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BioC 3.1: INSTALL report for Rhtslib on moscato2

This page was generated on 2015-10-09 09:32:05 -0700 (Fri, 09 Oct 2015).

Package 820/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rhtslib 1.0.0
Nathaniel Hayden
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/Rhtslib
Last Changed Rev: 102591 / Revision: 109384
Last Changed Date: 2015-04-16 12:42:01 -0700 (Thu, 16 Apr 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: Rhtslib
Version: 1.0.0
Command: C:\cygwin\bin\curl.exe -O http://zin2/BBS/3.1/bioc/src/contrib/Rhtslib_1.0.0.tar.gz && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch Rhtslib_1.0.0.tar.gz && rm Rhtslib_1.0.0.tar.gz
StartedAt: 2015-10-08 18:20:54 -0700 (Thu, 08 Oct 2015)
EndedAt: 2015-10-08 18:22:13 -0700 (Thu, 08 Oct 2015)
EllapsedTime: 79.5 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://zin2/BBS/3.1/bioc/src/contrib/Rhtslib_1.0.0.tar.gz && E:\biocbld\bbs-3.1-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch Rhtslib_1.0.0.tar.gz && rm Rhtslib_1.0.0.tar.gz
###
##############################################################################
##############################################################################




install for i386

* installing to library 'E:/biocbld/bbs-3.1-bioc/R/library'
* installing *source* package 'Rhtslib' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
cp "winlib/i386/libhts.a" "E:/biocbld/bbs-3.1-bioc/R/library/Rhtslib/lib/i386"/libhts.a
cp ./htslib/htslib/bgzf.h ./htslib/htslib/faidx.h ./htslib/htslib/hfile.h ./htslib/htslib/hts.h ./htslib/htslib/hts_defs.h ./htslib/htslib/khash.h ./htslib/htslib/klist.h ./htslib/htslib/knetfile.h ./htslib/htslib/kseq.h ./htslib/htslib/ksort.h ./htslib/htslib/kstring.h ./htslib/htslib/regidx.h ./htslib/htslib/sam.h ./htslib/htslib/synced_bcf_reader.h ./htslib/htslib/tbx.h ./htslib/htslib/vcf.h ./htslib/htslib/vcf_sweep.h ./htslib/htslib/vcfutils.h ""E:/biocbld/bbs-3.1-bioc/R/library/Rhtslib/include""
gcc -m32 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/zlibbioc/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c Rhtslib.c -o Rhtslib.o
gcc -m32 -shared -s -static-libgcc -o Rhtslib.dll tmp.def Rhtslib.o -Ld:/RCompile/r-compiling/local/local320/lib/i386 -Ld:/RCompile/r-compiling/local/local320/lib -LE:/biocbld/BBS-3˜1.1-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-3.1-bioc/R/library/Rhtslib/libs/i386
** R
** 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 'E:/biocbld/bbs-3.1-bioc/R/library'
* installing *source* package 'Rhtslib' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
cp "winlib/x64/libhts.a" "E:/biocbld/bbs-3.1-bioc/R/library/Rhtslib/lib/x64"/libhts.a
cp ./htslib/htslib/bgzf.h ./htslib/htslib/faidx.h ./htslib/htslib/hfile.h ./htslib/htslib/hts.h ./htslib/htslib/hts_defs.h ./htslib/htslib/khash.h ./htslib/htslib/klist.h ./htslib/htslib/knetfile.h ./htslib/htslib/kseq.h ./htslib/htslib/ksort.h ./htslib/htslib/kstring.h ./htslib/htslib/regidx.h ./htslib/htslib/sam.h ./htslib/htslib/synced_bcf_reader.h ./htslib/htslib/tbx.h ./htslib/htslib/vcf.h ./htslib/htslib/vcf_sweep.h ./htslib/htslib/vcfutils.h ""E:/biocbld/bbs-3.1-bioc/R/library/Rhtslib/include""
gcc -m64 -I"E:/biocbld/BBS-3˜1.1-B/R/include" -DNDEBUG    -I"E:/biocbld/bbs-3.1-bioc/R/library/zlibbioc/include" -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c Rhtslib.c -o Rhtslib.o
gcc -m64 -shared -s -static-libgcc -o Rhtslib.dll tmp.def Rhtslib.o -Ld:/RCompile/r-compiling/local/local320/lib/x64 -Ld:/RCompile/r-compiling/local/local320/lib -LE:/biocbld/BBS-3˜1.1-B/R/bin/x64 -lR
installing to E:/biocbld/bbs-3.1-bioc/R/library/Rhtslib/libs/x64
** testing if installed package can be loaded
* DONE (Rhtslib)