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INSTALL report for BASiCS on malbec1

This page was generated on 2021-05-06 12:26:56 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the BASiCS package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 119/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BASiCS 2.2.4  (landing page)
Catalina Vallejos
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/BASiCS
Branch: RELEASE_3_12
Last Commit: 33c1ef0
Last Changed Date: 2021-04-14 18:00:13 -0400 (Wed, 14 Apr 2021)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version exists in internal repository
tokay1Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository

Summary

Package: BASiCS
Version: 2.2.4
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL BASiCS
StartedAt: 2021-05-05 16:51:00 -0400 (Wed, 05 May 2021)
EndedAt: 2021-05-05 16:52:19 -0400 (Wed, 05 May 2021)
EllapsedTime: 78.7 seconds
RetCode: 0
Status:   OK  

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL BASiCS
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* installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’
* installing *source* package ‘BASiCS’ ...
** using staged installation
** libs
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I/usr/local/include  -fopenmp -fpic  -g -O2  -Wall -c BASiCS.cpp -o BASiCS.o
In file included from /home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/armadillo:355:0,
                 from /home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:49,
                 from /home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
                 from libraries.h:11,
                 from utils.h:4,
                 from updates.h:4,
                 from BASiCS.cpp:1:
In static member function ‘static void arma::memory::release(eT*) [with eT = const int]’,
    inlined from ‘arma::Mat<eT>::~Mat() [with eT = int]’ at /home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:30:20,
    inlined from ‘arma::Col<int>::~Col()’ at /home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/armadillo_bits/Col_bones.hpp:23:7,
    inlined from ‘Rcpp::List BASiCS_MCMCcppNoSpikes(int, int, int, arma::mat, arma::mat, arma::vec, arma::vec, arma::vec, arma::vec, arma::vec, arma::vec, double, double, double, double, double, double, double, double, double, double, arma::vec, int, arma::vec, arma::vec, arma::vec, int, double, arma::vec, arma::vec, arma::vec, arma::vec, arma::vec, arma::vec, int, int, int, const double&, const double&, const double&, const double&, const double&, const double&, int)’ at MCMCNoSpikes.h:241:20:
/home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:115:9: warning: attempt to free a non-heap object ‘<anonymous>’ [-Wfree-nonheap-object]
     free( (void *)(mem) );
     ~~~~^~~~~~~~~~~~~~~~~
In static member function ‘static void arma::memory::release(eT*) [with eT = const int]’,
    inlined from ‘arma::Mat<eT>::~Mat() [with eT = int]’ at /home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/armadillo_bits/Mat_meat.hpp:30:20,
    inlined from ‘arma::Col<int>::~Col()’ at /home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/armadillo_bits/Col_bones.hpp:23:7,
    inlined from ‘Rcpp::List BASiCS_MCMCcppRegNoSpikes(int, int, int, arma::mat, arma::mat, arma::vec, arma::vec, arma::vec, arma::vec, arma::vec, arma::vec, double, double, double, double, double, int, arma::vec, arma::mat, double, double, arma::vec, double, double, arma::vec, const double&, double, arma::vec, int, arma::vec, arma::vec, arma::vec, int, double, arma::vec, arma::vec, arma::vec, arma::vec, arma::vec, arma::vec, int, int, int, bool, bool, arma::vec, const double&, const double&, const double&, const double&, const double&, const double&, int)’ at MCMCRegNoSpikes.h:280:37:
/home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:115:9: warning: attempt to free a non-heap object ‘<anonymous>’ [-Wfree-nonheap-object]
     free( (void *)(mem) );
     ~~~~^~~~~~~~~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.12-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.12-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.12-bioc/R/library/RcppArmadillo/include' -I/usr/local/include  -fopenmp -fpic  -g -O2  -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.12-bioc/R/lib -L/usr/local/lib -o BASiCS.so BASiCS.o RcppExports.o -L/home/biocbuild/bbs-3.12-bioc/R/lib -lRlapack -L/home/biocbuild/bbs-3.12-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/biocbuild/bbs-3.12-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.12-bioc/R/library/00LOCK-BASiCS/00new/BASiCS/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (BASiCS)