Multiple platform build/check report for BioC 3.19 - BUILD BIN results for GOSim on palomino7

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4763
palomino7	Windows Server 2022 Datacenter	x64	4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"	4500
merida1	macOS 12.7.5 Monterey	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4530
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.1 (2024-06-14) -- "Race for Your Life"	4480
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 GOSim on palomino7

To the developers/maintainers of the GOSim package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GOSim.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: GOSim

Version: 1.42.0

Command: rm -rf GOSim.buildbin-libdir && mkdir GOSim.buildbin-libdir && E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL --build --library=GOSim.buildbin-libdir GOSim_1.42.0.tar.gz

StartedAt: 2024-10-17 07:54:37 -0400 (Thu, 17 Oct 2024)

EndedAt: 2024-10-17 07:55:21 -0400 (Thu, 17 Oct 2024)

EllapsedTime: 43.9 seconds

RetCode: 0

Status: OK

PackageFile: GOSim_1.42.0.zip

PackageFileSize: 834.7 KiB

Command output

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### Running command:
###
###   rm -rf GOSim.buildbin-libdir && mkdir GOSim.buildbin-libdir && E:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL --build --library=GOSim.buildbin-libdir GOSim_1.42.0.tar.gz
###
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* installing *source* package 'GOSim' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 13.2.0'
using C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.19-bioc/R/library/Rcpp/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"  `E:/biocbuild/bbs-3.19-bioc/R/bin/Rscript -e "require(Rcpp); Rcpp:::CxxFlags()"`   -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c OAWrapper.cpp -o OAWrapper.o
Loading required package: Rcpp
In file included from E:/biocbuild/bbs-3.19-bioc/R/include/R.h:73,
                 from hungarian2.h:28,
                 from OAWrapper.cpp:1:
E:/biocbuild/bbs-3.19-bioc/R/library/Rcpp/include/Rcpp/exceptions/cpp11/exceptions.h: In function 'void Rcpp::Rf_warning(const char*, Args&& ...) [with Args = {const char*}]':
E:/biocbuild/bbs-3.19-bioc/R/include/R_ext/Error.h:69:17: warning: infinite recursion detected [-Winfinite-recursion]
   69 | #define warning Rf_warning
      |                 ^~~~~~~~~~
E:/biocbuild/bbs-3.19-bioc/R/library/Rcpp/include/Rcpp/exceptions/cpp11/exceptions.h:46:13: note: in expansion of macro 'warning'
   46 | inline void warning(const char* fmt, Args&&... args ) {
      |             ^~~~~~~
In file included from E:/biocbuild/bbs-3.19-bioc/R/library/Rcpp/include/Rcpp/exceptions.h:180,
                 from E:/biocbuild/bbs-3.19-bioc/R/library/Rcpp/include/RcppCommon.h:130,
                 from E:/biocbuild/bbs-3.19-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from OAWrapper.cpp:10:
E:/biocbuild/bbs-3.19-bioc/R/library/Rcpp/include/Rcpp/exceptions/cpp11/exceptions.h:47:15: note: recursive call
   47 |     Rf_warning("%s", tfm::format(fmt, std::forward<Args>(args)... ).c_str());
      |     ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc  -I"E:/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.19-bioc/R/library/Rcpp/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c hungarian2.c -o hungarian2.o
Loading required package: Rcpp
g++ -std=gnu++17 -shared -s -static-libgcc -o GOSim.dll tmp.def OAWrapper.o hungarian2.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.19-bioc/R/bin/x64 -lR
Loading required package: Rcpp
installing to E:/biocbuild/bbs-3.19-bioc/meat/GOSim.buildbin-libdir/00LOCK-GOSim/00new/GOSim/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
Warning in fun(libname, pkgname) :
  Package 'GOSim' is deprecated and will be removed from Bioconductor
  version 3.20
** testing if installed package can be loaded from final location
Warning in fun(libname, pkgname) :
  Package 'GOSim' is deprecated and will be removed from Bioconductor
  version 3.20
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'GOSim' as GOSim_1.42.0.zip
* DONE (GOSim)