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INSTALL report for MIMOSA on malbec1

This page was generated on 2019-04-16 11:50:23 -0400 (Tue, 16 Apr 2019).

Package 958/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MIMOSA 1.20.1
Greg Finak
Snapshot Date: 2019-04-15 17:01:12 -0400 (Mon, 15 Apr 2019)
URL: https://git.bioconductor.org/packages/MIMOSA
Branch: RELEASE_3_8
Last Commit: 6012f34
Last Changed Date: 2019-01-04 13:39:24 -0400 (Fri, 04 Jan 2019)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64 [ OK ] OK  WARNINGS UNNEEDED, same version exists in internal repository
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: MIMOSA
Version: 1.20.1
Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL MIMOSA
StartedAt: 2019-04-15 18:04:17 -0400 (Mon, 15 Apr 2019)
EndedAt: 2019-04-15 18:05:00 -0400 (Mon, 15 Apr 2019)
EllapsedTime: 42.7 seconds
RetCode: 0
Status:  OK 

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL MIMOSA
###
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* installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’
* installing *source* package ‘MIMOSA’ ...
** libs
g++  -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include  `/home/biocbuild/bbs-3.8-bioc/R/bin/Rscript -e "RcppArmadillo:::CxxFlags()"`   -fpic  -g -O2  -Wall -c BetaMix.cpp -o BetaMix.o
g++  -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include  `/home/biocbuild/bbs-3.8-bioc/R/bin/Rscript -e "RcppArmadillo:::CxxFlags()"`   -fpic  -g -O2  -Wall -c MCMC.cpp -o MCMC.o
In file included from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/armadillo:54:0,
                 from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:46,
                 from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
                 from MCMC.cpp:3:
/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/armadillo_bits/compiler_setup.hpp:514:108: note: #pragma message: NOTE: suggest to enable C++14 mode for faster code; add -std=c++14 to compiler flags
     #pragma message ("NOTE: suggest to enable C++14 mode for faster code; add -std=c++14 to compiler flags")
                                                                                                            ^
MCMC.cpp: In function ‘SEXPREC* fitMCMC(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
MCMC.cpp:73:9: warning: suggest parentheses around comparison in operand of ‘|’ [-Wparentheses]
  if(file==NULL|fileP==NULL){
         ^
MCMC.cpp:88:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  if(alphas.size()!=stim.ncol()){
                  ^
MCMC.cpp:188:15: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i=0;i<alphas.size();i++){
               ^
MCMC.cpp:191:15: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i=0;i<alphau.size();i++){
               ^
MCMC.cpp:523:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(int j=0;j<p.size();j++){
                 ^
MCMC.cpp:542:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(int obs=0;obs<alphas.size();obs++){
                     ^
MCMC.cpp:545:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(int obs=0;obs<alphau.size();obs++){
                     ^
MCMC.cpp: In function ‘double lkbeta(const std::vector<double, std::allocator<double> >&)’:
MCMC.cpp:627:15: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i=0;i<alpha.size();i++){
               ^
MCMC.cpp: In function ‘void simZ(double&, std::vector<double, std::allocator<double> >&, std::vector<double, std::allocator<double> >&, std::vector<double, std::allocator<double> >&, std::vector<double, std::allocator<double> >&, std::vector<bool>&, int, int)’:
MCMC.cpp:677:12: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(i=0;i < lnull.size(); i++){
            ^
MCMC.cpp: In function ‘double normconstIBeta(double, double, double, double)’:
MCMC.cpp:811:15: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i=0;i<upper.size();i++){
               ^
MCMC.cpp: In function ‘double nc(double, double, double, double, double)’:
MCMC.cpp:884:15: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i=0;i<(s.size()-1);i++){
               ^
MCMC.cpp:889:15: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int i=0;i<s.size();i++){
               ^
gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c MIMOSA_init.c -o MIMOSA_init.o
gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include   -fpic  -g -O2  -Wall -c betaintegral.c -o betaintegral.o
g++  -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG  -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -I/usr/local/include  `/home/biocbuild/bbs-3.8-bioc/R/bin/Rscript -e "RcppArmadillo:::CxxFlags()"`   -fpic  -g -O2  -Wall -c betaintegralRcpp.cpp -o betaintegralRcpp.o
In file included from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/armadillo:54:0,
                 from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:46,
                 from /home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
                 from betaintegralRcpp.cpp:1:
/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include/armadillo_bits/compiler_setup.hpp:514:108: note: #pragma message: NOTE: suggest to enable C++14 mode for faster code; add -std=c++14 to compiler flags
     #pragma message ("NOTE: suggest to enable C++14 mode for faster code; add -std=c++14 to compiler flags")
                                                                                                            ^
g++ -shared -L/home/biocbuild/bbs-3.8-bioc/R/lib -L/usr/local/lib -o MIMOSA.so BetaMix.o MCMC.o MIMOSA_init.o betaintegral.o betaintegralRcpp.o -O3 -lm -lstdc++ -I"/home/biocbuild/bbs-3.8-bioc/R/library/RcppArmadillo/include" -L/home/biocbuild/bbs-3.8-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.8-bioc/R/library/MIMOSA/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
* DONE (MIMOSA)