Package: metahdep

Version: 1.42.0

Command: rm -rf metahdep.buildbin-libdir && mkdir metahdep.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh metahdep_1.42.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R metahdep.buildbin-libdir

StartedAt: 2019-10-16 08:55:26 -0400 (Wed, 16 Oct 2019)

EndedAt: 2019-10-16 08:55:44 -0400 (Wed, 16 Oct 2019)

EllapsedTime: 17.3 seconds

RetCode: 0

Status:  OK

PackageFile: metahdep_1.42.0.tgz

PackageFileSize: 534.1 KiB

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### Running command:
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###   rm -rf metahdep.buildbin-libdir && mkdir metahdep.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh metahdep_1.42.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R metahdep.buildbin-libdir
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>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=metahdep.buildbin-libdir metahdep_1.42.0.tar.gz'
>>>>>>> 

* installing *source* package ‘metahdep’ ...
** 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 metahdep.c -o metahdep.o
metahdep.c:471:79: warning: incompatible pointer to integer conversion passing 'const char *' to parameter of type 'char' [-Wint-conversion]
                                index = metan_binary_search_unique(name_list, sort_index, R_old_names, j, CHAR(STRING_ELT(R_old_chipsets, j)), i);
                                                                                                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:510:18: note: expanded from macro 'CHAR'
#define CHAR(x)         R_CHAR(x)
                        ^~~~~~~~~
metahdep.c:372:103: note: passing argument to parameter 'chipset_name' here
SEXP metan_binary_search_unique(SEXP name_list, SEXP sort_index, SEXP gene_name, int gene_index, char chipset_name, int study_num)
                                                                                                      ^
1 warning generated.
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 metahdep.so metahdep.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.9-bioc/meat/metahdep.buildbin-libdir/00LOCK-metahdep/00new/metahdep/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 (metahdep)


>>>>>>> 
>>>>>>> FIXING LINKS FOR metahdep.buildbin-libdir/metahdep/libs//metahdep.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" "metahdep.buildbin-libdir/metahdep/libs//metahdep.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libgfortran.3.dylib" "metahdep.buildbin-libdir/metahdep/libs//metahdep.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" "metahdep.buildbin-libdir/metahdep/libs//metahdep.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libreadline.dylib" "metahdep.buildbin-libdir/metahdep/libs//metahdep.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libquadmath.0.dylib" "metahdep.buildbin-libdir/metahdep/libs//metahdep.so"