Raffaele A Calogero
| Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021) |
| URL: https://git.bioconductor.org/packages/chimera |
| Branch: RELEASE_3_12 |
| Last Commit: a3c6b1f |
| Last Changed Date: 2020-10-27 10:49:26 -0400 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.12 |
|
This page was generated on 2021-05-06 12:30:12 -0400 (Thu, 06 May 2021).
|
To the developers/maintainers of the chimera package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 280/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Raffaele A Calogero
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | ERROR | skipped | skipped | |||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| Package: chimera |
| Version: 1.32.0 |
| Command: C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/chimera_1.32.0.tar.gz && rm -rf chimera.buildbin-libdir && mkdir chimera.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=chimera.buildbin-libdir chimera_1.32.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL chimera_1.32.0.zip && rm chimera_1.32.0.tar.gz chimera_1.32.0.zip |
| StartedAt: 2021-05-05 18:22:32 -0400 (Wed, 05 May 2021) |
| EndedAt: 2021-05-05 18:24:19 -0400 (Wed, 05 May 2021) |
| EllapsedTime: 107.5 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/chimera_1.32.0.tar.gz && rm -rf chimera.buildbin-libdir && mkdir chimera.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=chimera.buildbin-libdir chimera_1.32.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL chimera_1.32.0.zip && rm chimera_1.32.0.tar.gz chimera_1.32.0.zip
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0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
0 2016k 0 14355 0 0 35701 0 0:00:57 --:--:-- 0:00:57 35708
100 2016k 100 2016k 0 0 4227k 0 --:--:-- --:--:-- --:--:-- 4227k
install for i386
* installing *source* package 'chimera' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c StarParser.cpp -o StarParser.o
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o chimera.dll tmp.def StarParser.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/chimera.buildbin-libdir/00LOCK-chimera/00new/chimera/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'chimera'
finding HTML links ... done
MHmakeRandomString html
bam2fastq html
breakpointOverlaps html
chimera-package html
chimeraSeqSet html
chimeraSeqs html
class.fSet html
defuseTPTN html
filterList html
filterSamReads html
fusionName html
fusionPeptides html
gapfillerInstallation html
gapfillerRun html
gapfillerWrap html
importFusionData html
is.fSet html
newfSet html
oncofuseInstallation html
oncofuseRun html
picardInstallation html
plotCoverage html
prettyPrint html
removingErrorLine html
starInstallation html
starReads html
starRun html
subreadRun html
supportingReads html
tophatInstallation html
tophatRun html
validateSamFile html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: Package 'chimera' is deprecated and will be removed from Bioconductor
version 3.13
** testing if installed package can be loaded from final location
Warning: Package 'chimera' is deprecated and will be removed from Bioconductor
version 3.13
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'chimera' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c StarParser.cpp -o StarParser.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o chimera.dll tmp.def StarParser.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/chimera.buildbin-libdir/chimera/libs/x64
** testing if installed package can be loaded
Warning: Package 'chimera' is deprecated and will be removed from Bioconductor
version 3.13
* MD5 sums
packaged installation of 'chimera' as chimera_1.32.0.zip
* DONE (chimera)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'chimera' successfully unpacked and MD5 sums checked