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

This page was generated on 2015-10-27 17:28:39 -0400 (Tue, 27 Oct 2015).

Package 967/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ShortRead 1.28.0
Bioconductor Package Maintainer
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/ShortRead
Last Changed Rev: 109589 / Revision: 109947
Last Changed Date: 2015-10-13 15:36:05 -0400 (Tue, 13 Oct 2015)
linux1.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
windows1.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: ShortRead
Version: 1.28.0
Command: C:\cygwin64\bin\curl.exe -O http://linux1.bioconductor.org/BBS/3.2/bioc/src/contrib/ShortRead_1.28.0.tar.gz && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch ShortRead_1.28.0.tar.gz && rm ShortRead_1.28.0.tar.gz
StartedAt: 2015-10-26 20:10:12 -0400 (Mon, 26 Oct 2015)
EndedAt: 2015-10-26 20:10:54 -0400 (Mon, 26 Oct 2015)
EllapsedTime: 41.7 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin64\bin\curl.exe -O http://linux1.bioconductor.org/BBS/3.2/bioc/src/contrib/ShortRead_1.28.0.tar.gz && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch ShortRead_1.28.0.tar.gz && rm ShortRead_1.28.0.tar.gz
###
##############################################################################
##############################################################################


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

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
  6 4888k    6  332k    0     0  31.5M      0 --:--:-- --:--:-- --:--:-- 64.8M
100 4888k  100 4888k    0     0   103M      0 --:--:-- --:--:-- --:--:--  116M

install for i386

* installing to library 'C:/biocbld/bbs-3.2-bioc/R/library'
* installing *source* package 'ShortRead' ...

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


** libs
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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-3.2-bioc/R/library/zlibbioc/include" -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 IRanges_stubs.c -o IRanges_stubs.o
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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_ShortRead.c -o R_init_ShortRead.o
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 XVector_stubs.c -o XVector_stubs.o
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 alphabet.c -o alphabet.o
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 io.c -o io.o
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 io_bowtie.c -o io_bowtie.o
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 io_soap.c -o io_soap.o
g++ -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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  -mtune=core2 -c readBfaToc.cc -o readBfaToc.o
readBfaToc.cc: In function 'SEXPREC* readBfaToc(SEXP)':
readBfaToc.cc:19:40: warning: variable 'status' set but not used [-Wunused-but-set-variable]
g++ -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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  -mtune=core2 -c read_maq_map.cc -o read_maq_map.o
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 sampler.c -o sampler.o
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 trim.c -o trim.o
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 util.c -o util.o
gcc -m32 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 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 S4Vectors_stubs.o XVector_stubs.o alphabet.o io.o io_bowtie.o io_soap.o readBfaToc.o read_maq_map.o sampler.o trim.o util.o xsnap.o -LC:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/libs/i386 -lzlib1bioc -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/ShortRead/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 'ShortRead' ...

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


** libs
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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-3.2-bioc/R/library/zlibbioc/include" -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 IRanges_stubs.c -o IRanges_stubs.o
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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_ShortRead.c -o R_init_ShortRead.o
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 XVector_stubs.c -o XVector_stubs.o
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 alphabet.c -o alphabet.o
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 io.c -o io.o
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 io_bowtie.c -o io_bowtie.o
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 io_soap.c -o io_soap.o
g++ -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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  -mtune=core2 -c readBfaToc.cc -o readBfaToc.o
readBfaToc.cc: In function 'SEXPREC* readBfaToc(SEXP)':
readBfaToc.cc:19:40: warning: variable 'status' set but not used [-Wunused-but-set-variable]
g++ -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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  -mtune=core2 -c read_maq_map.cc -o read_maq_map.o
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 sampler.c -o sampler.o
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 trim.c -o trim.o
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 util.c -o util.o
gcc -m64 -I"C:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -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 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 S4Vectors_stubs.o XVector_stubs.o alphabet.o io.o io_bowtie.o io_soap.o readBfaToc.o read_maq_map.o sampler.o trim.o util.o xsnap.o -LC:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -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/ShortRead/libs/x64
** testing if installed package can be loaded
* DONE (ShortRead)