Alexey Sergushichev
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/fgsea |
| Branch: RELEASE_3_9 |
| Last Commit: fb06a6e |
| Last Changed Date: 2019-08-21 14:03:59 -0400 (Wed, 21 Aug 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:36:11 -0400 (Wed, 16 Oct 2019).
| Package 548/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| fgsea 1.10.1 Alexey Sergushichev
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: fgsea |
| Version: 1.10.1 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/fgsea_1.10.1.tar.gz && rm -rf fgsea.buildbin-libdir && mkdir fgsea.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=fgsea.buildbin-libdir fgsea_1.10.1.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL fgsea_1.10.1.zip && rm fgsea_1.10.1.tar.gz fgsea_1.10.1.zip |
| StartedAt: 2019-10-15 19:33:25 -0400 (Tue, 15 Oct 2019) |
| EndedAt: 2019-10-15 19:34:41 -0400 (Tue, 15 Oct 2019) |
| EllapsedTime: 75.8 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/fgsea_1.10.1.tar.gz && rm -rf fgsea.buildbin-libdir && mkdir fgsea.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=fgsea.buildbin-libdir fgsea_1.10.1.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL fgsea_1.10.1.zip && rm fgsea_1.10.1.tar.gz fgsea_1.10.1.zip
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install for i386
* installing *source* package 'fgsea' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c esCalculation.cpp -o esCalculation.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -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 between signed and unsigned integer expressions [-Wsign-compare]
for (int j = 0; j < S.size(); ++j) {
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c fgseaMultilevel.cpp -o fgseaMultilevel.o
fgseaMultilevel.cpp: In function 'Rcpp::NumericVector fgseaMultilevelCpp(const NumericVector&, const NumericVector&, int, int, int, double, bool)':
fgseaMultilevel.cpp:15:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int i = 0; i < posRanks.size(); i++) {
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c fgseaMultilevelSupplement.cpp -o fgseaMultilevelSupplement.o
fgseaMultilevelSupplement.cpp: In function 'void fillRandomSample(std::set&, std::mt19937&, long unsigned int, unsigned int)':
fgseaMultilevelSupplement.cpp:42:50: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
while (static_cast(randomSample.size()) < pathwaySize) {
^
fgseaMultilevelSupplement.cpp: In member function 'void EsRuler::duplicateSamples()':
fgseaMultilevelSupplement.cpp:67:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int sampleId = 0; sampleId < sampleSize; sampleId++) {
^
fgseaMultilevelSupplement.cpp:77:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int sampleId = 0; 2 * sampleId < sampleSize; sampleId++) {
^
fgseaMultilevelSupplement.cpp:86:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int sampleId = 0; 2 * sampleId < sampleSize - 2; sampleId++) {
^
fgseaMultilevelSupplement.cpp: In member function 'void EsRuler::extend(double, int, double)':
fgseaMultilevelSupplement.cpp:100:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int sampleId = 0; sampleId < sampleSize; sampleId++) {
^
fgseaMultilevelSupplement.cpp:118:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int moves = 0; moves < sampleSize * pathwaySize;) {
^
fgseaMultilevelSupplement.cpp:119:47: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int sample_id = 0; sample_id < sampleSize; sample_id++) {
^
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c fgsea_init.c -o fgsea_init.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o fgsea.dll tmp.def RcppExports.o esCalculation.o fastGSEA.o fgseaMultilevel.o fgseaMultilevelSupplement.o fgsea_init.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/fgsea.buildbin-libdir/00LOCK-fgsea/00new/fgsea/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 'fgsea'
finding HTML links ... done
calcGseaStat html
calcGseaStatBatchCpp html
collapsePathways html
examplePathways html
exampleRanks html
fgsea html
fgseaLabel html
fgseaMultilevel html
fgseaSimpleImpl html
gmtPathways html
multilevelError html
multilevelImpl html
plotEnrichment html
plotGseaTable html
reactomePathways 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 'fgsea' ...
** libs
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c esCalculation.cpp -o esCalculation.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -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 between signed and unsigned integer expressions [-Wsign-compare]
for (int j = 0; j < S.size(); ++j) {
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c fgseaMultilevel.cpp -o fgseaMultilevel.o
fgseaMultilevel.cpp: In function 'Rcpp::NumericVector fgseaMultilevelCpp(const NumericVector&, const NumericVector&, int, int, int, double, bool)':
fgseaMultilevel.cpp:15:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int i = 0; i < posRanks.size(); i++) {
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c fgseaMultilevelSupplement.cpp -o fgseaMultilevelSupplement.o
fgseaMultilevelSupplement.cpp: In function 'void fillRandomSample(std::set&, std::mt19937&, long unsigned int, unsigned int)':
fgseaMultilevelSupplement.cpp:42:50: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
while (static_cast(randomSample.size()) < pathwaySize) {
^
fgseaMultilevelSupplement.cpp: In member function 'void EsRuler::duplicateSamples()':
fgseaMultilevelSupplement.cpp:67:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int sampleId = 0; sampleId < sampleSize; sampleId++) {
^
fgseaMultilevelSupplement.cpp:77:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int sampleId = 0; 2 * sampleId < sampleSize; sampleId++) {
^
fgseaMultilevelSupplement.cpp:86:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int sampleId = 0; 2 * sampleId < sampleSize - 2; sampleId++) {
^
fgseaMultilevelSupplement.cpp: In member function 'void EsRuler::extend(double, int, double)':
fgseaMultilevelSupplement.cpp:100:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int sampleId = 0; sampleId < sampleSize; sampleId++) {
^
fgseaMultilevelSupplement.cpp:118:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int moves = 0; moves < sampleSize * pathwaySize;) {
^
fgseaMultilevelSupplement.cpp:119:47: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (int sample_id = 0; sample_id < sampleSize; sample_id++) {
^
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU~1/BBS-3~1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/BH/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c fgsea_init.c -o fgsea_init.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o fgsea.dll tmp.def RcppExports.o esCalculation.o fastGSEA.o fgseaMultilevel.o fgseaMultilevelSupplement.o fgsea_init.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/fgsea.buildbin-libdir/fgsea/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'fgsea' as fgsea_1.10.1.zip
* DONE (fgsea)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'fgsea' successfully unpacked and MD5 sums checked