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BioC 3.3: INSTALL report for csaw on oaxaca

This page was generated on 2016-10-13 13:00:57 -0700 (Thu, 13 Oct 2016).

Package 261/1210HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
csaw 1.6.1
Aaron Lun
Snapshot Date: 2016-10-12 17:20:15 -0700 (Wed, 12 Oct 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_3/madman/Rpacks/csaw
Last Changed Rev: 117853 / Revision: 122332
Last Changed Date: 2016-05-25 11:12:49 -0700 (Wed, 25 May 2016)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: csaw
Version: 1.6.1
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL csaw
StartedAt: 2016-10-12 18:27:41 -0700 (Wed, 12 Oct 2016)
EndedAt: 2016-10-12 18:28:14 -0700 (Wed, 12 Oct 2016)
EllapsedTime: 33.1 seconds
RetCode: 0
Status:  OK 

Command output

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL csaw
###
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##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library’
* installing *source* package ‘csaw’ ...
** libs
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c annotator.cpp -o annotator.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c bam_utils.cpp -o bam_utils.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c best_in_cluster.cpp -o best_in_cluster.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c check_bimodality.cpp -o check_bimodality.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c correlate_reads.cpp -o correlate_reads.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c find_maxima.cpp -o find_maxima.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c get_cluster_stats.cpp -o get_cluster_stats.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c get_profile.cpp -o get_profile.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c get_rle_counts.cpp -o get_rle_counts.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c init.cpp -o init.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c merge_windows.cpp -o merge_windows.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c pair_reads.cpp -o pair_reads.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/zlibbioc/include"   -fPIC  -Wall -mtune=core2 -g -O2  -c single_reads.cpp -o single_reads.o
clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o csaw.so annotator.o bam_utils.o best_in_cluster.o check_bimodality.o correlate_reads.o find_maxima.o get_cluster_stats.o get_profile.o get_rle_counts.o init.o merge_windows.o pair_reads.o single_reads.o /Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rhtslib/lib/libhts.a -lz -pthread -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
clang: warning: argument unused during compilation: '-pthread'
installing to /Library/Frameworks/R.framework/Versions/3.3/Resources/library/csaw/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘csaw.Rnw’ 
** testing if installed package can be loaded
* DONE (csaw)