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BioC 2.12: BUILD BIN report for TransView on moscato2

This page was generated on 2013-10-09 09:39:13 -0700 (Wed, 09 Oct 2013).

Package 641/671HostnameOS / ArchBUILDCHECKBUILD BIN
TransView 1.4.5
Julius Muller
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/TransView
Last Changed Rev: 79288 / Revision: 81334
Last Changed Date: 2013-08-07 04:03:44 -0700 (Wed, 07 Aug 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 Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: TransView
Version: 1.4.5
Command: rm -rf TransView.buildbin-libdir && mkdir TransView.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=TransView.buildbin-libdir TransView_1.4.5.tar.gz
StartedAt: 2013-10-09 05:32:49 -0700 (Wed, 09 Oct 2013)
EndedAt: 2013-10-09 05:33:46 -0700 (Wed, 09 Oct 2013)
EllapsedTime: 57.0 seconds
RetCode: 0
Status:  OK  
PackageFile: TransView_1.4.5.zip
PackageFileSize: 1.779 MiB

Command output


install for i386

* installing *source* package 'TransView' ...
** libs
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_init_TransView.c -o R_init_TransView.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c bin_density.c -o bin_density.o
bin_density.c: In function 'vect_max':
bin_density.c:32:6: warning: unused variable 'msum' [-Wunused-variable]
bin_density.c: In function 'shrink':
bin_density.c:102:11: warning: unused variable 'mpos' [-Wunused-variable]
bin_density.c:102:6: warning: unused variable 'msum' [-Wunused-variable]
bin_density.c: In function 'vect_max_dble':
bin_density.c:153:9: warning: unused variable 'msum' [-Wunused-variable]
bin_density.c: In function 'shrink_dble':
bin_density.c:224:11: warning: unused variable 'mpos' [-Wunused-variable]
bin_density.c:224:6: warning: unused variable 'msum' [-Wunused-variable]
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c construct_dc.c -o construct_dc.o
construct_dc.c: In function 'write_density':
construct_dc.c:236:20: warning: operation on 'cs.min_scorespace' may be undefined [-Wsequence-point]
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c parse_sam.c -o parse_sam.o
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c slice_dc.c -o slice_dc.o
slice_dc.c: In function 'slice_dc':
slice_dc.c:184:11: warning: 'slicep' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c visuals.c -o visuals.o
gcc -m32 -shared -s -static-libgcc -o TransView.dll tmp.def R_init_TransView.o bin_density.o construct_dc.o parse_sam.o slice_dc.o visuals.o E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/usrlib/i386/libbam.a -lws2_32 -pthread -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/TransView.buildbin-libdir/TransView/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 *source* package 'TransView' ...
** libs
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_init_TransView.c -o R_init_TransView.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c bin_density.c -o bin_density.o
bin_density.c: In function 'vect_max':
bin_density.c:32:6: warning: unused variable 'msum' [-Wunused-variable]
bin_density.c: In function 'shrink':
bin_density.c:102:11: warning: unused variable 'mpos' [-Wunused-variable]
bin_density.c:102:6: warning: unused variable 'msum' [-Wunused-variable]
bin_density.c: In function 'vect_max_dble':
bin_density.c:153:9: warning: unused variable 'msum' [-Wunused-variable]
bin_density.c: In function 'shrink_dble':
bin_density.c:224:11: warning: unused variable 'mpos' [-Wunused-variable]
bin_density.c:224:6: warning: unused variable 'msum' [-Wunused-variable]
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c construct_dc.c -o construct_dc.o
construct_dc.c: In function 'write_density':
construct_dc.c:236:20: warning: operation on 'cs.min_scorespace' may be undefined [-Wsequence-point]
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c parse_sam.c -o parse_sam.o
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c slice_dc.c -o slice_dc.o
slice_dc.c: In function 'slice_dc':
slice_dc.c:184:11: warning: 'slicep' may be used uninitialized in this function [-Wuninitialized]
gcc -m64 -I"E:/biocbld/bbs-2.12-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.12-/R/include" -DNDEBUG -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE   -I"E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c visuals.c -o visuals.o
gcc -m64 -shared -s -static-libgcc -o TransView.dll tmp.def R_init_TransView.o bin_density.o construct_dc.o parse_sam.o slice_dc.o visuals.o E:/biocbld/bbs-2.12-bioc/R/library/Rsamtools/usrlib/x64/libbam.a -lws2_32 -pthread -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/TransView.buildbin-libdir/TransView/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'TransView' as TransView_1.4.5.zip
* DONE (TransView)