Back to the "Multiple platform build/check report" A  B  C  D  E  F  G  H  I  J  K  L  M  N  O  P  Q  R [S] T  U  V  W  X  Y  Z 

Package 581/658HostnameOS / ArchBUILDCHECKBUILD BIN
ShortRead 1.17.10
Bioconductor Package Maintainer
Snapshot Date: 2013-03-24 17:01:43 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ShortRead
Last Changed Rev: 74409 / Revision: 74774
Last Changed Date: 2013-03-15 13:09:32 -0700 (Fri, 15 Mar 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK [ OK ]
petty Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: ShortRead
Version: 1.17.10
Command: rm -rf ShortRead.buildbin-libdir && mkdir ShortRead.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ShortRead.buildbin-libdir ShortRead_1.17.10.tar.gz
StartedAt: 2013-03-25 06:08:24 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 06:09:40 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 76.3 seconds
RetCode: 0
Status:  OK  
PackageFile: ShortRead_1.17.10.zip
PackageFileSize: 2.202 MiB

Command output


install for i386

* installing *source* package 'ShortRead' ...

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


** libs
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c Biostrings_stubs.c -o Biostrings_stubs.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c IRanges_stubs.c -o IRanges_stubs.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_init_ShortRead.c -o R_init_ShortRead.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c alphabet.c -o alphabet.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c io.c -o io.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c io_bowtie.c -o io_bowtie.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c io_soap.c -o io_soap.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c pileup.c -o pileup.o
g++ -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c readBfaToc.cc -o readBfaToc.o
g++ -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c read_maq_map.cc -o read_maq_map.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sampler.c -o sampler.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c trim.c -o trim.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c util.c -o util.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c xsnap.c -o xsnap.o
g++ -m32 -shared -s -static-libgcc -o ShortRead.dll tmp.def Biostrings_stubs.o IRanges_stubs.o R_init_ShortRead.o alphabet.o io.o io_bowtie.o io_soap.o pileup.o readBfaToc.o read_maq_map.o sampler.o trim.o util.o xsnap.o -LE:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/libs/i386 -lzlib1bioc -Ld:/RCompile/CRANpkg/extralibs64/local/lib/i386 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LE:/biocbld/BBS-2˜1.12-/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.12-bioc/meat/ShortRead.buildbin-libdir/ShortRead/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'Overview.Rnw' 
** testing if installed package can be loaded

install for x64

* installing *source* package 'ShortRead' ...

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


** libs
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c Biostrings_stubs.c -o Biostrings_stubs.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c IRanges_stubs.c -o IRanges_stubs.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_init_ShortRead.c -o R_init_ShortRead.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c alphabet.c -o alphabet.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c io.c -o io.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c io_bowtie.c -o io_bowtie.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c io_soap.c -o io_soap.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c pileup.c -o pileup.o
g++ -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c readBfaToc.cc -o readBfaToc.o
g++ -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c read_maq_map.cc -o read_maq_map.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sampler.c -o sampler.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c trim.c -o trim.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c util.c -o util.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG    -I"E:/biocbld/bbs-2.12-bioc/R/library/IRanges/include" -I"E:/biocbld/bbs-2.12-bioc/R/library/Biostrings/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c xsnap.c -o xsnap.o
g++ -m64 -shared -s -static-libgcc -o ShortRead.dll tmp.def Biostrings_stubs.o IRanges_stubs.o R_init_ShortRead.o alphabet.o io.o io_bowtie.o io_soap.o pileup.o readBfaToc.o read_maq_map.o sampler.o trim.o util.o xsnap.o -LE:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -Ld:/RCompile/CRANpkg/extralibs64/local/lib/x64 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LE:/biocbld/BBS-2˜1.12-/R/bin/x64 -lR
installing to E:/biocbld/bbs-2.12-bioc/meat/ShortRead.buildbin-libdir/ShortRead/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ShortRead' as ShortRead_1.17.10.zip
* DONE (ShortRead)