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INSTALL report for monocle on tokay1

This page was generated on 2019-04-13 11:23:54 -0400 (Sat, 13 Apr 2019).

Package 989/1649HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
monocle 2.10.1
Cole Trapnell
Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019)
URL: https://git.bioconductor.org/packages/monocle
Branch: RELEASE_3_8
Last Commit: 2a006cf
Last Changed Date: 2019-01-04 13:40:16 -0400 (Fri, 04 Jan 2019)
malbec1 Linux (Ubuntu 16.04.6 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64 [ OK ] OK  OK  OK 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: monocle
Version: 2.10.1
Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/monocle_2.10.1.tar.gz && rm -rf monocle.buildbin-libdir && mkdir monocle.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=monocle.buildbin-libdir monocle_2.10.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL monocle_2.10.1.zip && rm monocle_2.10.1.tar.gz monocle_2.10.1.zip
StartedAt: 2019-04-12 19:32:45 -0400 (Fri, 12 Apr 2019)
EndedAt: 2019-04-12 19:35:20 -0400 (Fri, 12 Apr 2019)
EllapsedTime: 155.1 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/monocle_2.10.1.tar.gz && rm -rf monocle.buildbin-libdir && mkdir monocle.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=monocle.buildbin-libdir monocle_2.10.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL monocle_2.10.1.zip && rm monocle_2.10.1.tar.gz monocle_2.10.1.zip
###
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install for i386

* installing *source* package 'monocle' ...
** libs
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c clustering.cpp -o clustering.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o monocle.dll tmp.def RcppExports.o clustering.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/monocle.buildbin-libdir/monocle/libs/i386
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'monocle'
    finding HTML links ... done
    BEAM                                    html  
    CellDataSet-methods                     html  
    CellDataSet                             html  
    CellType                                html  
    CellTypeHierarchy                       html  
    addCellType                             html  
    branchTest                              html  
    buildBranchCellDataSet                  html  
    calABCs                                 html  
    calILRs                                 html  
    calibrate_per_cell_total_proposal       html  
    cellPairwiseDistances-set               html  
    cellPairwiseDistances                   html  
    clusterCells                            html  
    finding level-2 HTML links ... done

    clusterGenes                            html  
    compareModels                           html  
    detectBifurcationPoint                  html  
    detectGenes                             html  
    diff_test_helper                        html  
    differentialGeneTest                    html  
    dispersionTable                         html  
    estimateDispersionsForCellDataSet       html  
    estimateSizeFactorsForMatrix            html  
    estimate_t                              html  
    exportCDS                               html  
    extract_good_branched_ordering          html  
    fitModel                                html  
    fit_model_helper                        html  
    genSmoothCurveResiduals                 html  
    genSmoothCurves                         html  
    get_classic_muscle_markers              html  
    importCDS                               html  
    load_HSMM                               html  
    load_HSMM_markers                       html  
    load_lung                               html  
    markerDiffTable                         html  
    mcesApply                               html  
    minSpanningTree-set                     html  
    minSpanningTree                         html  
    newCellDataSet                          html  
    newCellTypeHierarchy                    html  
    orderCells                              html  
    order_p_node                            html  
    package-deprecated                      html  
    plot_cell_clusters                      html  
    plot_cell_trajectory                    html  
    plot_clusters                           html  
    plot_coexpression_matrix                html  
    plot_complex_cell_trajectory            html  
    plot_genes_branched_heatmap             html  
    plot_genes_branched_pseudotime          html  
    plot_genes_in_pseudotime                html  
    plot_genes_jitter                       html  
    plot_genes_positive_cells               html  
    plot_genes_violin                       html  
    plot_multiple_branches_heatmap          html  
    plot_multiple_branches_pseudotime       html  
    plot_ordering_genes                     html  
    plot_pc_variance_explained              html  
    plot_pseudotime_heatmap                 html  
    plot_rho_delta                          html  
    pq_helper                               html  
    reduceDimension                         html  
    reducedDimA-set                         html  
    reducedDimA                             html  
    reducedDimK-set                         html  
    reducedDimK                             html  
    reducedDimS-set                         html  
    reducedDimS                             html  
    reducedDimW-set                         html  
    reducedDimW                             html  
    relative2abs                            html  
    residualMatrix                          html  
    responseMatrix                          html  
    selectTopMarkers                        html  
    setOrderingFilter                       html  
    spike_df                                html  
    vstExprs                                html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'monocle' ...
** libs
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++  -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=generic -c clustering.cpp -o clustering.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o monocle.dll tmp.def RcppExports.o clustering.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/monocle.buildbin-libdir/monocle/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'monocle' as monocle_2.10.1.zip
* DONE (monocle)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'monocle' successfully unpacked and MD5 sums checked
In R CMD INSTALL