Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-21 13:07:06 -0500 (Fri, 21 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4079
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4140
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

INSTALL results for signatureSearch on tokay2


To the developers/maintainers of the signatureSearch package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/signatureSearch.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
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raw results

Package 1791/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
signatureSearch 1.8.2  (landing page)
Yuzhu Duan
Snapshot Date: 2022-01-20 01:55:04 -0500 (Thu, 20 Jan 2022)
git_url: https://git.bioconductor.org/packages/signatureSearch
git_branch: RELEASE_3_14
git_last_commit: 5b73dc1
git_last_commit_date: 2021-12-06 17:57:57 -0500 (Mon, 06 Dec 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: signatureSearch
Version: 1.8.2
Command: C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/signatureSearch_1.8.2.tar.gz && rm -rf signatureSearch.buildbin-libdir && mkdir signatureSearch.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=signatureSearch.buildbin-libdir signatureSearch_1.8.2.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL signatureSearch_1.8.2.zip && rm signatureSearch_1.8.2.tar.gz signatureSearch_1.8.2.zip
StartedAt: 2022-01-20 06:36:10 -0500 (Thu, 20 Jan 2022)
EndedAt: 2022-01-20 06:41:50 -0500 (Thu, 20 Jan 2022)
EllapsedTime: 340.2 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/signatureSearch_1.8.2.tar.gz && rm -rf signatureSearch.buildbin-libdir && mkdir signatureSearch.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=signatureSearch.buildbin-libdir signatureSearch_1.8.2.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL signatureSearch_1.8.2.zip && rm signatureSearch_1.8.2.tar.gz signatureSearch_1.8.2.zip
###
##############################################################################
##############################################################################


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  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
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100 2427k  100 2427k    0     0  3867k      0 --:--:-- --:--:-- --:--:-- 3865k

install for i386

* installing *source* package 'signatureSearch' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/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"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c fastGSEA.cpp -o fastGSEA.o
fastGSEA.cpp: In function 'Rcpp::NumericVector calcGseaStatBatchCpp(const NumericVector&, const List&, const IntegerVector&)':
fastGSEA.cpp:444:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'unsigned int'} [-Wsign-compare]
         for (int j = 0; j < S.size(); ++j) {
                         ~~^~~~~~~~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c fgsea_init.c -o fgsea_init.o
C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o signatureSearch.dll tmp.def RcppExports.o fastGSEA.o fgsea_init.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/signatureSearch.buildbin-libdir/00LOCK-signatureSearch/00new/signatureSearch/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 'signatureSearch'
    finding HTML links ... done
    GCT-object                              html  
    add_pcid                                html  
    append2H5                               html  
    build_custom_db                         html  
    calcGseaStatBatchCpp                    html  
    cellNtestPlot                           html  
    cell_info                               html  
    chembl_moa_list                         html  
    clue_moa_list                           html  
    comp_fea_res                            html  
    create_empty_h5                         html  
    dim-methods                             html  
    drug_cell_ranks                         html  
    drugs-methods                           html  
    drugs10                                 html  
    dsea_GSEA                               html  
    dsea_hyperG                             html  
    dtnetplot                               html  
    enrichGO2                               html  
    enrichKEGG2                             html  
    enrichMOA                               html  
    enrichReactome                          html  
    feaResult-class                         html  
    feaResult                               html  
    gctx2h5                                 html  
    gessResult-class                        html  
    gessResult                              html  
    gess_cmap                               html  
    gess_cor                                html  
    gess_fisher                             html  
    gess_gcmap                              html  
    gess_lincs                              html  
    gess_res_vis                            html  
    getALLEG                                html  
    getDb                                   html  
    getSig                                  html  
    getTreats                               html  
    get_targets                             html  
    gmt2h5                                  html  
    gseGO2                                  html  
    gseKEGG2                                html  
    gseReactome                             html  
    head-methods                            html  
    lincs_expr_inst_info                    html  
    lincs_pert_info                         html  
    lincs_sig_info                          html  
    list2df                                 html  
    mabsGO                                  html  
    mabsKEGG                                html  
    mabsReactome                            html  
    matrix2h5                               html  
    moa_conn                                html  
    parse_gctx                              html  
    qSig-class                              html  
    qSig                                    html  
    rand_query_ES                           html  
    read_gmt                                html  
    result-methods                          html  
    runWF                                   html  
    set_readable                            html  
    show-methods                            html  
    signatureSearch-package                 html  
    sim_score_grp                           html  
    tail-methods                            html  
    tarReduce                               html  
    targetList                              html  
    tsea_dup_hyperG                         html  
    tsea_mGSEA                              html  
    tsea_mabs                               html  
    vec_char_redu                           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 'signatureSearch' ...
** libs
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/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"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c fastGSEA.cpp -o fastGSEA.o
fastGSEA.cpp: In function 'Rcpp::NumericVector calcGseaStatBatchCpp(const NumericVector&, const List&, const IntegerVector&)':
fastGSEA.cpp:444:27: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<int>::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
         for (int j = 0; j < S.size(); ++j) {
                         ~~^~~~~~~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c fgsea_init.c -o fgsea_init.o
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o signatureSearch.dll tmp.def RcppExports.o fastGSEA.o fgsea_init.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/signatureSearch.buildbin-libdir/signatureSearch/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'signatureSearch' as signatureSearch_1.8.2.zip
* DONE (signatureSearch)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'signatureSearch' successfully unpacked and MD5 sums checked