- using R Under development (unstable) (2025-12-27 r89247)
- using platform: x86_64-pc-linux-gnu
- R was compiled by
gcc-15 (Debian 15.2.0-12) 15.2.0
GNU Fortran (Debian 15.2.0-12) 15.2.0
- running under: Debian GNU/Linux forky/sid
- using session charset: UTF-8
- checking for file ‘gamboostLSS/DESCRIPTION’ ... OK
- checking extension type ... Package
- this is package ‘gamboostLSS’ version ‘2.1-0’
- checking CRAN incoming feasibility ... [1s/2s] OK
- checking package namespace information ... OK
- checking package dependencies ... INFO
Package suggested but not available for checking: ‘R2BayesX’
- 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 serialization versions ... OK
- checking whether package ‘gamboostLSS’ can be installed ... OK
See the install log for details.
- checking package directory ... OK
- checking for future file timestamps ... 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 code files for non-ASCII characters ... OK
- checking R files for syntax errors ... OK
- checking whether the package can be loaded ... [2s/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 whether startup messages can be suppressed ... [1s/2s] OK
- checking use of S3 registration ... 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 ... [14s/18s] OK
- checking Rd files ... [0s/1s] OK
- checking Rd metadata ... OK
- checking Rd line widths ... OK
- checking Rd cross-references ... OK
- 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 contents of ‘data’ directory ... OK
- checking data for non-ASCII characters ... [0s/0s] OK
- checking LazyData ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking sizes of PDF files under ‘inst/doc’ ... OK
- checking installed files from ‘inst/doc’ ... OK
- checking files in ‘vignettes’ ... OK
- checking examples ... [6s/7s] OK
- checking for unstated dependencies in ‘tests’ ... OK
- checking tests ... [133s/129s] OK
Running ‘bugfixes.R’ [4s/5s]
Running ‘regtest-families.R’ [85s/74s]
Running ‘regtest-gamboostLSS.R’ [4s/5s]
Running ‘regtest-glmboostLSS.R’ [4s/5s]
Running ‘regtest-mstop.R’ [2s/3s]
Running ‘regtest-noncyclic_fitting.R’ [6s/8s]
Running ‘regtest-stabilization.R’ [18s/21s]
Running ‘regtest-stabsel.R’ [10s/7s]
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes ... OK
- checking re-building of vignette outputs ... [3s/4s] ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘gamboostLSS_Tutorial.Rnw’ using Sweave
Loading required package: R2BayesX
Installing package into '/tmp/RtmpRbYiKA/RLIBS_1ec8d57cc22eb4'
(as 'lib' is unspecified)
also installing the dependency 'BayesXsrc'
trying URL 'http://cran.at.r-project.org/src/contrib/BayesXsrc_3.0-6.tar.gz'
trying URL 'http://cran.at.r-project.org/src/contrib/R2BayesX_1.1-6.tar.gz'
Warning: SystemRequirements specified C++14: support has been removed
* installing *source* package ‘BayesXsrc’ ...
** this is package ‘BayesXsrc’ version ‘3.0-6’
** package ‘BayesXsrc’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
make[1]: Entering directory '/tmp/RtmpRfthwt/R.INSTALL253ead5be34402/BayesXsrc/src'
`"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/bin/R" CMD config CXX14` `"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/bin/R" CMD config CXX14STD` -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -Ibayesxsrc/. -I"bayesxsrc/bib" -I"bayesxsrc/alex" -I"bayesxsrc/adaptiv" -I"bayesxsrc/andrea" -I"bayesxsrc/dag" -I"bayesxsrc/graph" -I"bayesxsrc/mcmc" -I"bayesxsrc/psplines" -I"bayesxsrc/samson" -I"bayesxsrc/leyre" -I"bayesxsrc/structadd" `gsl-config --cflags` -D__BUILDING_GNU -D__BUILDING_LINUX -DTEMPL_INCL_DEF -D_MSC_VER2 -DNO_TEMPLATE_FRIENDS -DINCLUDE_REML -DINCLUDE_MCMC -DBUILD_FOR_BAYESXSRC -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c bayesxsrc/andrea/baseline.cpp -o bayesxsrc/andrea/baseline.o
'config' variable 'CXX14' is defunct
'config' variable 'CXX14STD' is defunct
/bin/bash: line 1: -I/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include: No such file or directory
make[1]: *** [/home/hornik/tmp/R.check/r-devel-gcc/Work/build/etc/Makeconf:201: bayesxsrc/andrea/baseline.o] Error 127
make[1]: Leaving directory '/tmp/RtmpRfthwt/R.INSTALL253ead5be34402/BayesXsrc/src'
ERROR: compilation failed for package ‘BayesXsrc’
* removing ‘/tmp/RtmpRbYiKA/RLIBS_1ec8d57cc22eb4/BayesXsrc’
ERROR: dependencies ‘BayesXsrc’, ‘mgcv’ are not available for package ‘R2BayesX’
Perhaps try a variation of:
install.packages(c('BayesXsrc', 'mgcv'))
* removing ‘/tmp/RtmpRbYiKA/RLIBS_1ec8d57cc22eb4/R2BayesX’
The downloaded source packages are in
'/tmp/Rtmpze3iUa/downloaded_packages'
Loading required package: gamboostLSS
Loading required package: mboost
Loading required package: parallel
Loading required package: stabs
Attaching package: 'gamboostLSS'
The following object is masked from 'package:stats':
model.weights
Error: processing vignette 'gamboostLSS_Tutorial.Rnw' failed with diagnostics:
chunk 11 (label = india_stunting1)
Error in library("R2BayesX") : there is no package called 'R2BayesX'
--- failed re-building 'gamboostLSS_Tutorial.Rnw'
SUMMARY: processing the following file failed:
'gamboostLSS_Tutorial.Rnw'
Error: Vignette re-building failed.
Execution halted
- checking PDF version of manual ... [4s/7s] OK
- checking HTML version of manual ... [2s/3s] OK
- checking for non-standard things in the check directory ... OK
- DONE
Status: 1 ERROR