| Back to Multiple platform build/check report for BioC 3.15 |
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This page was generated on 2022-03-18 11:07:33 -0400 (Fri, 18 Mar 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
| 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 | ||||
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To the developers/maintainers of the GBScleanR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GBScleanR.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 704/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GBScleanR 0.99.35 (landing page) Tomoyuki Furuta
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | ERROR | |||||||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | ERROR | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | ERROR | OK | |||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | ERROR | OK | |||||||||
| Package: GBScleanR |
| Version: 0.99.35 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL GBScleanR |
| StartedAt: 2022-03-17 15:59:50 -0400 (Thu, 17 Mar 2022) |
| EndedAt: 2022-03-17 16:00:57 -0400 (Thu, 17 Mar 2022) |
| EllapsedTime: 67.3 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL GBScleanR
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* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'GBScleanR' ...
** using staged installation
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I'D:/biocbuild/bbs-3.15-bioc/R/library/Rcpp/include' -I'D:/biocbuild/bbs-3.15-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition -c GBSR_HMM.cpp -o GBSR_HMM.o
GBSR_HMM.cpp: In function 'std::vector<double> calcGenoprob(const double&, const double&, const double&, const double&, const double&, const double&, const int&)':
GBSR_HMM.cpp:206:16: warning: 'sum_prob' may be used uninitialized in this function [-Wmaybe-uninitialized]
sum_prob += prob[g];
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I'D:/biocbuild/bbs-3.15-bioc/R/library/Rcpp/include' -I'D:/biocbuild/bbs-3.15-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition -c RcppExports.cpp -o RcppExports.o
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o GBScleanR.dll tmp.def GBSR_HMM.o RcppExports.o -LD:/biocbuild/bbs-3.15-bioc/R/library/RcppParallel/lib/x64 -ltbb -ltbbmalloc -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lR
installing to D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-GBScleanR/00new/GBScleanR/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'GBScleanR'
finding HTML links ... done
GBScleanR html
GbsrGenotypeData-class html
finding level-2 HTML links ... done
GbsrScheme-class html
addScan html
addScheme html
boxplotGBSR html
calcReadStats html
closeGDS html
countGenotype html
countRead html
estGeno html
gbsrGDS2CSV html
gbsrGDS2VCF html
gbsrVCF2GDS html
getAlleleA html
getAlleleB html
getChromosome html
getCountAlleleAlt html
getCountAlleleMissing html
getCountAlleleRef html
getCountGenoAlt html
getCountGenoHet html
getCountGenoMissing html
getCountGenoRef html
getCountRead html
getCountReadAlt html
getCountReadRef html
getFlipped html
getGenotype html
getHaplotype html
getInfo html
getMAC html
getMAF html
getMeanReadAlt html
getMeanReadRef html
getParents html
getPloidy html
getPosition html
getQtileReadAlt html
getQtileReadRef html
getRead html
getSDReadAlt html
getSDReadRef html
getScanID html
getSnpID html
getValidScan html
getValidSnp html
hasFlipped html
histGBSR html
initScheme html
isOpenGDS html
loadGDS html
loadScanAnnot html
loadSnpAnnot html
nscan html
nsnp html
openGDS html
pairsGBSR html
plotDosage html
plotGBSR html
plotReadRatio html
resetFilters html
resetScanFilters html
resetSnpFilters html
saveScanAnnot html
saveSnpAnnot html
setCallFilter html
setFiltGenotype html
setInfoFilter html
setParents html
setRawGenotype html
setScanFilter html
setSnpFilter html
setValidScan html
setValidSnp html
showScheme html
subsetGDS html
thinMarker 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
* DONE (GBScleanR)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
DESCRIPTION file of package 'staRank' is missing or broken
done