Back to Multiple platform build/check report for BioC 3.22:   simplified   long
ABCDEF[G]HIJKLMNOPQRSTUVWXYZ

This page was generated on 2025-10-24 12:03 -0400 (Fri, 24 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4898
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4688
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4634
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4658
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

Package 917/2359HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
gpuMagic 1.25.1  (landing page)
Jiefei Wang
Snapshot Date: 2025-10-23 14:17 -0400 (Thu, 23 Oct 2025)
git_url: https://git.bioconductor.org/packages/gpuMagic
git_branch: devel
git_last_commit: 7dae404
git_last_commit_date: 2025-07-24 09:05:11 -0400 (Thu, 24 Jul 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR    ERROR  skipped
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    ERROR  skippedskipped
taishanLinux (openEuler 24.03 LTS) / aarch64  ERROR    ERROR  skipped

BUILD results for gpuMagic on nebbiolo2

To the developers/maintainers of the gpuMagic package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/gpuMagic.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: gpuMagic
Version: 1.25.1
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 gpuMagic
StartedAt: 2025-10-23 18:01:49 -0400 (Thu, 23 Oct 2025)
EndedAt: 2025-10-23 18:01:52 -0400 (Thu, 23 Oct 2025)
EllapsedTime: 3.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 gpuMagic
###
##############################################################################
##############################################################################


* checking for file ‘gpuMagic/DESCRIPTION’ ... OK
* preparing ‘gpuMagic’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘gpuMagic’ ...
** this is package ‘gpuMagic’ version ‘1.25.1’
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
using C++11
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -I/home/biocbuild/bbs-3.22-bioc/R/include -I../inst/include/OpenCL_header -DCL_TARGET_OPENCL_VERSION=220 -DCL_USE_DEPRECATED_OPENCL_1_2_APIS  -DCL_SILENCE_DEPRECATION -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c C_Interface.cpp -o C_Interface.o
C_Interface.cpp: In function ‘SEXPREC* download(SEXP)’:
C_Interface.cpp:142:19: warning: ‘res’ may be used uninitialized [-Wmaybe-uninitialized]
  142 |         return(res);
      |                   ^
C_Interface.cpp:112:14: note: ‘res’ was declared here
  112 |         SEXP res;
      |              ^~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -I/home/biocbuild/bbs-3.22-bioc/R/include -I../inst/include/OpenCL_header -DCL_TARGET_OPENCL_VERSION=220 -DCL_USE_DEPRECATED_OPENCL_1_2_APIS  -DCL_SILENCE_DEPRECATION -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c R_functionRegistration.cpp -o R_functionRegistration.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG -I/home/biocbuild/bbs-3.22-bioc/R/include -I../inst/include/OpenCL_header -DCL_TARGET_OPENCL_VERSION=220 -DCL_USE_DEPRECATED_OPENCL_1_2_APIS  -DCL_SILENCE_DEPRECATION -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c Tools.cpp -o Tools.o
Tools.cpp: In function ‘void errorHandle(std::string)’:
Tools.cpp:41:14: error: format not a string literal and no format arguments [-Werror=format-security]
   41 |         error(errorInfo.c_str());
Tools.cpp: In function ‘void warningHandle(std::string)’:
Tools.cpp:51:16: error: format not a string literal and no format arguments [-Werror=format-security]
   51 |         warning(warningInfo.c_str());
Tools.cpp: In function ‘void message(std::string)’:
Tools.cpp:60:16: error: format not a string literal and no format arguments [-Werror=format-security]
   60 |         Rprintf(msg.c_str());
      |         ~~~~~~~^~~~~~~~~~~~~
cc1plus: some warnings being treated as errors
make: *** [/home/biocbuild/bbs-3.22-bioc/R/etc/Makeconf:209: Tools.o] Error 1
ERROR: compilation failed for package ‘gpuMagic’
* removing ‘/tmp/RtmpOfIwdJ/Rinst19825f511ed25b/gpuMagic’
      -----------------------------------
ERROR: package installation failed