Ahmed Mohamed
| Snapshot Date: 2023-03-15 14:00:15 -0400 (Wed, 15 Mar 2023) |
| git_url: https://git.bioconductor.org/packages/NetPathMiner |
| git_branch: master |
| git_last_commit: ea76d57 |
| git_last_commit_date: 2023-03-03 01:48:41 -0400 (Fri, 03 Mar 2023) |
| Back to Multiple platform build/check report for BioC 3.17: simplified long |
|
This page was generated on 2023-03-16 11:07:15 -0400 (Thu, 16 Mar 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) | x86_64 | R Under development (unstable) (2023-01-10 r83596) -- "Unsuffered Consequences" | 4540 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2023-01-10 r83596 ucrt) -- "Unsuffered Consequences" | 4302 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2023-01-10 r83596) -- "Unsuffered Consequences" | 4330 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
|
To the developers/maintainers of the NetPathMiner package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/NetPathMiner.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1354/2189 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| NetPathMiner 1.35.7 (landing page) Ahmed Mohamed
| nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: NetPathMiner |
| Version: 1.35.7 |
| Command: rm -rf NetPathMiner.buildbin-libdir && mkdir NetPathMiner.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh NetPathMiner_1.35.7.tar.gz /Library/Frameworks/R.framework/Resources/bin/R NetPathMiner.buildbin-libdir |
| StartedAt: 2023-03-16 09:35:37 -0400 (Thu, 16 Mar 2023) |
| EndedAt: 2023-03-16 09:36:50 -0400 (Thu, 16 Mar 2023) |
| EllapsedTime: 73.2 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: NetPathMiner_1.35.7.tgz |
| PackageFileSize: 2.201 MiB |
############################################################################## ############################################################################## ### ### Running command: ### ### rm -rf NetPathMiner.buildbin-libdir && mkdir NetPathMiner.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh NetPathMiner_1.35.7.tar.gz /Library/Frameworks/R.framework/Resources/bin/R NetPathMiner.buildbin-libdir ### ############################################################################## ############################################################################## >>>>>>> >>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=NetPathMiner.buildbin-libdir NetPathMiner_1.35.7.tar.gz' >>>>>>> * installing *source* package ‘NetPathMiner’ ... ** using staged installation removing boost headers... restoring Makevars.in file... mv: _Makevars.in_: No such file or directory rm: Makevars: No such file or directory removing compiled code... rm: *.o: No such file or directory 'config' variable 'CPP' is defunct checking for gcc... clang -mmacosx-version-min=10.13 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether clang -mmacosx-version-min=10.13 accepts -g... yes checking for clang -mmacosx-version-min=10.13 option to accept ISO C89... none needed checking how to run the C preprocessor... clang -mmacosx-version-min=10.13 -E checking for xmlParseFile in -lxml2... yes checking for readSBML in -lsbml... no untarring boost include tree... SBML not found. libXML2 found checking for xml2-config... /usr/bin/xml2-config configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: ‘Apple clang version 11.0.0 (clang-1100.0.33.17)’ using C++ compiler: ‘Apple clang version 11.0.0 (clang-1100.0.33.17)’ using SDK: ‘’ clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I/usr/local/include -DHAVE_XML -I/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/libxml2 -I/usr/local/include -fPIC -Wall -g -O2 -c PathRanker.cpp -o PathRanker.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I/usr/local/include -DHAVE_XML -I/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/libxml2 -I/usr/local/include -fPIC -Wall -g -O2 -c handlesegfault.c -o handlesegfault.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I/usr/local/include -DHAVE_XML -I/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/libxml2 -I/usr/local/include -fPIC -Wall -g -O2 -c hme3m.c -o hme3m.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I/usr/local/include -DHAVE_XML -I/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/libxml2 -I/usr/local/include -fPIC -Wall -g -O2 -c init.c -o init.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I/usr/local/include -DHAVE_XML -I/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/libxml2 -I/usr/local/include -fPIC -Wall -g -O2 -c kgml_interface.cpp -o kgml_interface.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I/usr/local/include -DHAVE_XML -I/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/libxml2 -I/usr/local/include -fPIC -Wall -g -O2 -c methods.cpp -o methods.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I/usr/local/include -DHAVE_XML -I/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/libxml2 -I/usr/local/include -fPIC -Wall -g -O2 -c pathScope.cpp -o pathScope.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I. -I/usr/local/include -DHAVE_XML -I/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/libxml2 -I/usr/local/include -fPIC -Wall -g -O2 -c sbml_interface.cpp -o sbml_interface.o clang++ -mmacosx-version-min=10.13 -std=gnu++14 -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 NetPathMiner.so PathRanker.o handlesegfault.o hme3m.o init.o kgml_interface.o methods.o pathScope.o sbml_interface.o -lxml2 -L/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/lib -lxml2 -lz -lpthread -licucore -lm -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-3.17-bioc/meat/NetPathMiner.buildbin-libdir/00LOCK-NetPathMiner/00new/NetPathMiner/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 (NetPathMiner) >>>>>>> >>>>>>> FIXING LINKS FOR NetPathMiner.buildbin-libdir/NetPathMiner/libs/NetPathMiner.so >>>>>>> install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/4.3/Resources/lib/libgcc_s.1.dylib" "NetPathMiner.buildbin-libdir/NetPathMiner/libs/NetPathMiner.so" install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.3/Resources/lib/libgfortran.5.dylib" "NetPathMiner.buildbin-libdir/NetPathMiner/libs/NetPathMiner.so" install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.3/Resources/lib/libquadmath.0.dylib" "NetPathMiner.buildbin-libdir/NetPathMiner/libs/NetPathMiner.so" install_name_tool -change "/usr/local/gfortran/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.3/Resources/lib/libgfortran.5.dylib" "NetPathMiner.buildbin-libdir/NetPathMiner/libs/NetPathMiner.so" install_name_tool -change "/usr/local/gfortran/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.3/Resources/lib/libquadmath.0.dylib" "NetPathMiner.buildbin-libdir/NetPathMiner/libs/NetPathMiner.so"