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BioC 3.1: BUILD BIN report for PING on petty

This page was generated on 2015-10-09 09:34:59 -0700 (Fri, 09 Oct 2015).

Package 721/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PING 2.12.0
Renan Sauteraud
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/PING
Last Changed Rev: 102591 / Revision: 109384
Last Changed Date: 2015-04-16 12:42:01 -0700 (Thu, 16 Apr 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: PING
Version: 2.12.0
Command: rm -rf PING.buildbin-libdir && mkdir PING.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh PING_2.12.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R PING.buildbin-libdir
StartedAt: 2015-10-09 03:19:19 -0700 (Fri, 09 Oct 2015)
EndedAt: 2015-10-09 03:20:05 -0700 (Fri, 09 Oct 2015)
EllapsedTime: 46.8 seconds
RetCode: 0
Status:  OK 
PackageFile: PING_2.12.0.tgz
PackageFileSize: 5.35 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf PING.buildbin-libdir && mkdir PING.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh PING_2.12.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R PING.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=PING.buildbin-libdir PING_2.12.0.tar.gz'
>>>>>>> 

* installing *source* package ‘PING’ ...
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for GSL... yes
configure: creating ./config.status
config.status: creating src/Makevars
** 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 init.c -o init.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 ping.c -o ping.o
ping.c: In function ‘fitModelAllk’:
ping.c:145: warning: suggest parentheses around comparison in operand of &
ping.c: In function ‘iterEM’:
ping.c:659: warning: unused variable ‘mu’
ping.c: In function ‘ECM1’:
ping.c:912: warning: suggest parentheses around comparison in operand of &
ping.c:1072: warning: suggest parentheses around comparison in operand of &
ping.c:760: warning: unused variable ‘k’
ping.c: In function ‘ECM1PE’:
ping.c:1320: warning: suggest parentheses around comparison in operand of &
ping.c:1473: warning: suggest parentheses around comparison in operand of &
ping.c:1108: warning: unused variable ‘k’
ping.c: In function ‘ECM2’:
ping.c:1536: warning: unused variable ‘ee’
ping.c:1536: warning: unused variable ‘ggR’
ping.c:1536: warning: unused variable ‘ggF’
ping.c:1536: warning: unused variable ‘aaR’
ping.c:1536: warning: unused variable ‘aaF’
ping.c:1536: warning: unused variable ‘etaDiff’
ping.c:1527: warning: unused variable ‘k’
ping.c: In function ‘ECM2PE’:
ping.c:1743: warning: unused variable ‘ee’
ping.c:1743: warning: unused variable ‘ggR’
ping.c:1743: warning: unused variable ‘ggF’
ping.c:1743: warning: unused variable ‘aaR’
ping.c:1743: warning: unused variable ‘aaF’
ping.c:1743: warning: unused variable ‘etaDiff’
ping.c:1734: warning: unused variable ‘k’
ping.c: In function ‘getInfMat’:
ping.c:2590: warning: unused variable ‘PhiRw’
ping.c:2590: warning: unused variable ‘PhiFw’
ping.c: In function ‘getInfMatPE’:
ping.c:3040: warning: unused variable ‘PhiFRw’
ping.c: In function ‘mergePeak’:
ping.c:3301: warning: unused variable ‘j’
ping.c:3301: warning: unused variable ‘i’
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -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 -L/usr/local/lib -o PING.so init.o ping.o -L/usr/local/lib -lgsl -lgslcblas -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.1-bioc/meat/PING.buildbin-libdir/PING/libs
** R
** inst
** preparing package for lazy loading
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
* DONE (PING)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgcc_s.1.dylib" "PING.buildbin-libdir/PING/libs//PING.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.2.dylib" "PING.buildbin-libdir/PING/libs//PING.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.5.2.dylib" "PING.buildbin-libdir/PING/libs//PING.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "PING.buildbin-libdir/PING/libs//PING.so"