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This page was generated on 2021-06-21 12:05:54 -0400 (Mon, 21 Jun 2021).

INSTALL results for trackViewer on riesling1

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- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/trackViewer.git to
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raw results

Package 1896/1993HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
trackViewer 1.29.1  (landing page)
Jianhong Ou
Snapshot Date: 2021-06-20 14:50:05 -0400 (Sun, 20 Jun 2021)
URL: https://git.bioconductor.org/packages/trackViewer
Branch: master
Last Commit: cdb4578
Last Changed Date: 2021-05-24 16:32:55 -0400 (Mon, 24 May 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    OK    OK  NO, package depends on 'Rgraphviz' which is not available
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: trackViewer
Version: 1.29.1
Command: C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/trackViewer_1.29.1.tar.gz && rm -rf trackViewer.buildbin-libdir && mkdir trackViewer.buildbin-libdir && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=trackViewer.buildbin-libdir trackViewer_1.29.1.tar.gz && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL trackViewer_1.29.1.zip && rm trackViewer_1.29.1.tar.gz trackViewer_1.29.1.zip
StartedAt: 2021-06-20 18:26:45 -0400 (Sun, 20 Jun 2021)
EndedAt: 2021-06-20 18:29:13 -0400 (Sun, 20 Jun 2021)
EllapsedTime: 148.2 seconds
RetCode: 0
Status:   OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/trackViewer_1.29.1.tar.gz && rm -rf trackViewer.buildbin-libdir && mkdir trackViewer.buildbin-libdir && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=trackViewer.buildbin-libdir trackViewer_1.29.1.tar.gz && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL trackViewer_1.29.1.zip && rm trackViewer_1.29.1.tar.gz trackViewer_1.29.1.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
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  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
  0 1785k    0  1135    0     0  22700      0  0:01:20 --:--:--  0:01:20 22254
100 1785k  100 1785k    0     0  7439k      0 --:--:-- --:--:-- --:--:-- 7408k

install for i386

* installing *source* package 'trackViewer' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'D:/biocbuild/bbs-3.14-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"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'D:/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c hic.cpp -o hic.o
hic.cpp: In member function 'void HicFileHead::readHeader(std::ifstream&)':
hic.cpp:247:16: warning: unused variable 'nviPosition' [-Wunused-variable]
           long nviPosition = readLong(ifile);
                ^~~~~~~~~~~
hic.cpp:248:16: warning: unused variable 'nviLength' [-Wunused-variable]
           long nviLength = readLong(ifile);
                ^~~~~~~~~
hic.cpp: In function 'std::vector<cellData> getByCoor(std::__cxx11::string, int, int, std::__cxx11::string, int, int, int, std::__cxx11::string, std::__cxx11::string, HicFileHead&, HicFileFoot&, std::ifstream&)':
hic.cpp:751:19: warning: '*((void*)& bd +8)' may be used uninitialized in this function [-Wmaybe-uninitialized]
     for(int i=0; i<data.nResolutions; i++){
                  ~^~~~~~~~~~~~~~~~~~
hic.cpp:797:10: note: '*((void*)& bd +8)' was declared here
     body bd;
          ^~
hic.cpp:797:10: warning: '*((void*)& bd +12)' may be used uninitialized in this function [-Wmaybe-uninitialized]
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o trackViewer.dll tmp.def RcppExports.o hic.o -lz -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.14-bioc/R/bin/i386 -lR
installing to D:/biocbuild/bbs-3.14-bioc/meat/trackViewer.buildbin-libdir/00LOCK-trackViewer/00new/trackViewer/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'trackViewer'
    finding HTML links ... done
    GRoperator                              html  
    addArrowMark                            html  
    addGuideLine                            html  
    browseTracks-shiny                      html  
    browseTracks                            html  
    coverageGR                              html  
    dandelion.plot                          html  
    geneModelFromTxdb                       html  
    geneTrack                               html  
    getCurTrackViewport                     html  
    getGeneIDsFromTxDb                      html  
    getLocation                             html  
    gi2track                                html  
    gieStain                                html  
    gridPlot                                html  
    ideogramPlot                            html  
    importBam                               html  
    importData                              html  
    importGInteractions                     html  
    importScSeqScore                        html  
    importScore                             html  
    listChromosomes                         html  
    listResolutions                         html  
    loadIdeogram                            html  
    lolliplot                               html  
    optimizeStyle                           html  
    parse2GRanges                           html  
    parseWIG                                html  
    plotGInteractions                       html  
    plotGRanges                             html  
    plotIdeo                                html  
    plotOneIdeo                             html  
    pos-class                               html  
    trackList-class                         html  
REDIRECT:topic	 seqlevelsStyle<-,trackList-method -> trackList-class.html [ FAIL ]
    trackStyle-class                        html  
REDIRECT:topic	 seqlevelsStyle<-,track-method -> trackStyle-class.html [ FAIL ]
REDIRECT:topic	 $<-,track-method -> trackStyle-class.html [ FAIL ]
    trackViewer-package                     html  
    trackViewerStyle-class                  html  
    viewGene                                html  
    viewTracks                              html  
    xscale-class                            html  
    yaxisStyle-class                        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 'trackViewer' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'D:/biocbuild/bbs-3.14-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"D:/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'D:/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c hic.cpp -o hic.o
hic.cpp: In member function 'void HicFileHead::readHeader(std::ifstream&)':
hic.cpp:247:16: warning: unused variable 'nviPosition' [-Wunused-variable]
           long nviPosition = readLong(ifile);
                ^~~~~~~~~~~
hic.cpp:248:16: warning: unused variable 'nviLength' [-Wunused-variable]
           long nviLength = readLong(ifile);
                ^~~~~~~~~
hic.cpp: In function 'std::vector<cellData> getByCoor(std::__cxx11::string, int, int, std::__cxx11::string, int, int, int, std::__cxx11::string, std::__cxx11::string, HicFileHead&, HicFileFoot&, std::ifstream&)':
hic.cpp:807:17: warning: 'cd.cellDatas::cells' may be used uninitialized in this function [-Wmaybe-uninitialized]
       cellDatas cd;
                 ^~
hic.cpp:807:17: warning: 'cd.cellDatas::cellCount' may be used uninitialized in this function [-Wmaybe-uninitialized]
hic.cpp:751:19: warning: '*((void*)& bd +8)' may be used uninitialized in this function [-Wmaybe-uninitialized]
     for(int i=0; i<data.nResolutions; i++){
                  ~^~~~~~~~~~~~~~~~~~
hic.cpp:797:10: note: '*((void*)& bd +8)' was declared here
     body bd;
          ^~
hic.cpp:797:10: warning: '*((void*)& bd +16)' may be used uninitialized in this function [-Wmaybe-uninitialized]
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o trackViewer.dll tmp.def RcppExports.o hic.o -lz -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.14-bioc/R/bin/x64 -lR
installing to D:/biocbuild/bbs-3.14-bioc/meat/trackViewer.buildbin-libdir/trackViewer/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'trackViewer' as trackViewer_1.29.1.zip
* DONE (trackViewer)
* installing to library 'D:/biocbuild/bbs-3.14-bioc/R/library'
package 'trackViewer' successfully unpacked and MD5 sums checked