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BioC 3.3: INSTALL report for rSFFreader on windows2.bioconductor.org

This page was generated on 2015-10-27 12:15:08 -0400 (Tue, 27 Oct 2015).

Package 918/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
rSFFreader 0.19.0
Matt Settles
Snapshot Date: 2015-10-26 20:20:04 -0400 (Mon, 26 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/rSFFreader
Last Changed Rev: 109592 / Revision: 109948
Last Changed Date: 2015-10-13 15:59:53 -0400 (Tue, 13 Oct 2015)
linux2.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
windows2.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 [ OK ] ERROR  skipped  skipped 

Summary

Package: rSFFreader
Version: 0.19.0
Command: C:\cygwin64\bin\curl.exe -O http://linux2.bioconductor.org/BBS/3.3/bioc/src/contrib/rSFFreader_0.19.0.tar.gz && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch rSFFreader_0.19.0.tar.gz && rm rSFFreader_0.19.0.tar.gz
StartedAt: 2015-10-26 21:11:18 -0400 (Mon, 26 Oct 2015)
EndedAt: 2015-10-26 21:11:40 -0400 (Mon, 26 Oct 2015)
EllapsedTime: 21.8 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
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###
### Running command:
###
###   C:\cygwin64\bin\curl.exe -O http://linux2.bioconductor.org/BBS/3.3/bioc/src/contrib/rSFFreader_0.19.0.tar.gz && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch rSFFreader_0.19.0.tar.gz && rm rSFFreader_0.19.0.tar.gz
###
##############################################################################
##############################################################################


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100 4175k  100 4175k    0     0   158M      0 --:--:-- --:--:-- --:--:--  185M

install for i386

* installing to library 'c:/biocbld/bbs-3.3-bioc/R/library'
* installing *source* package 'rSFFreader' ...
** libs
gcc -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-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˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c IRanges_stubs.c -o IRanges_stubs.o
gcc -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_init_rSFFreader.c -o R_init_rSFFreader.o
gcc -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c SFF-io.c -o SFF-io.o
gcc -m32 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c XVector_stubs.c -o XVector_stubs.o
gcc -m32 -shared -s -static-libgcc -o rSFFreader.dll tmp.def Biostrings_stubs.o IRanges_stubs.o R_init_rSFFreader.o S4Vectors_stubs.o SFF-io.o XVector_stubs.o -lws2_32 -Ld:/RCompile/r-compiling/local/local320/lib/i386 -Ld:/RCompile/r-compiling/local/local320/lib -Lc:/biocbld/BBS-3˜1.3-B/R/bin/i386 -lR
installing to c:/biocbld/bbs-3.3-bioc/R/library/rSFFreader/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-3.3-bioc/R/library'
* installing *source* package 'rSFFreader' ...
** libs
gcc -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-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˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c IRanges_stubs.c -o IRanges_stubs.o
gcc -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_init_rSFFreader.c -o R_init_rSFFreader.o
gcc -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c SFF-io.c -o SFF-io.o
gcc -m64 -I"c:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG    -I"c:/biocbld/bbs-3.3-bioc/R/library/S4Vectors/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/IRanges/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/XVector/include" -I"c:/biocbld/bbs-3.3-bioc/R/library/Biostrings/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c XVector_stubs.c -o XVector_stubs.o
gcc -m64 -shared -s -static-libgcc -o rSFFreader.dll tmp.def Biostrings_stubs.o IRanges_stubs.o R_init_rSFFreader.o S4Vectors_stubs.o SFF-io.o XVector_stubs.o -lws2_32 -Ld:/RCompile/r-compiling/local/local320/lib/x64 -Ld:/RCompile/r-compiling/local/local320/lib -Lc:/biocbld/BBS-3˜1.3-B/R/bin/x64 -lR
installing to c:/biocbld/bbs-3.3-bioc/R/library/rSFFreader/libs/x64
** testing if installed package can be loaded
* DONE (rSFFreader)