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This page was generated on 2025-01-24 11:42 -0500 (Fri, 24 Jan 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4609
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" 4393
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 3839
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 3835
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" 4408
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 792/2286HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GeneGeneInteR 1.33.0  (landing page)
Mathieu Emily
Snapshot Date: 2025-01-23 13:40 -0500 (Thu, 23 Jan 2025)
git_url: https://git.bioconductor.org/packages/GeneGeneInteR
git_branch: devel
git_last_commit: bbad5d1
git_last_commit_date: 2024-10-29 10:12:42 -0500 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  ERROR    ERROR  skipped
palomino7Windows Server 2022 Datacenter / x64  ERROR    ERROR  skippedskipped
lconwaymacOS 12.7.1 Monterey / x86_64  ERROR    ERROR  skippedskipped
kjohnson3macOS 13.7.1 Ventura / arm64  ERROR    ERROR  skippedskipped
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  ERROR    ERROR  skipped

BUILD results for GeneGeneInteR on kjohnson3

To the developers/maintainers of the GeneGeneInteR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GeneGeneInteR.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: GeneGeneInteR
Version: 1.33.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data GeneGeneInteR
StartedAt: 2025-01-23 15:59:29 -0500 (Thu, 23 Jan 2025)
EndedAt: 2025-01-23 15:59:30 -0500 (Thu, 23 Jan 2025)
EllapsedTime: 1.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data GeneGeneInteR
###
##############################################################################
##############################################################################


* checking for file ‘GeneGeneInteR/DESCRIPTION’ ... OK
* preparing ‘GeneGeneInteR’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘GeneGeneInteR’ ...
** this is package ‘GeneGeneInteR’ version ‘1.33.0’
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c chclust.cpp -o chclust.o
chclust.cpp:43:29: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
         PROTECT(eMessage = allocVector(STRSXP, 1));
                            ^~~~~~~~~~~
                            Rf_allocVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:388:31: note: expanded from macro 'PROTECT'
#define PROTECT(s)      Rf_protect(s)
                                   ^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1078:10: note: 'Rf_allocVector' declared here
SEXP     Rf_allocVector(SEXPTYPE, R_xlen_t);
         ^
chclust.cpp:44:38: error: use of undeclared identifier 'mkChar'
         SET_STRING_ELT(eMessage, 0, mkChar("Error in Conslink C++ code"));
                                     ^
chclust.cpp:50:29: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
         PROTECT(eMessage = allocVector(STRSXP, 1));
                            ^~~~~~~~~~~
                            Rf_allocVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:388:31: note: expanded from macro 'PROTECT'
#define PROTECT(s)      Rf_protect(s)
                                   ^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1078:10: note: 'Rf_allocVector' declared here
SEXP     Rf_allocVector(SEXPTYPE, R_xlen_t);
         ^
chclust.cpp:51:38: error: use of undeclared identifier 'mkChar'
         SET_STRING_ELT(eMessage, 0, mkChar("Error in ConISS C++ code"));
                                     ^
chclust.cpp:56:26: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
      PROTECT(eMessage = allocVector(STRSXP, 1));
                         ^~~~~~~~~~~
                         Rf_allocVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:388:31: note: expanded from macro 'PROTECT'
#define PROTECT(s)      Rf_protect(s)
                                   ^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1078:10: note: 'Rf_allocVector' declared here
SEXP     Rf_allocVector(SEXPTYPE, R_xlen_t);
         ^
chclust.cpp:57:35: error: use of undeclared identifier 'mkChar'
      SET_STRING_ELT(eMessage, 0, mkChar("Unknown clustering method"));
                                  ^
chclust.cpp:61:20: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
   PROTECT(sDend = allocVector(REALSXP, nr-1));
                   ^~~~~~~~~~~
                   Rf_allocVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:388:31: note: expanded from macro 'PROTECT'
#define PROTECT(s)      Rf_protect(s)
                                   ^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1078:10: note: 'Rf_allocVector' declared here
SEXP     Rf_allocVector(SEXPTYPE, R_xlen_t);
         ^
7 errors generated.
make: *** [chclust.o] Error 1
ERROR: compilation failed for package ‘GeneGeneInteR’
* removing ‘/private/var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T/RtmpC12q9G/Rinst95c530d84499/GeneGeneInteR’
      -----------------------------------
ERROR: package installation failed