Check results for 'mboost'

using R version 4.3.0 beta (2023-04-08 r84203)
using platform: x86_64-apple-darwin20 (64-bit)
R was compiled by
Apple clang version 14.0.3 (clang-1403.0.22.14.1)
GNU Fortran (GCC) 12.2.0
running under: macOS Ventura 13.3
using session charset: UTF-8
checking for file ‘mboost/DESCRIPTION’ ... OK
this is package ‘mboost’ version ‘2.9-7’
checking package namespace information ... OK
checking package dependencies ... NOTE
Package suggested but not available for checking: ‘kangar00’
checking if this is a source package ... OK
checking if there is a namespace ... OK
checking for executable files ... OK
checking for hidden files and directories ... OK
checking for portable file names ... OK
checking for sufficient/correct file permissions ... OK
checking whether package ‘mboost’ can be installed ... [11s/14s] OK
used C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
used SDK: ‘MacOSX11.3.sdk’
checking installed package size ... OK
checking package directory ... OK
checking ‘build’ directory ... OK
checking DESCRIPTION meta-information ... OK
checking top-level files ... OK
checking for left-over files ... OK
checking index information ... OK
checking package subdirectories ... OK
checking R files for non-ASCII characters ... OK
checking R files for syntax errors ... OK
checking whether the package can be loaded ... [1s/2s] OK
checking whether the package can be loaded with stated dependencies ... [1s/2s] OK
checking whether the package can be unloaded cleanly ... [1s/2s] OK
checking whether the namespace can be loaded with stated dependencies ... [1s/2s] OK
checking whether the namespace can be unloaded cleanly ... [1s/2s] OK
checking loading without being on the library search path ... [1s/2s] OK
checking startup messages can be suppressed ... [1s/2s] OK
checking dependencies in R code ... OK
checking S3 generic/method consistency ... OK
checking replacement functions ... OK
checking foreign function calls ... OK
checking R code for possible problems ... [11s/15s] OK
checking Rd files ... [1s/1s] OK
checking Rd metadata ... OK
checking Rd cross-references ... NOTE
Package unavailable to check Rd xrefs: ‘kangar00’
checking for missing documentation entries ... OK
checking for code/documentation mismatches ... OK
checking Rd \usage sections ... OK
checking Rd contents ... OK
checking for unstated dependencies in examples ... OK
checking line endings in shell scripts ... OK
checking line endings in C/C++/Fortran sources/headers ... OK
checking line endings in Makefiles ... OK
checking compilation flags in Makevars ... OK
checking for GNU extensions in Makefiles ... OK
checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
checking use of PKG_*FLAGS in Makefiles ... OK
checking compiled code ... OK
checking sizes of PDF files under ‘inst/doc’ ... OK
checking installed files from ‘inst/doc’ ... OK
checking files in ‘vignettes’ ... OK
checking examples ... [21s/29s] OK
checking for unstated dependencies in vignettes ... OK
checking package vignettes in ‘inst/doc’ ... OK
checking running R code from vignettes ... [39s/53s] OK
  ‘SurvivalEnsembles.Rnw’... [13s/17s] OK
  ‘mboost.Rnw’... [8s/11s] OK
  ‘mboost_illustrations.Rnw’... [9s/14s] OK
  ‘mboost_tutorial.Rnw’ using ‘UTF-8’... [8s/9s] OK
checking re-building of vignette outputs ... [52s/67s] NOTE
Error(s) in re-building vignettes:
--- re-building ‘SurvivalEnsembles.Rnw’ using Sweave
Loading required package: parallel
Loading required package: stabs
Loading required package: TH.data
Loading required package: survival
Loading required package: MASS

Attaching package: ‘TH.data’

The following object is masked from ‘package:MASS’:

    geyser

Loading required package: rpart
Loading required package: partykit
Loading required package: grid
Loading required package: libcoin
Loading required package: mvtnorm

Attaching package: ‘partykit’

The following object is masked from ‘package:mboost’:

    varimp

Error: processing vignette 'SurvivalEnsembles.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'SurvivalEnsembles.tex' failed.
LaTeX errors:
! LaTeX Error: File `relsize.sty' not found.

Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)

! Emergency stop.
<read *>

l.31 ^^M

! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘SurvivalEnsembles.Rnw’

--- re-building ‘mboost.Rnw’ using Sweave
Loading required package: mboost
Loading required package: parallel
Loading required package: stabs
Loading required package: partykit
Loading required package: grid
Loading required package: libcoin
Loading required package: mvtnorm

Attaching package: ‘partykit’

The following object is masked from ‘package:mboost’:

    varimp

--- finished re-building ‘mboost.Rnw’

--- re-building ‘mboost_illustrations.Rnw’ using Sweave
Loading required package: parallel
Loading required package: stabs
Warning in gamboost(DEXfat ~ ., data = bodyfat, baselearner = "bss") :
  bss and bns are deprecated, bbs is used instead
Warning in glmboost.matrix(x, yfit, family = L2fm, center = TRUE, control = boost_control(mstop = 200)) :
  model with centered covariates does not contain intercept
Warning in hatvalues.gamboost(model) :
  AIC might not be reasonable for family user-specified

NOTE: Coefficients from a Binomial model are half the size of coefficients
from a model fitted via glm(... , family = 'binomial').
See Warning section in ?coef.mboost

NOTE: Coefficients from a Binomial model are half the size of coefficients
from a model fitted via glm(... , family = 'binomial').
See Warning section in ?coef.mboost

Warning in gamboost(status ~ ., data = wpbc2, family = Binomial(), baselearner = "bss") :
  bss and bns are deprecated, bbs is used instead
Error: processing vignette 'mboost_illustrations.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'mboost_illustrations.tex' failed.
LaTeX errors:
! LaTeX Error: File `relsize.sty' not found.

Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)

! Emergency stop.
<read *>

l.32 ^^M

! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘mboost_illustrations.Rnw’

--- re-building ‘mboost_tutorial.Rnw’ using Sweave
Loading required package: mboost
Loading required package: parallel
Loading required package: stabs
Warning in bsplines(mf[[i]], knots = args$knots[[i]]$knots, boundary.knots = args$knots[[i]]$boundary.knots, :
  Some ‘x’ values are beyond ‘boundary.knots’; Linear extrapolation used.
Warning in bsplines(mf[[i]], knots = args$knots[[i]]$knots, boundary.knots = args$knots[[i]]$boundary.knots, :
  Some ‘x’ values are beyond ‘boundary.knots’; Linear extrapolation used.
Warning in bsplines(mf[[i]], knots = args$knots[[i]]$knots, boundary.knots = args$knots[[i]]$boundary.knots, :
  Some ‘x’ values are beyond ‘boundary.knots’; Linear extrapolation used.
Warning in bsplines(mf[[i]], knots = args$knots[[i]]$knots, boundary.knots = args$knots[[i]]$boundary.knots, :
  Some ‘x’ values are beyond ‘boundary.knots’; Linear extrapolation used.
Warning in bsplines(mf[[i]], knots = args$knots[[i]]$knots, boundary.knots = args$knots[[i]]$boundary.knots, :
  Some ‘x’ values are beyond ‘boundary.knots’; Linear extrapolation used.
Warning in bsplines(mf[[i]], knots = args$knots[[i]]$knots, boundary.knots = args$knots[[i]]$boundary.knots, :
  Some ‘x’ values are beyond ‘boundary.knots’; Linear extrapolation used.
Error: processing vignette 'mboost_tutorial.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'mboost_tutorial.tex' failed.
LaTeX errors:
! LaTeX Error: File `dsfont.sty' not found.

Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)

! Emergency stop.
<read *>

l.16 \usepackage
                {subfigure}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘mboost_tutorial.Rnw’

SUMMARY: processing the following files failed:
  ‘SurvivalEnsembles.Rnw’ ‘mboost_illustrations.Rnw’
  ‘mboost_tutorial.Rnw’

Error: Vignette re-building failed.
Execution halted
checking PDF version of manual ... [5s/7s] OK
DONE
Status: 3 NOTEs
using check arguments '--no-clean-on-error '