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This page was generated on 2025-04-05 00:14 -0400 (Sat, 05 Apr 2025).

HostnameOSArch (*)R versionInstalled pkgs
teran2Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 871
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Package 104/217HostnameOS / ArchINSTALLBUILDCHECK
GOSemSim 2.33.0  (landing page)
Guangchuang Yu
Snapshot Date: 2025-04-05 00:00 -0400 (Sat, 05 Apr 2025)
git_url: https://git.bioconductor.org/packages/GOSemSim
git_branch: devel
git_last_commit: 5f25326
git_last_commit_date: 2024-10-29 09:30:37 -0400 (Tue, 29 Oct 2024)
teran2Linux (Ubuntu 24.04.1 LTS) / x86_64  ERROR    ERROR  skipped


BUILD results for GOSemSim on teran2

To the developers/maintainers of the GOSemSim package:
- 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: GOSemSim
Version: 2.33.0
Command: /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data GOSemSim
StartedAt: 2025-04-05 00:11:48 -0400 (Sat, 05 Apr 2025)
EndedAt: 2025-04-05 00:11:52 -0400 (Sat, 05 Apr 2025)
EllapsedTime: 3.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data GOSemSim
###
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* checking for file ‘GOSemSim/DESCRIPTION’ ... OK
* preparing ‘GOSemSim’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘GOSemSim’ ...
** this is package ‘GOSemSim’ version ‘2.33.0’
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
g++ -std=gnu++17 -I"/home/rapidbuild/bbs-3.21-bioc-rapid/R/include" -DNDEBUG  -I'/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/Rcpp/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security -DR_NO_REMAP -c ICmethod.cpp -o ICmethod.o
ICmethod.cpp: In function ‘Rcpp::NumericMatrix infoContentMethod_cpp(Rcpp::StringVector&, Rcpp::StringVector&, Rcpp::List&, Rcpp::NumericVector&, const std::string&, const std::string&)’:
ICmethod.cpp:82:29: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare]
   82 |     for (std::size_t i=0; i < ic_.size(); i++ ) {
      |                           ~~^~~~~~~~~~~~
ICmethod.cpp:88:29: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare]
   88 |     for (std::size_t i=0; i < ic_.size(); i++ ) {
      |                           ~~^~~~~~~~~~~~
ICmethod.cpp:118:29: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare]
  118 |     for (std::size_t i=0; i < anc_.size(); i++ ) {
      |                           ~~^~~~~~~~~~~~~
ICmethod.cpp:131:30: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare]
  131 |   for ( std::size_t i = 0; i < id1_.size(); i++ ) {
      |                            ~~^~~~~~~~~~~~~
ICmethod.cpp:138:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare]
  138 |       for ( std::size_t j = 0; j < id2_.size(); j++ ) {
      |                                ~~^~~~~~~~~~~~~
ICmethod.cpp:165:34: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘R_xlen_t’ {aka ‘long int’} [-Wsign-compare]
  165 |       for ( std::size_t j = 0; j < id2_.size(); j++ ) {
      |                                ~~^~~~~~~~~~~~~
ICmethod.cpp: At global scope:
ICmethod.cpp:171:1: fatal error: error writing to /tmp/ccXDYWHG.s: No space left on device
  171 | }
      | ^
compilation terminated.
make: *** [/home/rapidbuild/bbs-3.21-bioc-rapid/R/etc/Makeconf:202: ICmethod.o] Error 1
ERROR: compilation failed for package ‘GOSemSim’
* removing ‘/tmp/RtmpsrDuRU/Rinstfc6715e25dc06/GOSemSim’
      -----------------------------------
ERROR: package installation failed