Back to Multiple platform build/check report for BioC 3.11
ABCDEFG[H]IJKLMNOPQRSTUVWXYZ

INSTALL report for HiLDA on tokay2

This page was generated on 2020-10-17 11:56:49 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE HiLDA PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 822/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
HiLDA 1.2.0
Zhi Yang
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/HiLDA
Branch: RELEASE_3_11
Last Commit: a23fd31
Last Changed Date: 2020-04-27 15:28:42 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: HiLDA
Version: 1.2.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/HiLDA_1.2.0.tar.gz && rm -rf HiLDA.buildbin-libdir && mkdir HiLDA.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=HiLDA.buildbin-libdir HiLDA_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL HiLDA_1.2.0.zip && rm HiLDA_1.2.0.tar.gz HiLDA_1.2.0.zip
StartedAt: 2020-10-16 19:17:58 -0400 (Fri, 16 Oct 2020)
EndedAt: 2020-10-16 19:20:04 -0400 (Fri, 16 Oct 2020)
EllapsedTime: 126.4 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/HiLDA_1.2.0.tar.gz && rm -rf HiLDA.buildbin-libdir && mkdir HiLDA.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=HiLDA.buildbin-libdir HiLDA_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL HiLDA_1.2.0.zip && rm HiLDA_1.2.0.tar.gz HiLDA_1.2.0.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 2120k  100 2120k    0     0  25.3M      0 --:--:-- --:--:-- --:--:-- 27.6M

install for i386

* installing *source* package 'HiLDA' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c EMalgorithm.cpp -o EMalgorithm.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c checkBoundary.cpp -o checkBoundary.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c convertFromToVector.cpp -o convertFromToVector.o
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o HiLDA.dll tmp.def EMalgorithm.o RcppExports.o checkBoundary.o convertFromToVector.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/HiLDA.buildbin-libdir/00LOCK-HiLDA/00new/HiLDA/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'HiLDA'
    finding HTML links ... done
    EstimatedParameters-class               html  
    MetaInformation-class                   html  
    MutationFeatureData-class               html  
    PMSboundary                             html  
    boundaryTurbo_F                         html  
    boundaryTurbo_Q                         html  
    calcPMSLikelihood                       html  
    convertFromTurbo_F                      html  
    convertFromTurbo_Q                      html  
    convertToTurbo_F                        html  
    convertToTurbo_Q                        html  
    getLogLikelihoodC                       html  
    getMutationFeatureVector                html  
    hildaBarplot                            html  
    hildaDiffPlot                           html  
    hildaGlobalResult                       html  
    hildaLocalResult                        html  
    hildaPlotSignature                      html  
    hildaReadMPFile                         html  
    hildaRhat                               html  
    hildaTest                               html  
    mySquareEM                              html  
    pmBarplot                               html  
    pmMultiBarplot                          html  
    pmPlotSignature                         html  
    pmgetSignature                          html  
    updateMstepFQC                          html  
    updatePMSParam                          html  
    updateTheta_NormalizedC                 html  
    visPMS                                  html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'HiLDA' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c EMalgorithm.cpp -o EMalgorithm.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c checkBoundary.cpp -o checkBoundary.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c convertFromToVector.cpp -o convertFromToVector.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o HiLDA.dll tmp.def EMalgorithm.o RcppExports.o checkBoundary.o convertFromToVector.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/HiLDA.buildbin-libdir/HiLDA/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'HiLDA' as HiLDA_1.2.0.zip
* DONE (HiLDA)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'HiLDA' successfully unpacked and MD5 sums checked