RchyOptimyx 2.10.0
Adrin Jalali , Nima Aghaeepour
| Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/RchyOptimyx | | Last Changed Rev: 109589 / Revision: 116712 | | Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015) |
| zin1 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK | |  |
| moscato1 | Windows Server 2008 R2 Standard (64-bit) / x64 | NotNeeded | OK | OK | OK | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | WARNINGS | [ OK ] | |
##############################################################################
##############################################################################
###
### Running command:
###
### rm -rf RchyOptimyx.buildbin-libdir && mkdir RchyOptimyx.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh RchyOptimyx_2.10.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R RchyOptimyx.buildbin-libdir
###
##############################################################################
##############################################################################
>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=RchyOptimyx.buildbin-libdir RchyOptimyx_2.10.0.tar.gz'
>>>>>>>
* installing *source* package ‘RchyOptimyx’ ...
** libs
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -fPIC -Wall -mtune=core2 -g -O2 -c RchyOptimyx.cpp -o RchyOptimyx.o
In file included from RchyOptimyx.cpp:13:
./graehl/graph.h:75:8: warning: explicitly assigning a variable of type 'int' to itself [-Wself-assign]
pred = pred; // dummy statement to avoid warnings
˜˜˜˜ ^ ˜˜˜˜
In file included from RchyOptimyx.cpp:13:
In file included from ./graehl/graph.h:279:
./graehl/kbest.h:37:9: warning: explicitly assigning a variable of type 'size_t' (aka 'unsigned long') to itself [-Wself-assign]
dummy = dummy;
˜˜˜˜˜ ^ ˜˜˜˜˜
2 warnings generated.
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -fPIC -Wall -mtune=core2 -g -O2 -c dataRead.cpp -o dataRead.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -fPIC -Wall -mtune=core2 -g -O2 -c mystring.cpp -o mystring.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -fPIC -Wall -mtune=core2 -g -O2 -c numberGenerator.cpp -o numberGenerator.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 RchyOptimyx.so RchyOptimyx.o dataRead.o mystring.o numberGenerator.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.2-bioc/meat/RchyOptimyx.buildbin-libdir/RchyOptimyx/libs
** R
** data
** inst
** preparing package for lazy loading
Warning in rgl.init(initValue, onlyNULL) :
RGL: GLX extension missing on server
Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE
Creating a generic function for ‘summary’ from package ‘base’ in package ‘RchyOptimyx’
Creating a new generic function for ‘merge’ in package ‘RchyOptimyx’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning in rgl.init(initValue, onlyNULL) :
RGL: GLX extension missing on server
Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE
* DONE (RchyOptimyx)
>>>>>>>
>>>>>>> FIXING LINKS FOR RchyOptimyx.buildbin-libdir/RchyOptimyx/libs//RchyOptimyx.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" "RchyOptimyx.buildbin-libdir/RchyOptimyx/libs//RchyOptimyx.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.3.dylib" "RchyOptimyx.buildbin-libdir/RchyOptimyx/libs//RchyOptimyx.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" "RchyOptimyx.buildbin-libdir/RchyOptimyx/libs//RchyOptimyx.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "RchyOptimyx.buildbin-libdir/RchyOptimyx/libs//RchyOptimyx.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libquadmath.0.dylib" "RchyOptimyx.buildbin-libdir/RchyOptimyx/libs//RchyOptimyx.so"