Meena Choi
| Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021) |
| git_url: https://git.bioconductor.org/packages/MSstats |
| git_branch: RELEASE_3_13 |
| git_last_commit: afa9e58 |
| git_last_commit_date: 2021-05-31 23:11:01 -0400 (Mon, 31 May 2021) |
| Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:06:13 -0400 (Fri, 15 Oct 2021).
|
To the developers/maintainers of the MSstats package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MSstats.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1208/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| MSstats 4.0.1 (landing page) Meena Choi
| nebbiolo1 | Linux (Ubuntu 20.04.2 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: MSstats |
| Version: 4.0.1 |
| Command: C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/MSstats_4.0.1.tar.gz && rm -rf MSstats.buildbin-libdir && mkdir MSstats.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MSstats.buildbin-libdir MSstats_4.0.1.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL MSstats_4.0.1.zip && rm MSstats_4.0.1.tar.gz MSstats_4.0.1.zip |
| StartedAt: 2021-10-14 08:28:55 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 08:30:53 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 118.3 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/MSstats_4.0.1.tar.gz && rm -rf MSstats.buildbin-libdir && mkdir MSstats.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MSstats.buildbin-libdir MSstats_4.0.1.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL MSstats_4.0.1.zip && rm MSstats_4.0.1.tar.gz MSstats_4.0.1.zip
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install for i386
* installing *source* package 'MSstats' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I"c:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c common.cpp -o common.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I"c:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c comparison_contrasts.cpp -o comparison_contrasts.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I"c:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c linear_summary.cpp -o linear_summary.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I"c:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c median_polish.cpp -o median_polish.o
C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o MSstats.dll tmp.def RcppExports.o common.o comparison_contrasts.o linear_summary.o median_polish.o -fopenmp -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -Lc:/extsoft/lib/i386 -Lc:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/MSstats.buildbin-libdir/00LOCK-MSstats/00new/MSstats/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 'MSstats'
finding HTML links ... done
DDARawData html
DDARawData.Skyline html
DIARawData html
DIAUmpiretoMSstatsFormat html
MSstatsContrastMatrix html
MSstatsGroupComparison html
MSstatsGroupComparisonOutput html
MSstatsGroupComparisonSingleProtein html
MSstatsHandleMissing html
MSstatsMergeFractions html
MSstatsNormalize html
MSstatsPrepareForDataProcess html
MSstatsPrepareForGroupComparison html
MSstatsPrepareForSummarization html
MSstatsSelectFeatures html
MSstatsSummarizationOutput html
MSstatsSummarize html
MSstatsSummarizeSingleLinear html
MSstatsSummarizeSingleTMP html
MaxQtoMSstatsFormat html
OpenMStoMSstatsFormat html
OpenSWATHtoMSstatsFormat html
PDtoMSstatsFormat html
ProgenesistoMSstatsFormat html
SRMRawData html
SkylinetoMSstatsFormat html
SpectronauttoMSstatsFormat html
checkRepeatedDesign html
dataProcess html
dataProcessPlots html
designSampleSize html
designSampleSizePlots html
dot-addCoverageInfo html
dot-addModelInformation html
dot-addModelVariances html
dot-addNInformativeInfo html
dot-addNoisyFlag html
dot-addOutlierCutoff html
dot-addOutlierInformation html
dot-addSurvivalPredictions html
dot-adjustLRuns html
dot-calculateOutlierCutoff html
dot-calculatePower html
dot-calculateProteinVariance html
dot-checkContrastMatrix html
dot-checkDataProcessParams html
dot-checkExperimentDesign html
dot-checkGCPlotsInput html
dot-checkGroupComparisonInput html
dot-checkSingleFeature html
dot-checkSingleLabelProteins html
dot-checkSingleSubject html
dot-checkTechReplicate html
dot-checkUnProcessedDataValidity html
dot-countInformative html
dot-countMissingPercentage html
dot-documentFunction html
dot-finalizeInput html
dot-finalizeLinear html
dot-finalizeTMP html
dot-fitHuber html
dot-fitLinearModel html
dot-fitModelForGroupComparison html
dot-fitModelSingleProtein html
dot-fitTukey html
dot-flagLowCoverage html
dot-flagUninformativeSingleLabel html
dot-getAllComparisons html
dot-getContrast html
dot-getContrastLabels html
dot-getEmptyComparison html
dot-getFeatureVariances html
dot-getMedian html
dot-getMedianSigmaSubject html
dot-getMin html
dot-getModelParameters html
dot-getNonMissingFilter html
dot-getNonMissingFilterStats html
dot-getNumSample html
dot-getSingleProteinForProfile html
dot-getVarComponent html
dot-getWideTable html
dot-getYaxis html
dot-handleEmptyConditions html
dot-handleSingleContrast html
dot-isSummarizable html
dot-logDatasetInformation html
dot-logMissingness html
dot-logSingleLabeledProteins html
dot-logSummaryStatistics html
dot-makeComparison html
dot-makeConditionPlot html
dot-makeFactorColumns html
dot-makeHeatmap html
dot-makeProfilePlot html
dot-makeQCPlot html
dot-makeSummaryProfilePlot html
dot-makeVolcano html
dot-nicePrint html
dot-normalizeGlobalStandards html
dot-normalizeMedian html
dot-normalizeQuantile html
dot-onLoad html
dot-plotComparison html
dot-plotHeatmap html
dot-plotVolcano html
dot-preProcessIntensities html
dot-prepareForDataProcess html
dot-prepareLinear html
dot-prepareSingleProteinForGC html
dot-prepareSummary html
dot-prepareTMP html
dot-quantileNormalizationSingleLabel html
dot-replaceZerosWithNA html
dot-runTukey html
dot-saveSessionInfo html
dot-saveTable html
dot-selectHighQualityFeatures html
dot-selectTopFeatures html
dot-setCensoredByThreshold html
dot-updateColumnsForProcessing html
dot-updateUnequalVariances html
getProcessed html
getSamplesInfo html
getSelectedProteins html
groupComparison html
groupComparisonPlots html
makePeptidesDictionary html
modelBasedQCPlots html
quantification html
savePlot html
theme_msstats 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 'MSstats' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-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-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c common.cpp -o common.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c comparison_contrasts.cpp -o comparison_contrasts.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c linear_summary.cpp -o linear_summary.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.13-bioc/R/library/RcppArmadillo/include' -I"C:/extsoft/include" -fopenmp -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c median_polish.cpp -o median_polish.o
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o MSstats.dll tmp.def RcppExports.o common.o comparison_contrasts.o linear_summary.o median_polish.o -fopenmp -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/MSstats.buildbin-libdir/MSstats/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MSstats' as MSstats_4.0.1.zip
* DONE (MSstats)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'MSstats' successfully unpacked and MD5 sums checked