gdsfmt 1.2.2
Xiuwen Zheng
| Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/gdsfmt | | Last Changed Rev: 98410 / Revision: 102249 | | Last Changed Date: 2015-01-16 13:00:05 -0800 (Fri, 16 Jan 2015) |
| zin1 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | OK | OK | OK | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK | OK |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | [ OK ] | OK | OK | OK |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL gdsfmt
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* installing to library ‘/Library/Frameworks/R.framework/Versions/3.1/Resources/library’
* installing *source* package ‘gdsfmt’ ...
files ‘COPYING’, ‘src/CoreArray.cpp’, ‘src/CoreArray.h’, ‘src/CoreDEF.h’, ‘src/R_GDS.h’, ‘src/R_GDS2.h’, ‘src/R_GDS_CPP.h’, ‘src/dAllocator.cpp’, ‘src/dAllocator.h’, ‘src/dAny.cpp’, ‘src/dAny.h’, ‘src/dBase.cpp’, ‘src/dBase.h’, ‘src/dBit.h’, ‘src/dBitGDS.cpp’, ‘src/dBitGDS.h’, ‘src/dEndian.cpp’, ‘src/dEndian.h’, ‘src/dFile.cpp’, ‘src/dFile.h’, ‘src/dParallel.cpp’, ‘src/dParallel.h’, ‘src/dParallel_Ext.c’, ‘src/dPlatform.cpp’, ‘src/dPlatform.h’, ‘src/dSerial.cpp’, ‘src/dSerial.h’, ‘src/dStrGDS.h’, ‘src/dStream.cpp’, ‘src/dStream.h’, ‘src/dString.h’, ‘src/dStruct.cpp’, ‘src/dStruct.h’, ‘src/dTrait.h’, ‘src/dType.h’ are missing
files ‘DESCRIPTION’, ‘NAMESPACE’, ‘NEWS’, ‘R/gdsfmt-main.r’, ‘README.md’, ‘inst/CITATION’, ‘man/add.gdsn.Rd’, ‘man/addfile.gdsn.Rd’, ‘man/addfolder.gdsn.Rd’, ‘man/append.gdsn.Rd’, ‘man/apply.gdsn.Rd’, ‘man/assign.gdsn.Rd’, ‘man/cache.gdsn.Rd’, ‘man/cleanup.gds.Rd’, ‘man/closefn.gds.Rd’, ‘man/clusterApply.gdsn.Rd’, ‘man/cnt.gdsn.Rd’, ‘man/compression.gdsn.Rd’, ‘man/createfn.gds.Rd’, ‘man/delete.attr.gdsn.Rd’, ‘man/delete.gdsn.Rd’, ‘man/diagnosis.gds.Rd’, ‘man/gds.class.Rd’, ‘man/gdsfmt-package.Rd’, ‘man/gdsn.class.Rd’, ‘man/get.attr.gdsn.Rd’, ‘man/getfile.gdsn.Rd’, ‘man/index.gdsn.Rd’, ‘man/is.element.gdsn.Rd’, ‘man/lasterr.gds.Rd’, ‘man/ls.gdsn.Rd’, ‘man/moveto.gdsn.Rd’, ‘man/name.gdsn.Rd’, ‘man/objdesp.gdsn.Rd’, ‘man/openfn.gds.Rd’, ‘man/print.gds.class.Rd’, ‘man/print.gdsn.class.Rd’, ‘man/put.attr.gdsn.Rd’, ‘man/read.gdsn.Rd’, ‘man/readex.gdsn.Rd’, ‘man/readmode.gdsn.Rd’, ‘man/rename.gdsn.Rd’, ‘man/setdim.gdsn.Rd’, ‘man/showfile.gds.Rd’, ‘man/sync.gds.Rd’, ‘man/write.gdsn.Rd’, ‘src/CoreGDS.cpp’, ‘src/CoreGDS.h’, ‘src/Makevars’, ‘src/Makevars.win’, ‘src/R_CoreArray.cpp’, ‘src/gdsfmt.cpp’, ‘tests/runTests.R’ have the wrong MD5 checksums
** libs
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreGDS.cpp -o CoreGDS.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c R_CoreArray.cpp -o R_CoreArray.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c gdsfmt.cpp -o gdsfmt.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/CoreArray.cpp -o CoreArray/CoreArray.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dAllocator.cpp -o CoreArray/dAllocator.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dAny.cpp -o CoreArray/dAny.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dBase.cpp -o CoreArray/dBase.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dBitGDS.cpp -o CoreArray/dBitGDS.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dEndian.cpp -o CoreArray/dEndian.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dFile.cpp -o CoreArray/dFile.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dParallel.cpp -o CoreArray/dParallel.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dParallel_Ext.c -o CoreArray/dParallel_Ext.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dPlatform.cpp -o CoreArray/dPlatform.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dSerial.cpp -o CoreArray/dSerial.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dStream.cpp -o CoreArray/dStream.o
llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c CoreArray/dStruct.cpp -o CoreArray/dStruct.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c ZLIB/adler32.c -o ZLIB/adler32.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c ZLIB/compress.c -o ZLIB/compress.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c ZLIB/crc32.c -o ZLIB/crc32.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c ZLIB/deflate.c -o ZLIB/deflate.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c ZLIB/infback.c -o ZLIB/infback.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c ZLIB/inffast.c -o ZLIB/inffast.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c ZLIB/inflate.c -o ZLIB/inflate.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c ZLIB/inftrees.c -o ZLIB/inftrees.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c ZLIB/trees.c -o ZLIB/trees.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c ZLIB/uncompr.c -o ZLIB/uncompr.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c ZLIB/zutil.c -o ZLIB/zutil.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c LZ4/lz4.c -o LZ4/lz4.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c LZ4/lz4hc.c -o LZ4/lz4hc.o
LZ4/lz4.c:188: warning: ‘LZ4_readLE16’ defined but not used
LZ4/lz4.c:260: warning: ‘LZ4_copy4’ defined but not used
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c LZ4/lz4frame.c -o LZ4/lz4frame.o
LZ4/lz4frame.c: In function ‘LZ4F_compressFrameBound’:
LZ4/lz4frame.c:222: warning: missing braces around initializer
LZ4/lz4frame.c:222: warning: (near initialization for ‘prefs.frameInfo’)
LZ4/lz4frame.c: In function ‘LZ4F_compressFrame’:
LZ4/lz4frame.c:261: warning: missing braces around initializer
LZ4/lz4frame.c:261: warning: (near initialization for ‘cctxI.prefs’)
LZ4/lz4frame.c:262: warning: missing braces around initializer
LZ4/lz4frame.c:262: warning: (near initialization for ‘prefs.frameInfo’)
LZ4/lz4frame.c: In function ‘LZ4F_compressBegin’:
LZ4/lz4frame.c:364: warning: missing braces around initializer
LZ4/lz4frame.c:364: warning: (near initialization for ‘prefNull.frameInfo’)
LZ4/lz4frame.c: In function ‘LZ4F_compressBound’:
LZ4/lz4frame.c:439: warning: missing braces around initializer
LZ4/lz4frame.c:439: warning: (near initialization for ‘prefsNull.frameInfo’)
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -DUSING_R -I../inst/include -ICoreArray -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c LZ4/xxhash.c -o LZ4/xxhash.o
llvm-g++-4.2 -arch x86_64 -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 -L/usr/local/lib -o gdsfmt.so CoreGDS.o R_CoreArray.o gdsfmt.o CoreArray/CoreArray.o CoreArray/dAllocator.o CoreArray/dAny.o CoreArray/dBase.o CoreArray/dBitGDS.o CoreArray/dEndian.o CoreArray/dFile.o CoreArray/dParallel.o CoreArray/dParallel_Ext.o CoreArray/dPlatform.o CoreArray/dSerial.o CoreArray/dStream.o CoreArray/dStruct.o ZLIB/adler32.o ZLIB/compress.o ZLIB/crc32.o ZLIB/deflate.o ZLIB/infback.o ZLIB/inffast.o ZLIB/inflate.o ZLIB/inftrees.o ZLIB/trees.o ZLIB/uncompr.o ZLIB/zutil.o LZ4/lz4.o LZ4/lz4hc.o LZ4/lz4frame.o LZ4/xxhash.o -lpthread -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/3.1/Resources/library/gdsfmt/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (gdsfmt)