Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-10-16 12:46:11 -0400 (Wed, 16 Oct 2019).
Package 1092/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
nem 2.58.0 Holger Froehlich
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | WARNINGS | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | [ OK ] |
Package: nem |
Version: 2.58.0 |
Command: rm -rf nem.buildbin-libdir && mkdir nem.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh nem_2.58.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R nem.buildbin-libdir |
StartedAt: 2019-10-16 09:02:10 -0400 (Wed, 16 Oct 2019) |
EndedAt: 2019-10-16 09:02:30 -0400 (Wed, 16 Oct 2019) |
EllapsedTime: 20.2 seconds |
RetCode: 0 |
Status: OK |
PackageFile: nem_2.58.0.tgz |
PackageFileSize: 3.923 MiB |
############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf nem.buildbin-libdir && mkdir nem.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh nem_2.58.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R nem.buildbin-libdir ### ############################################################################## ############################################################################## >>>>>>> >>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=nem.buildbin-libdir nem_2.58.0.tar.gz' >>>>>>> * installing *source* package ‘nem’ ... ** using staged installation ** libs clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c MCMC.c -o MCMC.o MCMC.c:44:45: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value] p -= inv_nu*abs(net[s][k]-prior[s][k]); ^ MCMC.c:44:45: note: use function 'fabs' instead p -= inv_nu*abs(net[s][k]-prior[s][k]); ^~~ fabs MCMC.c:72:62: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value] if(Psi[p][s] != 0 && abs(Psi[p][s]) <= t){ // p is a parent ^ MCMC.c:72:62: note: use function 'fabs' instead if(Psi[p][s] != 0 && abs(Psi[p][s]) <= t){ // p is a parent ^~~ fabs MCMC.c:359:35: warning: unused variable 'mutinf' [-Wunused-variable] double loglikMean, loglikSum, mutinf, delta, logPrior_cur_scale; ^ MCMC.c:403:10: warning: unused variable 'stored2' [-Wunused-variable] long stored2 = 0; ^ MCMC.c:402:10: warning: unused variable 'stored' [-Wunused-variable] long stored = 0; ^ 5 warnings generated. clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c netlearn.c -o netlearn.o netlearn.c:171:13: warning: variable 'negenes' used in loop condition not modified in loop body [-Wfor-loop-analysis] for (i=0; negenes; i++) { ^~~~~~~ netlearn.c:168:9: warning: unused variable 'lik_switch' [-Wunused-variable] double lik_switch; ^ 2 warnings generated. clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -Wall -g -O2 -c wrapper.c -o wrapper.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 nem.so MCMC.o netlearn.o wrapper.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-3.9-bioc/meat/nem.buildbin-libdir/00LOCK-nem/00new/nem/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (nem) >>>>>>> >>>>>>> FIXING LINKS FOR nem.buildbin-libdir/nem/libs//nem.so >>>>>>> install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgcc_s.1.dylib" "nem.buildbin-libdir/nem/libs//nem.so" install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "nem.buildbin-libdir/nem/libs//nem.so" install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.5.2.dylib" "nem.buildbin-libdir/nem/libs//nem.so" install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "nem.buildbin-libdir/nem/libs//nem.so" install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "nem.buildbin-libdir/nem/libs//nem.so"