Benilton S Carvalho
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/crlmm |
| Branch: RELEASE_3_7 |
| Last Commit: cc1a98e |
| Last Changed Date: 2018-04-30 10:35:10 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:34:13 -0400 (Wed, 17 Oct 2018).
| Package 324/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| crlmm 1.38.0 Benilton S Carvalho
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | WARNINGS | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: crlmm |
| Version: 1.38.0 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/crlmm_1.38.0.tar.gz && rm -rf crlmm.buildbin-libdir && mkdir crlmm.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=crlmm.buildbin-libdir crlmm_1.38.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL crlmm_1.38.0.zip && rm crlmm_1.38.0.tar.gz crlmm_1.38.0.zip |
| StartedAt: 2018-10-16 19:45:18 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 19:47:15 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 117.1 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/3.7/bioc/src/contrib/crlmm_1.38.0.tar.gz && rm -rf crlmm.buildbin-libdir && mkdir crlmm.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=crlmm.buildbin-libdir crlmm_1.38.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL crlmm_1.38.0.zip && rm crlmm_1.38.0.tar.gz crlmm_1.38.0.zip
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install for i386
* installing *source* package 'crlmm' ...
** libs
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/preprocessCore/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c gtypeCaller.c -o gtypeCaller.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/preprocessCore/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c init.c -o init.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/preprocessCore/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c trimmed.c -o trimmed.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/preprocessCore/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c utils.c -o utils.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o crlmm.dll tmp.def gtypeCaller.o init.o trimmed.o utils.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/crlmm.buildbin-libdir/crlmm/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'crlmm'
finding HTML links ... done
ABpanel html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpS6EBVZ/R.INSTALL1ca8656bd0e/crlmm/man/ABpanel.Rd:57: file link 'lpolygon' in package 'lattice' does not exist and so has been treated as a topic
AssayData-methods html
finding level-2 HTML links ... done
CNSet-methods html
ListClassConstructors html
PredictionRegion-class html
batchStatisticAccessors html
calculateRBaf html
celfile-utils html
cnSetExample html
cnrmaAffy html
constructAffyCNSet html
constructInf html
copynumberAccessors html
crlmm-package html
crlmm html
crlmmCopynumber html
genotype.Illumina html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpS6EBVZ/R.INSTALL1ca8656bd0e/crlmm/man/genotype.Illumina.Rd:148: file link 'ocSamples' in package 'oligoClasses' does not exist and so has been treated as a topic
genotype html
Rd warning: C:/Users/biocbuild/bbs-3.7-bioc/tmpdir/RtmpS6EBVZ/R.INSTALL1ca8656bd0e/crlmm/man/genotype.Rd:88: file link 'ocSamples' in package 'oligoClasses' does not exist and so has been treated as a topic
genotypeAffy html
genotypeInf html
genotypes html
plotSNPs html
posteriorProbability html
predictionRegion html
preprocessInf html
readGenCallOutput html
readIdatFiles html
snprma html
snprmaAffy html
validCdfNames html
xyplot html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'crlmm' ...
** libs
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/preprocessCore/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c gtypeCaller.c -o gtypeCaller.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/preprocessCore/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c init.c -o init.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/preprocessCore/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c trimmed.c -o trimmed.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.7-bioc/R/library/preprocessCore/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c utils.c -o utils.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o crlmm.dll tmp.def gtypeCaller.o init.o trimmed.o utils.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/crlmm.buildbin-libdir/crlmm/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'crlmm' as crlmm_1.38.0.zip
* DONE (crlmm)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'crlmm' successfully unpacked and MD5 sums checked
In R CMD INSTALL