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BioC 3.2: INSTALL report for VariantFiltering on windows1.bioconductor.org

This page was generated on 2015-10-27 17:31:11 -0400 (Tue, 27 Oct 2015).

Package 1083/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
VariantFiltering 1.6.1
Robert Castelo
Snapshot Date: 2015-10-26 19:24:07 -0400 (Mon, 26 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/VariantFiltering
Last Changed Rev: 109791 / Revision: 109947
Last Changed Date: 2015-10-20 08:52:25 -0400 (Tue, 20 Oct 2015)
linux1.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
windows1.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: VariantFiltering
Version: 1.6.1
Command: C:\cygwin64\bin\curl.exe -O http://linux1.bioconductor.org/BBS/3.2/bioc/src/contrib/VariantFiltering_1.6.1.tar.gz && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch VariantFiltering_1.6.1.tar.gz && rm VariantFiltering_1.6.1.tar.gz
StartedAt: 2015-10-26 20:16:06 -0400 (Mon, 26 Oct 2015)
EndedAt: 2015-10-26 20:16:41 -0400 (Mon, 26 Oct 2015)
EllapsedTime: 35.3 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin64\bin\curl.exe -O http://linux1.bioconductor.org/BBS/3.2/bioc/src/contrib/VariantFiltering_1.6.1.tar.gz && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch VariantFiltering_1.6.1.tar.gz && rm VariantFiltering_1.6.1.tar.gz
###
##############################################################################
##############################################################################


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100 2896k  100 2896k    0     0  38.3M      0 --:--:-- --:--:-- --:--:--  141M

install for i386

* installing to library 'C:/biocbld/bbs-3.2-bioc/R/library'
* installing *source* package 'VariantFiltering' ...
** libs
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG    -I"C:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c Biostrings_stubs.c -o Biostrings_stubs.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG    -I"C:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_init_VariantFiltering.c -o R_init_VariantFiltering.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG    -I"C:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c methods-WeightMatrix.c -o methods-WeightMatrix.o
methods-WeightMatrix.c: In function 'scoss_wm_score_DNAStringSet':
methods-WeightMatrix.c:123:23: warning: unused variable 'k' [-Wunused-variable]
gcc -m32 -shared -s -static-libgcc -o VariantFiltering.dll tmp.def Biostrings_stubs.o R_init_VariantFiltering.o methods-WeightMatrix.o -Ld:/RCompile/r-compiling/local/local320/lib/i386 -Ld:/RCompile/r-compiling/local/local320/lib -LC:/biocbld/BBS-3˜1.2-B/R/bin/i386 -lR
installing to C:/biocbld/bbs-3.2-bioc/R/library/VariantFiltering/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing to library 'C:/biocbld/bbs-3.2-bioc/R/library'
* installing *source* package 'VariantFiltering' ...
** libs
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG    -I"C:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c Biostrings_stubs.c -o Biostrings_stubs.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG    -I"C:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_init_VariantFiltering.c -o R_init_VariantFiltering.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG    -I"C:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"C:/biocbld/bbs-3.2-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c methods-WeightMatrix.c -o methods-WeightMatrix.o
methods-WeightMatrix.c: In function 'scoss_wm_score_DNAStringSet':
methods-WeightMatrix.c:123:23: warning: unused variable 'k' [-Wunused-variable]
gcc -m64 -shared -s -static-libgcc -o VariantFiltering.dll tmp.def Biostrings_stubs.o R_init_VariantFiltering.o methods-WeightMatrix.o -Ld:/RCompile/r-compiling/local/local320/lib/x64 -Ld:/RCompile/r-compiling/local/local320/lib -LC:/biocbld/BBS-3˜1.2-B/R/bin/x64 -lR
installing to C:/biocbld/bbs-3.2-bioc/R/library/VariantFiltering/libs/x64
** testing if installed package can be loaded
* DONE (VariantFiltering)