayExpress’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘spgrass6’
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
checkRd: (-1) escape.Rd:28: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) fahst.rd:39: Escaped LaTeX specials: \^
checkRd: (-1) fahst.rd:36: Escaped LaTeX specials: \^
checkRd: (-1) fasnt.rd:46: Escaped LaTeX specials: \^
checkRd: (-1) fasnt.rd:42: Escaped LaTeX specials: \^
checkRd: (-1) fasnt.rd:43: Escaped LaTeX specials: \^
checkRd: (-1) fast.Rd:49: Escaped LaTeX specials: \^
checkRd: (-1) fast.Rd:44: Escaped LaTeX specials: \^
checkRd: (-1) fast.Rd:45: Escaped LaTeX specials: \^
checkRd: (-1) fast.Rd:46: Escaped LaTeX specials: \^
checkRd: (-1) hsortplot.rd:24: Escaped LaTeX specials: \^
checkRd: (-1) nappesortplot.Rd:30: Escaped LaTeX specials: \^
checkRd: (-1) nappesortplot.Rd:28: Escaped LaTeX specials: \^
checkRd: (-1) plot.fahst.rd:45: Escaped LaTeX specials: \^
checkRd: (-1) plot.fasnt.Rd:47: Escaped LaTeX specials: \^
checkRd: (-1) plot.fast.Rd:45: Escaped LaTeX specials: \^
checkRd: (-1) print.fahst.rd:22: Escaped LaTeX specials: \^
checkRd: (-1) print.fasnt.Rd:22: Escaped LaTeX specials: \^
checkRd: (-1) print.fast.Rd:22: Escaped LaTeX specials: \^
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
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’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package required but not available: ‘copynumber’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
'LazyData' is specified without a 'data' directory
checkRd: (-1) SEset_to_network.Rd:50: Escaped LaTeX specials: \&
checkRd: (-1) network_to_SEset.Rd:72: Escaped LaTeX specials: \&
checkRd: (-1) network_to_path.Rd:50: Escaped LaTeX specials: \&
checkRd: (-1) path_to_network.Rd:29: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) gPLS.Rd:72: Escaped LaTeX specials: \^
checkRd: (-1) gPLS.Rd:74: Escaped LaTeX specials: \^
checkRd: (-1) sPLS.Rd:67: Escaped LaTeX specials: \^
checkRd: (-1) sPLS.Rd:69: Escaped LaTeX specials: \^
checkRd: (-1) sgPLS.Rd:75: Escaped LaTeX specials: \^
checkRd: (-1) sgPLS.Rd:77: Escaped LaTeX specials: \^
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Other ideas
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rCOSA’
Package unavailable to check Rd xrefs: ‘rCOSA’
Package suggested but not available for checking: ‘hydromad’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cmdstanr’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘.shiny_run’ ‘shinyShortcut.desktop’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘cmdstanr’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  cairodev.h:86:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  cairodev.c:11:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  outline.h:64:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  util.h:44:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  util.h:47:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  outline.c:169:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  register_routines.c:8:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  showtext.c:111:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  util.c:43:19: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  util.c:53:5: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/showtext.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘MM.csv’ ‘Simul.csv’ ‘catalytic.csv’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘copynumber’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following files/directories:
  ‘ExportFigtree1.tre’
checkRd: (-1) chol_s2Dp.Rd:147: Escaped LaTeX specials: \&
checkRd: (-1) chol_s2Dp.Rd:149: Escaped LaTeX specials: \&
checkRd: (-1) precision_builder.Rd:87: Escaped LaTeX specials: \&
checkRd: (-1) sim2D_RandSet_HPPP.Rd:93: Escaped LaTeX specials: \&
checkRd: (-1) sim2D_binarymap.Rd:157: Escaped LaTeX specials: \&
checkRd: (-1) sim_MVN_X.Rd:140: Escaped LaTeX specials: \&
checkRd: (-1) sim_Y_Binary_X.Rd:221: Escaped LaTeX specials: \&
checkRd: (-1) sim_Y_Binary_X.Rd:223: Escaped LaTeX specials: \&
checkRd: (-1) sim_Y_MVN_X.Rd:213: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘database.csv’ ‘output.csv’ ‘output_clst.csv’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following files/directories:
  ‘res_mutation.tsv’ ‘res_mutationCounts.txt’
  ‘res_processContribution.txt’ ‘res_processes.txt’
Found the following files/directories:
  ‘simu.pheno’ ‘usedpars.txt’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    simpleCache [0.0.1]
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘SimRAD-exampleRefSeq-Fasta.fa’ ‘SimRAD-exampleRefSeq.fa’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Specified C++14: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Version (Date)
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘SIPmg-vignette.Rmd’ using rmarkdown
Quitting from lines 248-256 (SIPmg-vignette.Rmd) 
Error: processing vignette ‘SIPmg-vignette.Rmd’ failed with diagnostics:
ℹ In argument: `grouped_seq_cov = purrr::map2(...)`.
Caused by error in `purrr::map2()`:
ℹ In index: 1.
Caused by error in `dplyr::na_if()`:
! Can't convert `y` <double> to match type of `x` <tbl_df>.
--- failed re-building ‘SIPmg-vignette.Rmd’

SUMMARY: processing the following file failed:
  ‘SIPmg-vignette.Rmd’

Error: Vignette re-building failed.
Execution halted
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package which this enhances but not available for checking: ‘kmndirs’
Unavailable namespace imported from by a ‘:::’ call: ‘kmndirs’
  See the note in ?`:::` about the use of this operator.
Found the following significant warnings:
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/concurrent_hash_map.h:343:23: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_queue_impl.h:744:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_queue_impl.h:1003:21: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/tbb/internal/_concurrent_unordered_impl.h:67:36: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppParallel/include/RcppParallel/RMatrix.h:18:24: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/skm.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) ex0723.Rd:29: Escaped LaTeX specials: \&
checkRd: (-1) ex0915.Rd:25: Escaped LaTeX specials: \&
checkRd: (-1) ex1515.Rd:4: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) slp-package.Rd:38: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Unknown package ‘InformationValue’ in Rd xrefs
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘rPython’
Found the following significant warnings:
  bbobStructures.h:126:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bbobStructures.h:128:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bbobStructures.h:130:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bbobStructures.h:131:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  bbobStructures.h:133:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarkshelper.h:12:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarkshelper.h:13:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarkshelper.h:18:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarkshelper.h:19:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarks.h:27:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarks.h:28:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarks.c:1637:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarks.c:1671:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarkshelper.c:192:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarkshelper.c:204:8: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarkshelper.c:304:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  benchmarkshelper.c:314:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/smoof.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
File ‘smoof/libs/smoof.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘benchmarkshelper.o’

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.
'LazyData' is specified without a 'data' directory
checkRd: (-1) hoods2dsmooth.Rd:69: Escaped LaTeX specials: \&
checkRd: (-1) kernel2dmeitsjer.Rd:75: Escaped LaTeX specials: \&
checkRd: (-1) kernel2dsmooth.Rd:42: Escaped LaTeX specials: \&
checkRd: (-1) smoothie-package.Rd:42: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  Scythe_Matrix_Iterator.h:73:31: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
  Scythe_Matrix_Iterator.h:192:31: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/smoothSurv.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘my_new_social_media_plot.png’
Found the following significant warnings:

  Warning: 'rgl::rgl.viewpoint' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.texts' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.lines' is deprecated.
  Warning: 'rgl::rgl.points' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  SnowballC_init.c:7:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  stem.c:59:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/SnowballC.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
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’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) llwrPTF.Rd:7: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
checkRd: (-1) plot.som.Rd:27: Escaped LaTeX specials: \_
checkRd: (-1) som.Rd:128: Escaped LaTeX specials: \_
'LazyData' is specified without a 'data' directory
File ‘soobench/libs/soobench.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘benchmarkshelper.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘SciencesPo’
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘r2cytoscape’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘NLMR’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Unknown package ‘sparsebn’ in Rd xrefs
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) grid2latlong.Rd:22: Escaped LaTeX specials: \$
checkRd: (-1) latlong2grid.Rd:22: Escaped LaTeX specials: \$
Package suggested but not available for checking: ‘INLA’
Package suggested but not available for checking: ‘INLA’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) sarorderedprobit.Rd:84: Escaped LaTeX specials: \#
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Depends: includes the non-default packages:
  'spatstat.geom', 'spatstat.random', 'spatstat.explore',
  'spatstat.model', 'spatstat.linnet', 'spatstat.data', 'spatstat',
  'rpanel', 'tcltk'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
Depends: includes the non-default packages:
  'spatstat.data', 'spatstat.sparse', 'spatstat.geom',
  'spatstat.random', 'spatstat.explore', 'spatstat.model',
  'spatstat.linnet', 'spatstat'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
Depends: includes the non-default packages:
  'spatstat.data', 'spatstat.sparse', 'spatstat.geom',
  'spatstat.random', 'spatstat.explore', 'spatstat.model', 'spatstat'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
Packages suggested but not available for checking:
  'RandomFields', 'RandomFieldsUtils'

Depends: includes the non-default packages:
  'spatstat.data', 'spatstat.geom', 'spatstat.random',
  'spatstat.explore', 'nlme', 'rpart'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
Package unavailable to check Rd xrefs: ‘RandomFields’
Packages suggested but not available for checking:
  'RandomFields', 'RandomFieldsUtils'
Package unavailable to check Rd xrefs: ‘RandomFields’
Depends: includes the non-default packages:
  'spatstat.data', 'spatstat.geom', 'spatstat.random',
  'spatstat.explore', 'spatstat.model', 'spatstat.linnet'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘spDataLarge’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Roadmap of specklestar package
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) image.plot.Rd:78: Escaped LaTeX specials: \$
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘.neig’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
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’
Specified C++11: please update to current default of C++17
checkRd: (-1) PimaIndiansDiabetes_long.Rd:14: Escaped LaTeX specials: \^
checkRd: (-1) PimaIndiansDiabetes_wide.Rd:16: Escaped LaTeX specials: \^
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Feature Changes
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  timeObj.c:34:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  timeObj.c:63:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  zoneObj.c:29:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  zoneObj.c:52:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/splusTimeDate.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
File ‘splusTimeDate/libs/splusTimeDate.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘timeFormat.o’, ‘timeSpanFormat.o’
  Found ‘sprintf’, possibly from ‘sprintf’ (C)
    Object: ‘timeFormat.o’

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.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  spMC.h:44:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  spMC.c:303:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/spMC.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    updates of 10th May 2021
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) shypEstFun.Rd:52: Escaped LaTeX specials: \$
checkRd: (-1) shypEstFun.Rd:54: Escaped LaTeX specials: \$
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) B_sraAutoreg.Rd:41: Escaped LaTeX specials: \&
checkRd: (-1) C_sraMechanistic.Rd:68: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
File ‘SSN/libs/SSN.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘dbfopenSSN.o’

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.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) Snacks.Rd:6: Escaped LaTeX specials: \~
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Major changes
    Bug fixes
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) katrina.Rd:36: Escaped LaTeX specials: \&
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Error(s) in re-building vignettes:
  ...
--- re-building ‘starschemar.Rmd’ using rmarkdown
Quitting from lines 354-363 (starschemar.Rmd) 
Error: processing vignette ‘starschemar.Rmd’ failed with diagnostics:
`x` must be a vector, not a <tbl_df/tbl/data.frame/dimension_table> object.
--- failed re-building ‘starschemar.Rmd’

SUMMARY: processing the following file failed:
  ‘starschemar.Rmd’

Error: Vignette re-building failed.
Execution halted
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    To do
Package suggested but not available for checking: ‘starsdata’
checkRd: (-1) multiCUMSUM.Rd:33: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘testmat.sdml’ ‘testmat2.sdml’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘asreml’
Package suggested but not available for checking: ‘asreml’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘asreml’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Found the following possibly unsafe calls:
File ‘statnet.common/R/control.utilities.R’:
  unlockBinding("snctrl", environment(snctrl))
  unlockBinding("snctrl", environment(update_my_snctrl))
Package suggested but not available for checking: ‘networksis’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) stdGlm.Rd:93: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘INLA’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘corrviz.html’
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Initial TODO
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘myNewStrat.R’
Package suggested but not available for checking: ‘StrathE2E2examples’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Malformed Title field: should not end in a period.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘STRaitRazoR’
efpFunctional: multiple local function definitions for ‘plotProcess’
  with different formal arguments
mefp.efp: multiple local function definitions for ‘computeEmpProc’ with
  different formal arguments
checkRd: (-1) SP2001.Rd:3: Escaped LaTeX specials: \&
checkRd: (-1) SP2001.Rd:5: Escaped LaTeX specials: \&
checkRd: (-1) SP2001.Rd:12: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Found the following significant warnings:
  ../inst/include/sundials/sundials_nvector.h:163:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_nonlinearsolver.h:131:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_matrix.h:106:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  ../inst/include/sundials/sundials_linearsolver.h:137:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/sundials/sundials_linearsolver.c:28:17: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/sundials/sundials_matrix.c:29:11: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/sundials/sundials_nonlinearsolver.c:26:20: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  sundials/sundials/sundials_nvector.c:28:10: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/sundialr.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘extraTrees’
Unknown package ‘extraTrees’ in Rd xrefs
Package suggested but not available for checking: ‘extraTrees’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
checkRd: (-1) estweights.Rd:42: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘gurobi’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘INLA’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Package suggested but not available for checking: ‘distr6’
Unknown package ‘distr6’ in Rd xrefs
Specified C++11: please update to current default of C++17
Unknown package ‘survJamda’ in Rd xrefs
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Running examples in ‘survtmle-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: mean_tmle
> ### Title: TMLE for G-Computation of Cumulative Incidence
> ### Aliases: mean_tmle
> 
> ### ** Examples
> 
> 
> ## Single failure type examples
> # simulate data
> set.seed(1234)
> n <- 100
> trt <- rbinom(n,1,0.5)
> adjustVars <- data.frame(W1 = round(runif(n)), W2 = round(runif(n, 0, 2)))
> 
> ftime <- round(1 + runif(n, 1, 4) - trt + adjustVars$W1 + adjustVars$W2)
> ftype <- round(runif(n, 0, 1))
> 
> # Fit 1 - fit mean_tmle object with GLMs for treatment, censoring, failure
> fit1 <- mean_tmle(ftime = ftime, ftype = ftype,
+                   trt = trt, adjustVars = adjustVars,
+                   glm.trt = "W1 + W2",
+                   glm.ftime = "trt + W1 + W2",
+                   glm.ctime = "trt + W1 + W2")
'speedglm' ran into an error in withCallingHandlers.'glm' will be used instead.
Error in seq.int(min(dim(R))) : 'from' must be a finite number
Calls: mean_tmle -> estimateIteratedMean
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
checkRd: (-1) diabetes.Rd:18: Escaped LaTeX specials: \^
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘swephRdata’
Found the following significant warnings:
  libswe/swephlib.h:120:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  libswe/swephlib.h:130:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  libswe/swepcalc.h:120:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  libswe/swepcalc.c:373:7: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  libswe/sweph.c:7099:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  libswe/swephlib.c:3033:7: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/swephR.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    CRAN release
Running examples in ‘SwimmeR-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: name_reorder
> ### Title: Orders all names as "Firstname Lastname"
> ### Aliases: name_reorder
> 
> ### ** Examples
> 
> name_reorder(
+ data.frame(
+ Name = c("King, Lilly",
+  "Lilly King",
+  NA,
+  "Richards Ross, Sanya",
+  "Phelps, Michael F")),
+ verbose = TRUE
+ )
Error in `dplyr::na_if()`:
! Can't convert `y` <character> to match type of `x` <data.frame>.
Backtrace:
     ▆
  1. ├─SwimmeR::name_reorder(...)
  2. │ └─... %>% ...
  3. ├─dplyr::mutate(...)
  4. ├─dplyr::na_if(., "")
  5. │ └─vctrs::vec_cast(x = y, to = x, x_arg = "y", to_arg = "x")
  6. ├─dplyr::mutate(...)
  7. ├─dplyr::na_if(., "")
  8. │ └─vctrs::vec_cast(x = y, to = x, x_arg = "y", to_arg = "x")
  9. └─vctrs (local) `<fn>`()
 10.   └─vctrs::vec_default_cast(...)
 11.     ├─base::withRestarts(...)
 12.     │ └─base (local) withOneRestart(expr, restarts[[1L]])
 13.     │   └─base (local) doWithOneRestart(return(expr), restart)
 14.     └─vctrs::stop_incompatible_cast(...)
 15.       └─vctrs::stop_incompatible_type(...)
 16.         └─vctrs:::stop_incompatible(...)
 17.           └─vctrs:::stop_vctrs(...)
 18.             └─rlang::abort(message, class = c(class, "vctrs_error"), ..., call = vctrs_error_call(call))
Execution halted
Error(s) in re-building vignettes:
  ...
--- re-building ‘SwimmeR.Rmd’ using rmarkdown
Quitting from lines 60-66 (SwimmeR.Rmd) 
Error: processing vignette ‘SwimmeR.Rmd’ failed with diagnostics:
Can't convert `y` <character> to match type of `x` <data.frame>.
--- failed re-building ‘SwimmeR.Rmd’

SUMMARY: processing the following file failed:
  ‘SwimmeR.Rmd’

Error: Vignette re-building failed.
Execution halted
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Additional functions and data sets
    Amendments to functions
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    pre-release switchboard (2020 - 2021)
'LazyData' is specified without a 'data' directory
'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN
'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

See section ‘Generic functions and methods’ in the ‘Writing R
Extensions’ manual.
'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

See chapter ‘System and foreign language interfaces’ in the ‘Writing R
Extensions’ manual.
'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN
'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN
'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

'getOption("repos")' replaces Bioconductor standard repositories, see
'?repositories' for details

replacement repositories:
    CRAN: file:///srv/R/Repositories/CRAN

The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Running ‘winpath.R’ [1s/3s]
Running the tests in ‘tests/winpath.R’ failed.
Complete output:
  > library(switchr)
  > ## if(getOption("repos")["CRAN"] == "@CRAN@")
  > ##     chooseCRANmirror(ind=1L)
  > graceful_inet(TRUE)
  [1] TRUE
  > checkUrlRoundtrip = function(pth) {
  +     pth = switchr:::normalizePath2(pth)
  +     furl = switchr:::makeFileURL(pth)
  +     pth2 = switchr:::fileFromFileURL(furl)
  +     if(pth != pth2)
  +         stop("Round trip result (", pth2, ") does not match original (", pth, ") when creating file URLs")
  + }
  > 
  > ## regression test to ensure that the roundtrip
  > ## between path and file url is working properly
  > checkUrlRoundtrip(getwd())
  > checkUrlRoundtrip(tempdir())
  > if(switchr:::isWindows())
  +     checkUrlRoundtrip("\\\\localhost\\c$")
  > 
  > ## regreossion test to ensure that package dependencies
  > ## are added to the dontunload list when a package
  > ## is specified
  > bef = switchrDontUnload()
  > af = switchrDontUnload("knitr")
  > stopifnot(all(c("stringr", "stringi", "magrittr") %in% af))
  Error: all(c("stringr", "stringi", "magrittr") %in% af) is not TRUE
  Execution halted
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'sylly.de', 'sylly.es'
checkRd: (-1) HINoV.SDA.rd:5: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘test.csv’
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘.xls’ ‘attenu.xls’ ‘chick1.xls’ ‘chick2.xls’ ‘generic1.xls’
  ‘hands.xls’ ‘table1.xls’
checkRd: (-1) tmCtypes.Rd:22: Escaped LaTeX specials: \#
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) tapnet-package.Rd:40: Escaped LaTeX specials: \&
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘tashudata’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘TDA’
Installation failed.
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/TDA.Rcheck/00install.out’ for details.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package required but not available: ‘TDA’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘R2wd’
checkRd: (-1) R2txt.Rd:164: Escaped LaTeX specials: \#
checkRd: (-1) bct.Rd:18: Escaped LaTeX specials: \^
checkRd: (-1) bct.Rd:19: Escaped LaTeX specials: \^
checkRd: (-1) ineq.Rd:10: Escaped LaTeX specials: \&
checkRd: (-1) put.points.demo.Rd:39: Escaped LaTeX specials: \^
checkRd: (-1) run.cor.examp.Rd:10: Escaped LaTeX specials: \^
checkRd: (-1) run.cor.examp.Rd:31: Escaped LaTeX specials: \^
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘INLA’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘gurobi’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Packages which this enhances but not available for checking:
  'mnlogit', 'Zelig'
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Unknown package ‘textreadr’ in Rd xrefs
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  thor.h:18:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  thor.h:21:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  thor.h:23:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  thor.h:106:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  thor.c:9:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  thor.c:23:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  thor.c:35:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  thor.c:748:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/thor.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
File ‘thor/libs/thor.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘lmdb/mdb.o’, ‘util.o’

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.
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Initial Release (v0.1.0)
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Minor changes:
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  common.c:36:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/tiff.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
File ‘tikzDevice/libs/tikzDevice.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘tikzDevice.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) compare.Rd:46: Escaped LaTeX specials: \&
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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.
Specified C++11: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘pca3d’
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking:
  'Rcampdf', 'tm.lexicon.GeneralInquirer'
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘corpus.JSS.papers’
Specified C++11: please update to current default of C++17
Packages suggested but not available for checking:
  'RGtk2', 'gWidgets2RGtk2'
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘toscaData’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Enhancements
    Other changes
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘taxidata’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) dcc.Rd:227: Escaped LaTeX specials: \&
checkRd: (-1) seascorr.Rd:128: Escaped LaTeX specials: \&
Package suggested but not available for checking: ‘TreeDistData’
Specified C++14: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Bug fixes
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  Warning: replacing previous import ‘ape::where’ by ‘dplyr::where’ when loading ‘treeplyr’
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/treeplyr.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++14: please update to current default of C++17
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  ../inst/include/radix/radix_tree_it.hpp:11:35: warning: ‘template<class _Category, class _Tp, class _Distance, class _Pointer, class _Reference> struct std::iterator’ is deprecated [-Wdeprecated-declarations]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/triebeard.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Changes
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) TempDisaggDGP.Rd:79: Escaped LaTeX specials: \&
checkRd: (-1) disaggregate.Rd:56: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Updates for the development version (0.1.0.9000) on Github
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Specified C++11: please update to current default of C++17
File ‘TukeyRegion/libs/TukeyRegion.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘libqhull/global.o’, ‘libqhull/rboxlib.o’

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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
checkRd: (-1) lindner.Rd:44: Escaped LaTeX specials: \_
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Package which this enhances but not available for checking: ‘sl3’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
Found the following significant warnings:
  interface.c:114:14: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/ucminf.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘USAboundariesData’
Package suggested but not available for checking: ‘USA.state.boundaries.data’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \&
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  rand.c:90:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  rand.c:92:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  rand.c:103:13: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  rand.c:138:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/uuid.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'vaers', 'vaersND'
Packages suggested but not available for checking: 'vaers', 'vaersND'
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘PredValidationPlots.pdf’ ‘RepStructValidationPlots.pdf’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
checkRd: (-1) randomVarImpsRFplot.Rd:97: Escaped LaTeX specials: \&
checkRd: (-1) varSelImpSpecRF.Rd:83: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) irf.Rd:111: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  ad_frequency.cpp:122:55: warning: ignoring return value of ‘std::vector<_Tp, _Alloc>::size_type std::vector<_Tp, _Alloc>::size() const [with _Tp = std::__cxx11::basic_string<char>; _Alloc = std::allocator<std::__cxx11::basic_string<char> >; size_type = long unsigned int]’, declared with attribute ‘nodiscard’ [-Wunused-result]
  masplit.cpp:152:55: warning: ignoring return value of ‘std::vector<_Tp, _Alloc>::size_type std::vector<_Tp, _Alloc>::size() const [with _Tp = std::__cxx11::basic_string<char>; _Alloc = std::allocator<std::__cxx11::basic_string<char> >; size_type = long unsigned int]’, declared with attribute ‘nodiscard’ [-Wunused-result]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/vcfR.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  computeCox.c:15:6: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/vdra.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) value.Rd:32: Escaped LaTeX specials: \$ \$
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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: \&
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) checkTS.VGAMextra.Rd:176: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
Malformed Title field: should not end in a period.
File ‘VIC5/libs/VIC5.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘vic/drivers/shared_all/src/compress_files.o’,
      ‘vic/drivers/shared_all/src/print_library_shared.o’,
      ‘vic/drivers/shared_all/src/vic_log.o’

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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    NEW FEATURES
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    NEWS UPDATES:
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    vortexRdata pre-1.0.3
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
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.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘ReconstructedData.txt’ ‘ReconstructedDataStDev.txt’
  ‘ResampledReconstructions.txt’
  ‘ResampledReconstructionsStandardVariation.txt’
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Running examples in ‘wcep-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: wcep
> ### Title: Analysis of weighted composite endpoints
> ### Aliases: wcep
> 
> ### ** Examples
> 
> data(toyexample)
> #event weights
> EW <- data.frame(event = c('CHF','DTH','SHK','REMI'), weight = c(0.3,1,0.5,0.2))
> res1 <- wcep(toyexample, EW)
Error in `left_join()`:
! `...` must be empty.
✖ Problematic argument:
• stringsAsFactors = FALSE
Backtrace:
    ▆
 1. └─wcep::wcep(toyexample, EW)
 2.   └─wcep:::wcep_core(x[, 1:3], EW, alpha)
 3.     ├─dplyr::left_join(ew_h0, ew1, by = "event", stringsAsFactors = FALSE)
 4.     └─dplyr:::left_join.data.frame(ew_h0, ew1, by = "event", stringsAsFactors = FALSE)
 5.       └─rlang::check_dots_empty0(...)
 6.         └─rlang::check_dots_empty(call = call)
 7.           └─rlang:::action_dots(...)
 8.             ├─base (local) try_dots(...)
 9.             └─rlang (local) action(...)
Execution halted
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘prepr’
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
File ‘webfakes/libs/webfakes.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘civetweb.o’

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.
Specified C++11: please update to current default of C++17
Problems with news in ‘NEWS.md’:
No news entries found.
Package suggested but not available for checking: ‘rgeolocate’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
Found the following significant warnings:
  init.c:11:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/WeightedCluster.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
Specified C++11: please update to current default of C++17
Package suggested but not available for checking: ‘ATE’
Unknown package ‘ATE’ in Rd xrefs
Specified C++14: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    Major changes
    Minor changes
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  random_wrap.c:9:15: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/wnominate.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used Fortran compiler: ‘GNU Fortran (Debian 12.2.0-14) 12.2.0’
Problems with news in ‘NEWS.md’:
No news entries found.
Specified C++11: please update to current default of C++17
Found the following files/directories:
  ‘aphiainfo.csv’ ‘tax.csv’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
Malformed Description field: should contain one or more complete sentences.
Malformed Description field: should contain one or more complete sentences.
File ‘wrassp/libs/wrassp.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Objects: ‘assp/acf.o’, ‘assp/mhs.o’, ‘assp/smp2dur.o’,
      ‘assp/headers.o’, ‘assp/spectra.o’, ‘assp/asspfio.o’,
      ‘assp/asspmess.o’, ‘assp/ksv.o’, ‘assp/aucheck.o’,
      ‘assp/labelobj.o’, ‘assp/numdecim.o’, ‘assp/filter.o’,
      ‘assp/zcr.o’, ‘assp/rfc.o’, ‘assp/fmt.o’, ‘assp/rms.o’,
      ‘dataobj.o’

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.
Malformed Title field: should not end in a period.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘RP2_data_1.txt’ ‘RP2_data_4.txt’ ‘RP2_qtl_1.txt’ ‘RP2_qtl_4.txt’
  ‘hp1_effect_qtl.txt’ ‘hp1_freq_mrk.txt’ ‘hp1_freq_qtl.txt’
  ‘hp1_genome.txt’ ‘hp1_last_hp_data.txt’ ‘hp1_lm_mrk.txt’
  ‘hp1_lm_qtl.txt’ ‘hp1_lm_qtl_mrk.txt’ ‘hp1_mrk.txt’ ‘hp1_qtl.txt’
  ‘hp2_effect_qtl.txt’ ‘hp2_freq_mrk.txt’ ‘hp2_freq_qtl.txt’
  ‘hp2_genome.txt’ ‘hp2_last_hp_data.txt’ ‘hp2_lm_mrk.txt’
  ‘hp2_lm_qtl.txt’ ‘hp2_lm_qtl_mrk.txt’ ‘hp2_mrk.txt’ ‘hp2_qtl.txt’
  ‘my_RP_data_1.txt’ ‘my_RP_data_4.txt’ ‘my_RP_mrk_1.txt’
  ‘my_RP_mrk_4.txt’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘xgb.txt’
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Found the following significant warnings:
  init.c:24:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:25:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:71:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
  init.c:72:1: warning: function declaration isn’t a prototype [-Wstrict-prototypes]
See ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/xml2.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc-12 (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++-12 (Debian 12.2.0-14) 12.2.0’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
checkRd: (-1) read.npc.vpc.results.Rd:16: Escaped LaTeX specials: \_
checkRd: (-1) read.npc.vpc.results.Rd:19: Escaped LaTeX specials: \_ \_ \_ \_ \_ \_
checkRd: (-1) read.npc.vpc.results.Rd:22: Escaped LaTeX specials: \_
File ‘xptr/libs/xptr.so’:
  Found ‘__sprintf_chk’, possibly from ‘sprintf’ (C)
    Object: ‘xptr.o’

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.
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘xtable.html’ ‘xtable.tex’
Found the following files/directories:
  ‘OPT.csv’ ‘testTecan_defaultLiquid.csv’ ‘testTecan_setLiquid.csv’
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Packages suggested but not available for checking: 'RNRCS', 'metScanR'
'LazyData' is specified without a 'data' directory
Malformed Description field: should contain one or more complete sentences.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++14: please update to current default of C++17
GNU make is a SystemRequirements.
'LazyData' is specified without a 'data' directory
Package suggested but not available for checking: ‘zdat’
Problems with news in ‘NEWS.md’:
  Cannot extract version info from the following section titles:
    NEW DEPENDENCIES
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: \_
Package suggested but not available for checking: ‘SDMTools’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Namespace in Imports field not imported from: ‘MASS’
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
Note: found 134469 marked UTF-8 strings
Problems with news in ‘NEWS.md’:
No news entries found.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Namespace in Imports field not imported from: ‘tibble’
  All declared Imports should be used.
Undeclared package ‘CCA’ in Rd xrefs
Found the following files/directories:
  ‘acceldata2.RData’
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.
Problems with news in ‘NEWS.md’:
No news entries found.
File ‘ACDm/libs/ACDm.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.
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
installed size is 11.8Mb
  sub-directories of 1Mb or more:
    htmlwidgets  11.6Mb
'LazyData' is specified without a 'data' directory
File ‘acepack/libs/acepack.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: ‘testthat’
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Namespace in Imports field not imported from: ‘hunspell’
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
File ‘acrt/libs/acrt.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.
‘configure’: /bin/bash is not portable
installed size is 14.0Mb
  sub-directories of 1Mb or more:
    R  13.9Mb
Problems with news in ‘NEWS.md’:
No news entries found.
Packages suggested but not available for checking:
  'RGtk2', 'gWidgets2RGtk2'
installed size is  5.0Mb
  sub-directories of 1Mb or more:
    doc   3.7Mb
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.
Imports includes 25 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.
Namespaces in Imports field not imported from:
  ‘MASS’ ‘RcppProgress’
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Note: found 305 marked UTF-8 strings
Undeclared package ‘minqa’ in Rd xrefs
'LazyData' is specified without a 'data' directory
Namespace in Imports field not imported from: ‘RColorBrewer’
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
Found the following files/directories:
  ‘Example.jpeg’
Specified C++11: please update to current default of C++17
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Specified C++11: please update to current default of C++17
Undeclared packages ‘HI’, ‘MHadaptive’ in Rd xrefs
Unknown packages ‘HI’, ‘MHadaptive’ in Rd xrefs
installed size is  7.6Mb
  sub-directories of 1Mb or more:
    doc   7.1Mb
checkRd: (-1) ada.Rd:171: Escaped LaTeX specials: \&
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
'LazyData' is specified without a 'data' directory
Namespace in Imports field not imported from: ‘Benchmarking’
  All declared Imports should be used.
'LazyData' is specified without a 'data' directory
installed size is  7.8Mb
  sub-directories of 1Mb or more:
    R          1.4Mb
    data       3.0Mb
    pictures   2.1Mb