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This page was generated on 2023-04-20 12:50:36 -0400 (Thu, 20 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_64R Under development (unstable) (2023-04-19 r84288) -- "Unsuffered Consequences" 3941
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BUILD results for sigPathway on nebbiolo2


To the developers/maintainers of the sigPathway package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/sigPathway.git to reflect on this report. See Troubleshooting Build Report for more information.

- Use the following Renviron settings to reproduce errors and warnings.

Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details.

raw results

Package 1912/2223HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
sigPathway 1.67.1  (landing page)
Weil Lai
Snapshot Date: 2023-04-19 23:55:56 -0400 (Wed, 19 Apr 2023)
git_url: https://git.bioconductor.org/packages/sigPathway
git_branch: devel
git_last_commit: 97316df
git_last_commit_date: 2022-12-07 07:42:59 -0400 (Wed, 07 Dec 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  ERROR    ERROR  skipped

Summary

Package: sigPathway
Version: 1.67.1
Command: /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data sigPathway
StartedAt: 2023-04-20 05:48:42 -0400 (Thu, 20 Apr 2023)
EndedAt: 2023-04-20 05:48:44 -0400 (Thu, 20 Apr 2023)
EllapsedTime: 2.3 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data sigPathway
###
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* checking for file ‘sigPathway/DESCRIPTION’ ... OK
* preparing ‘sigPathway’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘sigPathway’ ...
** using staged installation
** libs
using C compiler: ‘gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’
gcc -I"/home/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2  -Wall -c calc_gene_set_internal.c -o calc_gene_set_internal.o
gcc -I"/home/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2  -Wall -c calc_gene_set_stat.c -o calc_gene_set_stat.o
gcc -I"/home/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2  -Wall -c calc_probe_stat.c -o calc_probe_stat.o
gcc -I"/home/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2  -Wall -c calc_weights.c -o calc_weights.o
gcc -I"/home/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2  -Wall -c matrix_fn.c -o matrix_fn.o
In file included from /home/biocbuild/bbs-3.18-bioc/R/include/R.h:78,
                 from sigPathway.h:18,
                 from matrix_fn.c:13:
matrix_fn.c: In function ‘matprod’:
matrix_fn.c:28:16: error: too few arguments to function ‘dgemm_’
   28 |       F77_CALL(dgemm)(transa, transb, &nrx, &ncy, &ncx, &one,
      |                ^~~~~
/home/biocbuild/bbs-3.18-bioc/R/include/R_ext/RS.h:77:25: note: in definition of macro ‘F77_CALL’
   77 | # define F77_CALL(x)    x ## _
      |                         ^
/home/biocbuild/bbs-3.18-bioc/R/include/R_ext/BLAS.h:207:10: note: declared here
  207 | F77_NAME(dgemm)(const char *transa, const char *transb, const int *m,
      |          ^~~~~
/home/biocbuild/bbs-3.18-bioc/R/include/R_ext/RS.h:77:25: note: in definition of macro ‘F77_CALL’
   77 | # define F77_CALL(x)    x ## _
      |                         ^
/home/biocbuild/bbs-3.18-bioc/R/include/R_ext/BLAS.h:207:1: note: in expansion of macro ‘F77_NAME’
  207 | F77_NAME(dgemm)(const char *transa, const char *transb, const int *m,
      | ^~~~~~~~
matrix_fn.c: In function ‘eigen’:
matrix_fn.c:65:12: error: too few arguments to function ‘dsyevr_’
   65 |   F77_CALL(dsyevr)(jobv, range, uplo, &n, rx, &n,
      |            ^~~~~~
/home/biocbuild/bbs-3.18-bioc/R/include/R_ext/RS.h:77:25: note: in definition of macro ‘F77_CALL’
   77 | # define F77_CALL(x)    x ## _
      |                         ^
/home/biocbuild/bbs-3.18-bioc/R/include/R_ext/Lapack.h:1270:10: note: declared here
 1270 | F77_NAME(dsyevr)(const char* jobz, const char* range, const char* uplo,
      |          ^~~~~~
/home/biocbuild/bbs-3.18-bioc/R/include/R_ext/RS.h:77:25: note: in definition of macro ‘F77_CALL’
   77 | # define F77_CALL(x)    x ## _
      |                         ^
/home/biocbuild/bbs-3.18-bioc/R/include/R_ext/Lapack.h:1270:1: note: in expansion of macro ‘F77_NAME’
 1270 | F77_NAME(dsyevr)(const char* jobz, const char* range, const char* uplo,
      | ^~~~~~~~
matrix_fn.c:77:12: error: too few arguments to function ‘dsyevr_’
   77 |   F77_CALL(dsyevr)(jobv, range, uplo, &n, rx, &n,
      |            ^~~~~~
matrix_fn.c:77:3: note: in expansion of macro ‘F77_CALL’
   77 |   F77_CALL(dsyevr)(jobv, range, uplo, &n, rx, &n,
      |   ^~~~~~~~
/home/biocbuild/bbs-3.18-bioc/R/include/R_ext/Lapack.h:1270:10: note: declared here
 1270 | F77_NAME(dsyevr)(const char* jobz, const char* range, const char* uplo,
      |          ^~~~~~
/home/biocbuild/bbs-3.18-bioc/R/include/R_ext/RS.h:77:25: note: in definition of macro ‘F77_CALL’
   77 | # define F77_CALL(x)    x ## _
      |                         ^
/home/biocbuild/bbs-3.18-bioc/R/include/R_ext/Lapack.h:1270:1: note: in expansion of macro ‘F77_NAME’
 1270 | F77_NAME(dsyevr)(const char* jobz, const char* range, const char* uplo,
      | ^~~~~~~~
make: *** [/home/biocbuild/bbs-3.18-bioc/R/etc/Makeconf:191: matrix_fn.o] Error 1
ERROR: compilation failed for package ‘sigPathway’
* removing ‘/tmp/RtmpHtP9pR/Rinst355ac3424574a5/sigPathway’
      -----------------------------------
ERROR: package installation failed