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This page was generated on 2023-03-01 07:38:52 -0000 (Wed, 01 Mar 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch64R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 4266
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BUILD results for STAN on kunpeng1


To the developers/maintainers of the STAN package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/STAN.git to
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raw results

Package 1963/2171HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
STAN 2.27.0  (landing page)
Rafael Campos-Martin
Snapshot Date: 2023-02-27 07:53:22 -0000 (Mon, 27 Feb 2023)
git_url: https://git.bioconductor.org/packages/STAN
git_branch: master
git_last_commit: daae1ae
git_last_commit_date: 2022-11-01 15:10:02 -0000 (Tue, 01 Nov 2022)
kunpeng1Linux (Ubuntu 22.04.1 LTS) / aarch64  ERROR    ERROR  skipped

Summary

Package: STAN
Version: 2.27.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data STAN
StartedAt: 2023-02-27 18:59:24 -0000 (Mon, 27 Feb 2023)
EndedAt: 2023-02-27 18:59:34 -0000 (Mon, 27 Feb 2023)
EllapsedTime: 10.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data STAN
###
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* checking for file ‘STAN/DESCRIPTION’ ... OK
* preparing ‘STAN’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘STAN’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c Bernoulli.cpp -o Bernoulli.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c EmissionFactory.cpp -o EmissionFactory.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c EmissionFunction.cpp -o EmissionFunction.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c HMM.cpp -o HMM.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c InitialProbability.cpp -o InitialProbability.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c JointlyIndependent.cpp -o JointlyIndependent.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c MemoryAllocation.cpp -o MemoryAllocation.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c Multinomial.cpp -o Multinomial.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c MultivariateGaussian.cpp -o MultivariateGaussian.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c NegativeBinomial.cpp -o NegativeBinomial.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c ParamContainerEmissions.cpp -o ParamContainerEmissions.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c Poisson.cpp -o Poisson.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c PoissonLogNormal.cpp -o PoissonLogNormal.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c RAccessUtils.cpp -o RAccessUtils.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c RWrapper.cpp -o RWrapper.o
RWrapper.cpp: In function ‘EmissionFunction** RGETEMISSION(SEXP, int, SEXP, int*, const char*, double***, int*, int, SEXP, int*, int*, int*)’:
RWrapper.cpp:350:16: warning: ‘HMMEmissionFunctions’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  350 |         return HMMEmissionFunctions;
      |                ^~~~~~~~~~~~~~~~~~~~
RWrapper.cpp: In function ‘SEXPREC* prepareEmission(const char*, SEXP, SEXP, EmissionFunction**, int)’:
RWrapper.cpp:1157:16: warning: ‘sexpemissionParam’ may be used uninitialized in this function [-Wmaybe-uninitialized]
 1157 |         return sexpemissionParam;
      |                ^~~~~~~~~~~~~~~~~
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c TransitionMatrix.cpp -o TransitionMatrix.o
g++ -std=gnu++14  -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG   -I/usr/local/include   -D_RDLL_ -fopenmp  -fPIC  -g -O2  -Wall  -c matUtils.cpp -o matUtils.o
matUtils.cpp: In function ‘double matrixDet(double**, int)’:
matUtils.cpp:118:20: error: too few arguments to function ‘void dspev_(const char*, const char*, const int*, double*, double*, double*, const int*, double*, int*, size_t, size_t)’
  118 |     F77_NAME(dspev)("V", "U", &myN, myAP, myW, myZ, &myldz, myWork, &myInfo) ;
      |                    ^
In file included from /home/biocbuild/bbs-3.17-bioc/R/include/R.h:78,
                 from matUtils.h:6,
                 from matUtils.cpp:2:
/home/biocbuild/bbs-3.17-bioc/R/include/R_ext/Lapack.h:1050:10: note: declared here
 1050 | F77_NAME(dspev)(const char* jobz, const char* uplo, const int* n,
      |          ^~~~~
/home/biocbuild/bbs-3.17-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-3.17-bioc/R/include/R_ext/Lapack.h:1050:1: note: in expansion of macro ‘F77_NAME’
 1050 | F77_NAME(dspev)(const char* jobz, const char* uplo, const int* n,
      | ^~~~~~~~
make: *** [/home/biocbuild/bbs-3.17-bioc/R/etc/Makeconf:198: matUtils.o] Error 1
ERROR: compilation failed for package ‘STAN’
* removing ‘/tmp/RtmpId1Z8J/Rinst21ddcb60419abe/STAN’
      -----------------------------------
ERROR: package installation failed