Thomas Girke
| Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019) |
| URL: https://git.bioconductor.org/packages/ChemmineR |
| Branch: master |
| Last Commit: 2906861 |
| Last Changed Date: 2019-03-18 13:12:04 -0400 (Mon, 18 Mar 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-04-09 13:24:33 -0400 (Tue, 09 Apr 2019).
| Package 245/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| ChemmineR 3.35.6 Thomas Girke
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | [ OK ] |
| Package: ChemmineR |
| Version: 3.35.6 |
| Command: rm -rf ChemmineR.buildbin-libdir && mkdir ChemmineR.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ChemmineR_3.35.6.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ChemmineR.buildbin-libdir |
| StartedAt: 2019-04-09 04:56:25 -0400 (Tue, 09 Apr 2019) |
| EndedAt: 2019-04-09 04:57:44 -0400 (Tue, 09 Apr 2019) |
| EllapsedTime: 79.3 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: ChemmineR_3.35.6.tgz |
| PackageFileSize: 2.656 MiB |
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### Running command:
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### rm -rf ChemmineR.buildbin-libdir && mkdir ChemmineR.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ChemmineR_3.35.6.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ChemmineR.buildbin-libdir
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>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=ChemmineR.buildbin-libdir ChemmineR_3.35.6.tar.gz'
>>>>>>>
* installing *source* package ‘ChemmineR’ ...
** libs
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include -DNO_MAIN -DNO_DEBUG -fPIC -Wall -g -O2 -c DisjointSets.cpp -o DisjointSets.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include -DNO_MAIN -DNO_DEBUG -fPIC -Wall -g -O2 -c cluster.cc -o cluster.o
cluster.cc:49:13: warning: unused function 'prepare_neighbors' [-Wunused-function]
void static prepare_neighbors(const char* nbr_file, int skip, int p)
^
1 warning generated.
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include -DNO_MAIN -DNO_DEBUG -fPIC -Wall -g -O2 -c cstrsplit.cc -o cstrsplit.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include -DNO_MAIN -DNO_DEBUG -fPIC -Wall -g -O2 -c desc.cc -o desc.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include -DNO_MAIN -DNO_DEBUG -fPIC -Wall -g -O2 -c fingerprints.cc -o fingerprints.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include -DNO_MAIN -DNO_DEBUG -fPIC -Wall -g -O2 -c formats.cc -o formats.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include -DNO_MAIN -DNO_DEBUG -fPIC -Wall -g -O2 -c molecule.cc -o molecule.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include -DNO_MAIN -DNO_DEBUG -fPIC -Wall -g -O2 -c r_wrap.cc -o r_wrap.o
r_wrap.cc:563:7: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register size_t l = 0;
^˜˜˜˜˜˜˜˜
r_wrap.cc:564:7: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register size_t r = iter->size - 1;
^˜˜˜˜˜˜˜˜
r_wrap.cc:567:2: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register size_t i = (l + r) >> 1;
^˜˜˜˜˜˜˜˜
r_wrap.cc:570:4: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register int compare = strcmp(name, iname);
^˜˜˜˜˜˜˜˜
r_wrap.cc:614:7: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register size_t i = 0;
^˜˜˜˜˜˜˜˜
r_wrap.cc:633:3: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register const unsigned char *u = (unsigned char *) ptr;
^˜˜˜˜˜˜˜˜
r_wrap.cc:634:3: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register const unsigned char *eu = u + sz;
^˜˜˜˜˜˜˜˜
r_wrap.cc:636:5: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register unsigned char uu = *u;
^˜˜˜˜˜˜˜˜
r_wrap.cc:648:3: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register unsigned char *u = (unsigned char *) ptr;
^˜˜˜˜˜˜˜˜
r_wrap.cc:649:3: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register const unsigned char *eu = u + sz;
^˜˜˜˜˜˜˜˜
r_wrap.cc:651:5: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register char d = *(c++);
^˜˜˜˜˜˜˜˜
r_wrap.cc:652:5: warning: 'register' storage class specifier is deprecated and incompatible with C++1z [-Wdeprecated-register]
register unsigned char uu;
^˜˜˜˜˜˜˜˜
r_wrap.cc:1689:14: warning: explicitly assigning value of variable of type 'void *' to itself [-Wself-assign]
clientdata = clientdata;
˜˜˜˜˜˜˜˜˜˜ ^ ˜˜˜˜˜˜˜˜˜˜
13 warnings generated.
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include -DNO_MAIN -DNO_DEBUG -fPIC -Wall -g -O2 -c script.cc -o script.o
clang++ -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.6/Resources/library/BH/include" -I/usr/local/include -DNO_MAIN -DNO_DEBUG -fPIC -Wall -g -O2 -c similarity.cc -o similarity.o
clang++ -std=gnu++11 -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 ChemmineR.so DisjointSets.o cluster.o cstrsplit.o desc.o fingerprints.o formats.o molecule.o r_wrap.o script.o similarity.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/ChemmineR.buildbin-libdir/ChemmineR/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
* DONE (ChemmineR)
>>>>>>>
>>>>>>> FIXING LINKS FOR ChemmineR.buildbin-libdir/ChemmineR/libs//ChemmineR.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" "ChemmineR.buildbin-libdir/ChemmineR/libs//ChemmineR.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "ChemmineR.buildbin-libdir/ChemmineR/libs//ChemmineR.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" "ChemmineR.buildbin-libdir/ChemmineR/libs//ChemmineR.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "ChemmineR.buildbin-libdir/ChemmineR/libs//ChemmineR.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "ChemmineR.buildbin-libdir/ChemmineR/libs//ChemmineR.so"