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INSTALL report for cola on tokay1

This page was generated on 2020-04-15 12:31:43 -0400 (Wed, 15 Apr 2020).

Package 341/1823HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cola 1.2.1
Zuguang Gu
Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020)
URL: https://git.bioconductor.org/packages/cola
Branch: RELEASE_3_10
Last Commit: ce9b863
Last Changed Date: 2019-12-31 09:11:38 -0400 (Tue, 31 Dec 2019)
malbec1 Linux (Ubuntu 18.04.4 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: cola
Version: 1.2.1
Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/cola_1.2.1.tar.gz && rm -rf cola.buildbin-libdir && mkdir cola.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=cola.buildbin-libdir cola_1.2.1.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL cola_1.2.1.zip && rm cola_1.2.1.tar.gz cola_1.2.1.zip
StartedAt: 2020-04-14 19:19:12 -0400 (Tue, 14 Apr 2020)
EndedAt: 2020-04-14 19:21:48 -0400 (Tue, 14 Apr 2020)
EllapsedTime: 155.4 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/cola_1.2.1.tar.gz && rm -rf cola.buildbin-libdir && mkdir cola.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=cola.buildbin-libdir cola_1.2.1.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL cola_1.2.1.zip && rm cola_1.2.1.tar.gz cola_1.2.1.zip
###
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100 15.0M  100 15.0M    0     0  42.8M      0 --:--:-- --:--:-- --:--:-- 43.1M

install for i386

* installing *source* package 'cola' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c cal_consensus_mat.cpp -o cal_consensus_mat.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c pdist.cpp -o pdist.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o cola.dll tmp.def RcppExports.o cal_consensus_mat.o pdist.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/cola.buildbin-libdir/00LOCK-cola/00new/cola/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'cola'
    finding HTML links ... done
    ATC                                     html  
    ConsensusPartition-class                html  
    ConsensusPartitionList-class            html  
    Extract.ConsensusPartitionList          html  
    ExtractExtract.ConsensusPartitionList   html  
    FCC                                     html  
    PAC                                     html  
    aPAC                                    html  
    adjust_matrix                           html  
    adjust_outlier                          html  
    all_partition_methods                   html  
    all_top_value_methods                   html  
    cola                                    html  
    cola_opt                                html  
    cola_report-ConsensusPartition-method   html  
    cola_report-ConsensusPartitionList-method
                                            html  
    cola_report-dispatch                    html  
    cola_rl                                 html  
    collect_classes-ConsensusPartition-method
                                            html  
    collect_classes-ConsensusPartitionList-method
                                            html  
    collect_classes-dispatch                html  
    collect_plots-ConsensusPartition-method
                                            html  
    collect_plots-ConsensusPartitionList-method
                                            html  
    collect_plots-dispatch                  html  
    collect_stats-ConsensusPartition-method
                                            html  
    collect_stats-ConsensusPartitionList-method
                                            html  
    collect_stats-dispatch                  html  
    colnames-ConsensusPartition-method      html  
    colnames-ConsensusPartitionList-method
                                            html  
    colnames-dispatch                       html  
    compare_signatures-ConsensusPartition-method
                                            html  
    concordance                             html  
    consensus_heatmap-ConsensusPartition-method
                                            html  
    consensus_partition                     html  
    correspond_between_rankings             html  
    correspond_between_two_rankings         html  
    dim.ConsensusPartition                  html  
    dim.ConsensusPartitionList              html  
    dimension_reduction-ConsensusPartition-method
                                            html  
    dimension_reduction-dispatch            html  
    dimension_reduction-matrix-method       html  
    find_best_km                            html  
    functional_enrichment-ANY-method        html  
    functional_enrichment-ConsensusPartition-method
                                            html  
    functional_enrichment-ConsensusPartitionList-method
                                            html  
    functional_enrichment-dispatch          html  
    get_anno-ConsensusPartition-method      html  
    get_anno-ConsensusPartitionList-method
                                            html  
    get_anno-dispatch                       html  
    get_anno_col-ConsensusPartition-method
                                            html  
    get_anno_col-ConsensusPartitionList-method
                                            html  
    get_anno_col-dispatch                   html  
    get_classes-ConsensusPartition-method   html  
    get_classes-ConsensusPartitionList-method
                                            html  
    get_classes-dispatch                    html  
    get_consensus-ConsensusPartition-method
                                            html  
    get_matrix-ConsensusPartition-method    html  
    get_matrix-ConsensusPartitionList-method
                                            html  
    get_matrix-dispatch                     html  
    get_membership-ConsensusPartition-method
                                            html  
    get_membership-ConsensusPartitionList-method
                                            html  
    get_membership-dispatch                 html  
    get_param-ConsensusPartition-method     html  
    get_signatures-ConsensusPartition-method
                                            html  
    get_stats-ConsensusPartition-method     html  
    get_stats-ConsensusPartitionList-method
                                            html  
    get_stats-dispatch                      html  
    is_best_k-ConsensusPartition-method     html  
    is_best_k-ConsensusPartitionList-method
                                            html  
    is_best_k-dispatch                      html  
    is_stable_k-ConsensusPartition-method   html  
    is_stable_k-ConsensusPartitionList-method
                                            html  
    is_stable_k-dispatch                    html  
    knitr_add_tab_item                      html  
    knitr_insert_tabs                       html  
    map_to_entrez_id                        html  
    membership_heatmap-ConsensusPartition-method
                                            html  
    ncol-ConsensusPartition-method          html  
    ncol-ConsensusPartitionList-method      html  
    ncol-dispatch                           html  
    nrow-ConsensusPartition-method          html  
    nrow-ConsensusPartitionList-method      html  
    nrow-dispatch                           html  
    plot_ecdf-ConsensusPartition-method     html  
    recalc_stats                            html  
    register_NMF                            html  
    register_SOM                            html  
    register_partition_methods              html  
    register_top_value_methods              html  
    relabel_class                           html  
    remove_partition_methods                html  
    remove_top_value_methods                html  
    rownames-ConsensusPartition-method      html  
    rownames-ConsensusPartitionList-method
                                            html  
    rownames-dispatch                       html  
    run_all_consensus_partition_methods     html  
    select_partition_number-ConsensusPartition-method
                                            html  
    show-ConsensusPartition-method          html  
    show-ConsensusPartitionList-method      html  
    show-dispatch                           html  
    submit_to_david                         html  
    suggest_best_k-ConsensusPartition-method
                                            html  
    suggest_best_k-ConsensusPartitionList-method
                                            html  
    suggest_best_k-dispatch                 html  
    test_between_factors                    html  
    test_to_known_factors-ConsensusPartition-method
                                            html  
    test_to_known_factors-ConsensusPartitionList-method
                                            html  
    test_to_known_factors-dispatch          html  
    top_elements_overlap                    html  
    top_rows_heatmap-ConsensusPartitionList-method
                                            html  
    top_rows_heatmap-dispatch               html  
    top_rows_heatmap-matrix-method          html  
    top_rows_overlap-ConsensusPartitionList-method
                                            html  
    top_rows_overlap-dispatch               html  
    top_rows_overlap-matrix-method          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 'cola' ...
** libs
C:/Rtools/mingw_64/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c cal_consensus_mat.cpp -o cal_consensus_mat.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include"   -I"C:/extsoft/include"     -O2 -Wall  -mtune=core2 -c pdist.cpp -o pdist.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o cola.dll tmp.def RcppExports.o cal_consensus_mat.o pdist.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/cola.buildbin-libdir/cola/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'cola' as cola_1.2.1.zip
* DONE (cola)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'cola' successfully unpacked and MD5 sums checked