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This page was generated on 2025-02-10 11:41 -0500 (Mon, 10 Feb 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4719
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" 4480
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" 4491
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4444
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 796/2295HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GeneGeneInteR 1.33.0  (landing page)
Mathieu Emily
Snapshot Date: 2025-02-09 13:40 -0500 (Sun, 09 Feb 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

INSTALL results for GeneGeneInteR on palomino7

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: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL GeneGeneInteR
StartedAt: 2025-02-09 16:02:27 -0500 (Sun, 09 Feb 2025)
EndedAt: 2025-02-09 16:02:30 -0500 (Sun, 09 Feb 2025)
EllapsedTime: 3.3 seconds
RetCode: 1
Status:   ERROR  

Command output

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###
### Running command:
###
###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL GeneGeneInteR
###
##############################################################################
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* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'GeneGeneInteR' ...
** this is package 'GeneGeneInteR' version '1.33.0'
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign   -DR_NO_REMAP -c chclust.cpp -o chclust.o
In file included from chclust.cpp:7:
chclust.cpp: In function 'SEXPREC* chclust_c(SEXP, SEXP)':
chclust.cpp:43:29: error: 'allocVector' was not declared in this scope; did you mean 'Rf_allocVector'?
   43 |          PROTECT(eMessage = allocVector(STRSXP, 1));
      |                             ^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/include/Rinternals.h:388:36: note: in definition of macro 'PROTECT'
  388 | #define PROTECT(s)      Rf_protect(s)
      |                                    ^
chclust.cpp:44:38: error: 'mkChar' was not declared in this scope; did you mean 'char'?
   44 |          SET_STRING_ELT(eMessage, 0, mkChar("Error in Conslink C++ code"));
      |                                      ^~~~~~
      |                                      char
chclust.cpp:50:29: error: 'allocVector' was not declared in this scope; did you mean 'Rf_allocVector'?
   50 |          PROTECT(eMessage = allocVector(STRSXP, 1));
      |                             ^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/include/Rinternals.h:388:36: note: in definition of macro 'PROTECT'
  388 | #define PROTECT(s)      Rf_protect(s)
      |                                    ^
chclust.cpp:51:38: error: 'mkChar' was not declared in this scope; did you mean 'char'?
   51 |          SET_STRING_ELT(eMessage, 0, mkChar("Error in ConISS C++ code"));
      |                                      ^~~~~~
      |                                      char
chclust.cpp:56:26: error: 'allocVector' was not declared in this scope; did you mean 'Rf_allocVector'?
   56 |       PROTECT(eMessage = allocVector(STRSXP, 1));
      |                          ^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/include/Rinternals.h:388:36: note: in definition of macro 'PROTECT'
  388 | #define PROTECT(s)      Rf_protect(s)
      |                                    ^
chclust.cpp:57:35: error: 'mkChar' was not declared in this scope; did you mean 'char'?
   57 |       SET_STRING_ELT(eMessage, 0, mkChar("Unknown clustering method"));
      |                                   ^~~~~~
      |                                   char
chclust.cpp:61:20: error: 'allocVector' was not declared in this scope; did you mean 'Rf_allocVector'?
   61 |    PROTECT(sDend = allocVector(REALSXP, nr-1));
      |                    ^~~~~~~~~~~
E:/biocbuild/bbs-3.21-bioc/R/include/Rinternals.h:388:36: note: in definition of macro 'PROTECT'
  388 | #define PROTECT(s)      Rf_protect(s)
      |                                    ^
make: *** [E:/biocbuild/bbs-3.21-bioc/R/etc/x64/Makeconf:296: chclust.o] Error 1
ERROR: compilation failed for package 'GeneGeneInteR'
* removing 'E:/biocbuild/bbs-3.21-bioc/R/library/GeneGeneInteR'