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BioC 3.4: INSTALL report for Rhtslib on moscato1

This page was generated on 2016-09-21 03:46:50 -0700 (Wed, 21 Sep 2016).

Package 1018/1257HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rhtslib 1.5.4
Bioconductor Package Maintainer
Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Rhtslib
Last Changed Rev: 119330 / Revision: 121152
Last Changed Date: 2016-07-12 14:42:14 -0700 (Tue, 12 Jul 2016)
zin1 Linux (Ubuntu 16.04 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64 [ 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: 1.5.4
Command: rm -rf Rhtslib.buildbin-libdir && mkdir Rhtslib.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.4/bioc/src/contrib/Rhtslib_1.5.4.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --library=Rhtslib.buildbin-libdir --merge-multiarch Rhtslib_1.5.4.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL Rhtslib_1.5.4.zip && rm Rhtslib_1.5.4.tar.gz Rhtslib_1.5.4.zip
StartedAt: 2016-09-19 20:38:20 -0700 (Mon, 19 Sep 2016)
EndedAt: 2016-09-19 20:38:55 -0700 (Mon, 19 Sep 2016)
EllapsedTime: 34.3 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf Rhtslib.buildbin-libdir && mkdir Rhtslib.buildbin-libdir  && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.4/bioc/src/contrib/Rhtslib_1.5.4.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --library=Rhtslib.buildbin-libdir --merge-multiarch Rhtslib_1.5.4.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL Rhtslib_1.5.4.zip  && rm Rhtslib_1.5.4.tar.gz Rhtslib_1.5.4.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 2552k  100 2552k    0     0  84.1M      0 --:--:-- --:--:-- --:--:-- 99.7M

install for i386

* installing *source* package 'Rhtslib' ...

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


** libs
cp "winlib/i386/libhts.a" "D:/biocbld/bbs-3.4-bioc/meat/Rhtslib.buildbin-libdir/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/kfunc.h ./htslib/htslib/khash.h ./htslib/htslib/khash_str2int.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 ""D:/biocbld/bbs-3.4-bioc/meat/Rhtslib.buildbin-libdir/Rhtslib/include""
C:/Rtools/mingw_32/bin/gcc  -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"D:/biocbld/bbs-3.4-bioc/R/library/zlibbioc/include" -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c Rhtslib.c -o Rhtslib.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o Rhtslib.dll tmp.def Rhtslib.o -Lc:/local323/lib/i386 -Lc:/local323/lib -LD:/biocbld/BBS-3˜1.4-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-3.4-bioc/meat/Rhtslib.buildbin-libdir/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 *source* package 'Rhtslib' ...

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


** libs
cp "winlib/x64/libhts.a" "D:/biocbld/bbs-3.4-bioc/meat/Rhtslib.buildbin-libdir/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/kfunc.h ./htslib/htslib/khash.h ./htslib/htslib/khash_str2int.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 ""D:/biocbld/bbs-3.4-bioc/meat/Rhtslib.buildbin-libdir/Rhtslib/include""
C:/Rtools/mingw_64/bin/gcc  -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG    -I"D:/biocbld/bbs-3.4-bioc/R/library/zlibbioc/include" -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c Rhtslib.c -o Rhtslib.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o Rhtslib.dll tmp.def Rhtslib.o -Lc:/local323/lib/x64 -Lc:/local323/lib -LD:/biocbld/BBS-3˜1.4-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-3.4-bioc/meat/Rhtslib.buildbin-libdir/Rhtslib/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Rhtslib' as Rhtslib_1.5.4.zip
* DONE (Rhtslib)
* installing to library 'D:/biocbld/bbs-3.4-bioc/R/library'
package 'Rhtslib' successfully unpacked and MD5 sums checked