Multiple platform build/check report for BioC 3.21 - BUILD BIN results for GGPA on palomino7

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4824
palomino7	Windows Server 2022 Datacenter	x64	4.5.1 (2025-06-13 ucrt) -- "Great Square Root"	4566
merida1	macOS 12.7.5 Monterey	x86_64	4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"	4604
kjohnson1	macOS 13.6.6 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4545
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4579
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

BUILD BIN results for GGPA on palomino7

To the developers/maintainers of the GGPA package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GGPA.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: GGPA

Version: 1.20.0

Command: rm -rf GGPA.buildbin-libdir && mkdir GGPA.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=GGPA.buildbin-libdir GGPA_1.20.0.tar.gz

StartedAt: 2025-08-15 09:23:58 -0400 (Fri, 15 Aug 2025)

EndedAt: 2025-08-15 09:24:54 -0400 (Fri, 15 Aug 2025)

EllapsedTime: 56.1 seconds

RetCode: 0

Status: OK

PackageFile: GGPA_1.20.0.zip

PackageFileSize: 3.077 MiB

Command output

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### Running command:
###
###   rm -rf GGPA.buildbin-libdir && mkdir GGPA.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=GGPA.buildbin-libdir GGPA_1.20.0.tar.gz
###
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* installing *source* package 'GGPA' ...
** this is package 'GGPA' version '1.20.0'
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 14.2.0'
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppArmadillo/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c 1_Main.cpp -o 1_Main.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppArmadillo/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c 3_Param.cpp -o 3_Param.o
3_Param.cpp: In member function 'void CParam::S6_G_beta_ij(CData&)':
3_Param.cpp:334:40: warning: 'logP_numer' may be used uninitialized [-Wmaybe-uninitialized]
  334 |           if ( w_prop > 0 ) logP_numer = logP_numer - log(w_prop) ; // f(G^q) // if w_prop=0, let 1/w_prop = 1, so that log(w_prop) = 0
      |                             ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~
3_Param.cpp:226:10: note: 'logP_numer' was declared here
  226 |   double logP_numer, logP_denom ;
      |          ^~~~~~~~~~
3_Param.cpp:335:39: warning: 'logP_denom' may be used uninitialized [-Wmaybe-uninitialized]
  335 |           if ( w_cur > 0 ) logP_denom = logP_denom - log(w_cur) ; // f(G) // if w_cur=0, let 1/w_cur = 1, so that log(w_cur) = 0
      |                            ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
3_Param.cpp:226:22: note: 'logP_denom' was declared here
  226 |   double logP_numer, logP_denom ;
      |                      ^~~~~~~~~~
3_Param.cpp:350:47: warning: 'normC_prop' may be used uninitialized [-Wmaybe-uninitialized]
  350 |     Beta = Beta_prop ; G_mat = G_prop ; normC = normC_prop ;
      |                                         ~~~~~~^~~~~~~~~~~~
3_Param.cpp:227:10: note: 'normC_prop' was declared here
  227 |   double normC_prop ;
      |          ^~~~~~~~~~
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppArmadillo/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c Gibbs_e_it_no_ann.cpp -o Gibbs_e_it_no_ann.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppArmadillo/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -shared -s -static-libgcc -o GGPA.dll tmp.def 1_Main.o 3_Param.o Gibbs_e_it_no_ann.o RcppExports.o -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lRlapack -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lRblas -lgfortran -lquadmath -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/meat/GGPA.buildbin-libdir/00LOCK-GGPA/00new/GGPA/libs/x64
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'GGPA' as GGPA_1.20.0.zip
* DONE (GGPA)