Oriol Senan Campos
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/cliqueMS |
| Branch: RELEASE_3_11 |
| Last Commit: 828442d |
| Last Changed Date: 2020-08-02 21:53:25 -0400 (Sun, 02 Aug 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:56:18 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE cliqueMS PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 309/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| cliqueMS 1.2.1 Oriol Senan Campos
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | OK | | ||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |
| Package: cliqueMS |
| Version: 1.2.1 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/cliqueMS_1.2.1.tar.gz && rm -rf cliqueMS.buildbin-libdir && mkdir cliqueMS.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=cliqueMS.buildbin-libdir cliqueMS_1.2.1.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL cliqueMS_1.2.1.zip && rm cliqueMS_1.2.1.tar.gz cliqueMS_1.2.1.zip |
| StartedAt: 2020-10-16 18:55:22 -0400 (Fri, 16 Oct 2020) |
| EndedAt: 2020-10-16 18:57:59 -0400 (Fri, 16 Oct 2020) |
| EllapsedTime: 156.2 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/3.11/bioc/src/contrib/cliqueMS_1.2.1.tar.gz && rm -rf cliqueMS.buildbin-libdir && mkdir cliqueMS.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=cliqueMS.buildbin-libdir cliqueMS_1.2.1.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL cliqueMS_1.2.1.zip && rm cliqueMS_1.2.1.tar.gz cliqueMS_1.2.1.zip
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install for i386
* installing *source* package 'cliqueMS' ...
** 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:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -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:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c findAnnotationR.cpp -o findAnnotationR.o
In file included from findAnnotationR.cpp:1:
annotationCliqueMSR.h: In function 'std::vector<std::pair<double, double> > sortMass(annotData&, int, std::unordered_map<double, std::pair<double, double> >, int)':
annotationCliqueMSR.h:440:11: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::pair<double, double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
if(id < allM.size()) // not add more masses in case that for that feature are less than "n" top masses
~~~^~~~~~~~~~~~~
annotationCliqueMSR.h: In function 'std::unordered_set<double> getTopScoringMasses(annotData&, int, rawadList, int, int, double)':
annotationCliqueMSR.h:476:11: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::pair<double, double> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
if(id < allM.size()) // not add more masses in case that there are less than "n" top masses
~~~^~~~~~~~~~~~~
annotationCliqueMSR.h: In function 'std::vector<int> sortAnnotations(std::unordered_map<int, Annotation>&, int)':
annotationCliqueMSR.h:725:11: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::pair<double, int> >::size_type' {aka 'unsigned int'} [-Wsign-compare]
if(id < allAn.size() )
~~~^~~~~~~~~~~~~~
annotationCliqueMSR.h: In function 'double computeMaxScore(std::vector<double>&, int, double)':
annotationCliqueMSR.h:739:24: warning: 'completeroundscore' may be used uninitialized in this function [-Wmaybe-uninitialized]
completeroundscore += *ritv;
~~~~~~~~~~~~~~~~~~~^~~~~~~~
"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:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c findCliquesR.cpp -o findCliquesR.o
In file included from findCliquesR.cpp:2:
networkCliqueMSR.h: In function 'Edges createEdges(Rcpp::DataFrame)':
networkCliqueMSR.h:38:37: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'R_xlen_t' {aka 'int'} [-Wsign-compare]
for(unsigned int index = 0; index < vnode1.size(); index++) {
~~~~~~^~~~~~~~~~~~~~~
"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:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c findIsotopesR.cpp -o findIsotopesR.o
C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o cliqueMS.dll tmp.def RcppExports.o findAnnotationR.o findCliquesR.o findIsotopesR.o -fopenmp -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -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/cliqueMS.buildbin-libdir/00LOCK-cliqueMS/00new/cliqueMS/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'cliqueMS'
finding HTML links ... done
anClique-class html
anClique html
cliqueMS html
computeCliques html
createNetwork html
createanClique html
ex.cliqueGroups html
getAnnotation html
getCliques html
getIsotopes html
negative.adinfo html
positive.adinfo 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 'cliqueMS' ...
** 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:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -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:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c findAnnotationR.cpp -o findAnnotationR.o
In file included from findAnnotationR.cpp:1:
annotationCliqueMSR.h: In function 'std::vector<std::pair<double, double> > sortMass(annotData&, int, std::unordered_map<double, std::pair<double, double> >, int)':
annotationCliqueMSR.h:440:11: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::pair<double, double> >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
if(id < allM.size()) // not add more masses in case that for that feature are less than "n" top masses
~~~^~~~~~~~~~~~~
annotationCliqueMSR.h: In function 'std::unordered_set<double> getTopScoringMasses(annotData&, int, rawadList, int, int, double)':
annotationCliqueMSR.h:476:11: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::pair<double, double> >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
if(id < allM.size()) // not add more masses in case that there are less than "n" top masses
~~~^~~~~~~~~~~~~
annotationCliqueMSR.h: In function 'std::vector<int> sortAnnotations(std::unordered_map<int, Annotation>&, int)':
annotationCliqueMSR.h:725:11: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::pair<double, int> >::size_type' {aka 'long long unsigned int'} [-Wsign-compare]
if(id < allAn.size() )
~~~^~~~~~~~~~~~~~
annotationCliqueMSR.h: In function 'double computeMaxScore(std::vector<double>&, int, double)':
annotationCliqueMSR.h:739:24: warning: 'completeroundscore' may be used uninitialized in this function [-Wmaybe-uninitialized]
completeroundscore += *ritv;
~~~~~~~~~~~~~~~~~~~^~~~~~~~
"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:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c findCliquesR.cpp -o findCliquesR.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:/Users/biocbuild/bbs-3.11-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c findIsotopesR.cpp -o findIsotopesR.o
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o cliqueMS.dll tmp.def RcppExports.o findAnnotationR.o findCliquesR.o findIsotopesR.o -fopenmp -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -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/cliqueMS.buildbin-libdir/cliqueMS/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'cliqueMS' as cliqueMS_1.2.1.zip
* DONE (cliqueMS)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'cliqueMS' successfully unpacked and MD5 sums checked