| Back to Multiple platform build/check report for BioC 3.17: simplified long |
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This page was generated on 2023-10-16 11:36:01 -0400 (Mon, 16 Oct 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4626 |
| palomino3 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4379 |
| merida1 | macOS 12.6.4 Monterey | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4395 |
| 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 | ||||
| Package 358/2230 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| cliqueMS 1.14.1 (landing page) Oriol Senan Campos
| nebbiolo1 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.6.4 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson2 | macOS 12.6.1 Monterey / arm64 | see weekly results here | ||||||||||||
|
To the developers/maintainers of the cliqueMS package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/cliqueMS.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: cliqueMS |
| Version: 1.14.1 |
| Command: rm -rf cliqueMS.buildbin-libdir && mkdir cliqueMS.buildbin-libdir && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL --build --library=cliqueMS.buildbin-libdir cliqueMS_1.14.1.tar.gz |
| StartedAt: 2023-10-16 08:35:35 -0400 (Mon, 16 Oct 2023) |
| EndedAt: 2023-10-16 08:36:56 -0400 (Mon, 16 Oct 2023) |
| EllapsedTime: 80.4 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: cliqueMS_1.14.1.zip |
| PackageFileSize: 1.303 MiB |
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### Running command:
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### rm -rf cliqueMS.buildbin-libdir && mkdir cliqueMS.buildbin-libdir && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL --build --library=cliqueMS.buildbin-libdir cliqueMS_1.14.1.tar.gz
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* installing *source* package 'cliqueMS' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 12.2.0'
using C++11
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include' -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include' -I"C:/rtools43/x86_64-w64-mingw32.static.posix/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]
440 | 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]
476 | 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]
725 | if(id < allAn.size() )
| ~~~^~~~~~~~~~~~~~
annotationCliqueMSR.h: In function 'double computeMaxScore(std::vector<double>&, int, double)':
annotationCliqueMSR.h:747:25: warning: 'completeroundscore' may be used uninitialized [-Wmaybe-uninitialized]
747 | score = (completeround*completeroundscore) + remainderroundscore + (completeround*newmass);
| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
annotationCliqueMSR.h:733:10: note: 'completeroundscore' was declared here
733 | double completeroundscore,remainderroundscore = 0;
| ^~~~~~~~~~~~~~~~~~
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include' -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c findCliquesR.cpp -o findCliquesR.o
g++ -std=gnu++11 -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'F:/biocbuild/bbs-3.17-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/BH/include' -I'F:/biocbuild/bbs-3.17-bioc/R/library/RcppArmadillo/include' -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c findIsotopesR.cpp -o findIsotopesR.o
g++ -shared -s -static-libgcc -o cliqueMS.dll tmp.def RcppExports.o findAnnotationR.o findCliquesR.o findIsotopesR.o -fopenmp -LF:/biocbuild/bbs-3.17-bioc/R/bin/x64 -lRlapack -LF:/biocbuild/bbs-3.17-bioc/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/rtools43/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools43/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.17-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.17-bioc/meat/cliqueMS.buildbin-libdir/00LOCK-cliqueMS/00new/cliqueMS/libs/x64
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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
* MD5 sums
packaged installation of 'cliqueMS' as cliqueMS_1.14.1.zip
* DONE (cliqueMS)