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INSTALL report for monocle on tokay2

This page was generated on 2020-10-17 11:57:11 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE monocle PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1119/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
monocle 2.16.0
Cole Trapnell
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/monocle
Branch: RELEASE_3_11
Last Commit: a4d0e47
Last Changed Date: 2020-04-27 14:40:37 -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: monocle
Version: 2.16.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/monocle_2.16.0.tar.gz && rm -rf monocle.buildbin-libdir && mkdir monocle.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=monocle.buildbin-libdir monocle_2.16.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL monocle_2.16.0.zip && rm monocle_2.16.0.tar.gz monocle_2.16.0.zip
StartedAt: 2020-10-16 18:11:10 -0400 (Fri, 16 Oct 2020)
EndedAt: 2020-10-16 18:13:20 -0400 (Fri, 16 Oct 2020)
EllapsedTime: 130.5 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/monocle_2.16.0.tar.gz && rm -rf monocle.buildbin-libdir && mkdir monocle.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=monocle.buildbin-libdir monocle_2.16.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL monocle_2.16.0.zip && rm monocle_2.16.0.tar.gz monocle_2.16.0.zip
###
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100 9407k  100 9407k    0     0  60.0M      0 --:--:-- --:--:-- --:--:-- 63.3M

install for i386

* installing *source* package 'monocle' ...
** 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 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 clustering.cpp -o clustering.o
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -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-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/monocle.buildbin-libdir/00LOCK-monocle/00new/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 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 'monocle' ...
** 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 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 clustering.cpp -o clustering.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -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-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/monocle.buildbin-libdir/monocle/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'monocle' as monocle_2.16.0.zip
* DONE (monocle)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'monocle' successfully unpacked and MD5 sums checked