rnaSeqMap 2.14.0
Michal Okoniewski
| Snapshot Date: 2013-04-30 17:01:37 -0700 (Tue, 30 Apr 2013) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/rnaSeqMap | | Last Changed Rev: 75263 / Revision: 76155 | | Last Changed Date: 2013-04-03 14:32:27 -0700 (Wed, 03 Apr 2013) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | OK | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | N O T S U P P O R T E D |
| petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | OK |
| pelham | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | [ OK ] |
>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=rnaSeqMap.buildbin-libdir rnaSeqMap_2.14.0.tar.gz'
>>>>>>>
* installing *source* package 'rnaSeqMap' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c Rinit.c -o Rinit.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c gcoverage.c -o gcoverage.o
gcoverage.c:21:25: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
xwyn = (int *) R_alloc(nwyn, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜
gcoverage.c:33:50: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
memcpy(INTEGER(wyn), xwyn, sizeof(int) * nwyn);
˜ ^˜˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest)) \
^
gcoverage.c:33:50: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
memcpy(INTEGER(wyn), xwyn, sizeof(int) * nwyn);
˜ ^˜˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
: __inline_memcpy_chk (dest, src, len))
^
3 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c ghistogram.c -o ghistogram.o
ghistogram.c:22:24: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
xab = (int *) R_alloc(nab, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜
ghistogram.c:36:41: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
memcpy(INTEGER(ab), xab, sizeof(int) * nab);
˜ ^˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest)) \
^
ghistogram.c:36:41: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
memcpy(INTEGER(ab), xab, sizeof(int) * nab);
˜ ^˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
: __inline_memcpy_chk (dest, src, len))
^
3 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c regionmining.c -o regionmining.o
regionmining.c:38:26: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
xwyn = (int *) R_alloc(2*nwyn,sizeof(int));
˜˜˜˜˜˜˜ ˜^˜˜˜˜
regionmining.c:78:41: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
memcpy(INTEGER(wyn),xwyn,sizeof(int) * j);
˜ ^
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest)) \
^
regionmining.c:78:41: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
memcpy(INTEGER(wyn),xwyn,sizeof(int) * j);
˜ ^
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
: __inline_memcpy_chk (dest, src, len))
^
3 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c splicingind.c -o splicingind.o
splicingind.c:18:11: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
con = NUMERIC_POINTER(c)[0];
˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
/Library/Frameworks/R.framework/Resources/include/Rdefines.h:82:28: note: expanded from macro 'NUMERIC_POINTER'
#define NUMERIC_POINTER(x) REAL(x)
^
splicingind.c:38:14: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
si=xa[j]/(xb[j]*con);
˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜
2 warnings generated.
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o rnaSeqMap.so Rinit.o gcoverage.o ghistogram.o regionmining.o splicingind.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/rnaSeqMap.buildbin-libdir/rnaSeqMap/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (rnaSeqMap)
>>>>>>>
>>>>>>> FIXING LINKS FOR rnaSeqMap.buildbin-libdir/rnaSeqMap/libs//rnaSeqMap.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgcc_s.1.dylib" "rnaSeqMap.buildbin-libdir/rnaSeqMap/libs//rnaSeqMap.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "rnaSeqMap.buildbin-libdir/rnaSeqMap/libs//rnaSeqMap.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.5.2.dylib" "rnaSeqMap.buildbin-libdir/rnaSeqMap/libs//rnaSeqMap.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "rnaSeqMap.buildbin-libdir/rnaSeqMap/libs//rnaSeqMap.so"