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BioC 2.14: BUILD BIN report for CSSP on petty

This page was generated on 2014-10-08 09:01:06 -0700 (Wed, 08 Oct 2014).

Package 201/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CSSP 1.2.0
Chandler Zuo
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/CSSP
Last Changed Rev: 88838 / Revision: 95116
Last Changed Date: 2014-04-11 14:07:21 -0700 (Fri, 11 Apr 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK [ OK ]
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  ERROR  OK 

Summary

Package: CSSP
Version: 1.2.0
Command: rm -rf CSSP.buildbin-libdir && mkdir CSSP.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh CSSP_1.2.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CSSP.buildbin-libdir
StartedAt: 2014-10-08 01:19:00 -0700 (Wed, 08 Oct 2014)
EndedAt: 2014-10-08 01:19:09 -0700 (Wed, 08 Oct 2014)
EllapsedTime: 8.4 seconds
RetCode: 0
Status:  OK 
PackageFile: CSSP_1.2.0.tgz
PackageFileSize: 711.8 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf CSSP.buildbin-libdir && mkdir CSSP.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh CSSP_1.2.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CSSP.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=CSSP.buildbin-libdir CSSP_1.2.0.tar.gz'
>>>>>>> 

* installing *source* package ‘CSSP’ ...
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c bincount.c -o bincount.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c binpower.c -o binpower.o
binpower.c: In function ‘binpower’:
binpower.c:72: warning: suggest parentheses around comparison in operand of &
binpower.c:105: warning: suggest parentheses around comparison in operand of &
binpower.c: In function ‘binpower_pval’:
binpower.c:162: warning: suggest parentheses around comparison in operand of &
binpower.c:141: warning: unused variable ‘tmp’
binpower.c:141: warning: unused variable ‘sim_bin’
binpower.c:136: warning: unused variable ‘rscale_back’
binpower.c:136: warning: unused variable ‘rsize_back’
binpower.c:135: warning: unused variable ‘k’
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c gridLogMean.c -o gridLogMean.o
gridLogMean.c: In function ‘gridMGClogmean_c’:
gridLogMean.c:29: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:29: warning: suggest parentheses around comparison in operand of |
gridLogMean.c:29: warning: suggest parentheses around comparison in operand of |
gridLogMean.c:29: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:35: warning: suggest parentheses around comparison in operand of |
gridLogMean.c:35: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:35: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:35: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:43: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:45: warning: suggest parentheses around comparison in operand of |
gridLogMean.c:77: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:77: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:77: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:157: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:157: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:157: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:10: warning: unused variable ‘counter’
gridLogMean.c: In function ‘gridMlogmean_c’:
gridLogMean.c:193: warning: suggest parentheses around comparison in operand of |
gridLogMean.c:193: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:199: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:199: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:225: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:295: warning: suggest parentheses around comparison in operand of &
gridLogMean.c:177: warning: unused variable ‘counter’
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c gridMGC.c -o gridMGC.o
gridMGC.c: In function ‘gridMGC_c’:
gridMGC.c:29: warning: suggest parentheses around comparison in operand of |
gridMGC.c:29: warning: suggest parentheses around comparison in operand of &
gridMGC.c:29: warning: suggest parentheses around comparison in operand of &
gridMGC.c:29: warning: suggest parentheses around comparison in operand of &
gridMGC.c:37: warning: suggest parentheses around comparison in operand of &
gridMGC.c:39: warning: suggest parentheses around comparison in operand of |
gridMGC.c:71: warning: suggest parentheses around comparison in operand of &
gridMGC.c:71: warning: suggest parentheses around comparison in operand of &
gridMGC.c:71: warning: suggest parentheses around comparison in operand of &
gridMGC.c: In function ‘gridM_c’:
gridMGC.c:177: warning: suggest parentheses around comparison in operand of &
gridMGC.c:177: warning: suggest parentheses around comparison in operand of &
gridMGC.c:203: warning: suggest parentheses around comparison in operand of &
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c gridMean.c -o gridMean.o
gridMean.c: In function ‘gridMGCmean_c’:
gridMean.c:29: warning: suggest parentheses around comparison in operand of &
gridMean.c:29: warning: suggest parentheses around comparison in operand of |
gridMean.c:29: warning: suggest parentheses around comparison in operand of |
gridMean.c:29: warning: suggest parentheses around comparison in operand of &
gridMean.c:35: warning: suggest parentheses around comparison in operand of |
gridMean.c:35: warning: suggest parentheses around comparison in operand of &
gridMean.c:35: warning: suggest parentheses around comparison in operand of &
gridMean.c:35: warning: suggest parentheses around comparison in operand of &
gridMean.c:43: warning: suggest parentheses around comparison in operand of &
gridMean.c:45: warning: suggest parentheses around comparison in operand of |
gridMean.c:77: warning: suggest parentheses around comparison in operand of &
gridMean.c:77: warning: suggest parentheses around comparison in operand of &
gridMean.c:77: warning: suggest parentheses around comparison in operand of &
gridMean.c:157: warning: suggest parentheses around comparison in operand of &
gridMean.c:157: warning: suggest parentheses around comparison in operand of &
gridMean.c:157: warning: suggest parentheses around comparison in operand of &
gridMean.c:10: warning: unused variable ‘counter’
gridMean.c: In function ‘gridMmean_c’:
gridMean.c:193: warning: suggest parentheses around comparison in operand of |
gridMean.c:193: warning: suggest parentheses around comparison in operand of &
gridMean.c:199: warning: suggest parentheses around comparison in operand of &
gridMean.c:199: warning: suggest parentheses around comparison in operand of &
gridMean.c:225: warning: suggest parentheses around comparison in operand of &
gridMean.c:295: warning: suggest parentheses around comparison in operand of &
gridMean.c:177: warning: unused variable ‘counter’
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c gridMode.c -o gridMode.o
gridMode.c: In function ‘gridMGCmode_c’:
gridMode.c:31: warning: suggest parentheses around comparison in operand of &
gridMode.c:31: warning: suggest parentheses around comparison in operand of |
gridMode.c:31: warning: suggest parentheses around comparison in operand of |
gridMode.c:31: warning: suggest parentheses around comparison in operand of &
gridMode.c:37: warning: suggest parentheses around comparison in operand of |
gridMode.c:37: warning: suggest parentheses around comparison in operand of &
gridMode.c:37: warning: suggest parentheses around comparison in operand of &
gridMode.c:37: warning: suggest parentheses around comparison in operand of &
gridMode.c:45: warning: suggest parentheses around comparison in operand of &
gridMode.c:47: warning: suggest parentheses around comparison in operand of |
gridMode.c:79: warning: suggest parentheses around comparison in operand of &
gridMode.c:79: warning: suggest parentheses around comparison in operand of &
gridMode.c:79: warning: suggest parentheses around comparison in operand of &
gridMode.c:164: warning: suggest parentheses around comparison in operand of &
gridMode.c:164: warning: suggest parentheses around comparison in operand of &
gridMode.c:164: warning: suggest parentheses around comparison in operand of &
gridMode.c: In function ‘gridMmode_c’:
gridMode.c:219: warning: suggest parentheses around comparison in operand of |
gridMode.c:219: warning: suggest parentheses around comparison in operand of &
gridMode.c:225: warning: suggest parentheses around comparison in operand of &
gridMode.c:225: warning: suggest parentheses around comparison in operand of &
gridMode.c:251: warning: suggest parentheses around comparison in operand of &
gridMode.c:326: warning: suggest parentheses around comparison in operand of &
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c gridNonpa.c -o gridNonpa.o
gridNonpa.c: In function ‘gridMGCnonpa_c’:
gridNonpa.c:29: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:29: warning: suggest parentheses around comparison in operand of |
gridNonpa.c:29: warning: suggest parentheses around comparison in operand of |
gridNonpa.c:29: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:35: warning: suggest parentheses around comparison in operand of |
gridNonpa.c:35: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:35: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:35: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:43: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:45: warning: suggest parentheses around comparison in operand of |
gridNonpa.c:77: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:77: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:77: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:161: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:161: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:161: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:10: warning: unused variable ‘counter’
gridNonpa.c: In function ‘gridMnonpa_c’:
gridNonpa.c:209: warning: suggest parentheses around comparison in operand of |
gridNonpa.c:209: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:215: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:215: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:241: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:315: warning: suggest parentheses around comparison in operand of &
gridNonpa.c:193: warning: unused variable ‘counter’
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c gridSample.c -o gridSample.o
gridSample.c: In function ‘gridMGCsample_c’:
gridSample.c:33: warning: suggest parentheses around comparison in operand of &
gridSample.c:33: warning: suggest parentheses around comparison in operand of |
gridSample.c:33: warning: suggest parentheses around comparison in operand of |
gridSample.c:33: warning: suggest parentheses around comparison in operand of &
gridSample.c:39: warning: suggest parentheses around comparison in operand of |
gridSample.c:39: warning: suggest parentheses around comparison in operand of &
gridSample.c:39: warning: suggest parentheses around comparison in operand of &
gridSample.c:39: warning: suggest parentheses around comparison in operand of &
gridSample.c:47: warning: suggest parentheses around comparison in operand of &
gridSample.c:49: warning: suggest parentheses around comparison in operand of |
gridSample.c:81: warning: suggest parentheses around comparison in operand of &
gridSample.c:81: warning: suggest parentheses around comparison in operand of &
gridSample.c:81: warning: suggest parentheses around comparison in operand of &
gridSample.c:166: warning: suggest parentheses around comparison in operand of &
gridSample.c:166: warning: suggest parentheses around comparison in operand of &
gridSample.c:166: warning: suggest parentheses around comparison in operand of &
gridSample.c: In function ‘gridMsample_c’:
gridSample.c:224: warning: suggest parentheses around comparison in operand of |
gridSample.c:224: warning: suggest parentheses around comparison in operand of &
gridSample.c:230: warning: suggest parentheses around comparison in operand of &
gridSample.c:230: warning: suggest parentheses around comparison in operand of &
gridSample.c:256: warning: suggest parentheses around comparison in operand of &
gridSample.c:331: warning: suggest parentheses around comparison in operand of &
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2 -Wall  -c tag2bin.c -o tag2bin.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o CSSP.so bincount.o binpower.o gridLogMean.o gridMGC.o gridMean.o gridMode.o gridNonpa.o gridSample.o tag2bin.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.14-bioc/meat/CSSP.buildbin-libdir/CSSP/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (CSSP)


>>>>>>> 
>>>>>>> FIXING LINKS FOR CSSP.buildbin-libdir/CSSP/libs//CSSP.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libgcc_s.1.dylib" "CSSP.buildbin-libdir/CSSP/libs//CSSP.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libgfortran.2.dylib" "CSSP.buildbin-libdir/CSSP/libs//CSSP.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libreadline.5.2.dylib" "CSSP.buildbin-libdir/CSSP/libs//CSSP.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libreadline.dylib" "CSSP.buildbin-libdir/CSSP/libs//CSSP.so"