mzR 1.0.2
Bernd Fischer
| Snapshot Date: 2012-03-23 18:21:46 -0700 (Fri, 23 Mar 2012) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/mzR | | Last Changed Rev: 60414 / Revision: 64395 | | Last Changed Date: 2011-11-16 16:05:53 -0800 (Wed, 16 Nov 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | OK | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | ERROR | OK |
| pitt | Mac OS X Leopard (10.5.8) / i386 | OK | OK | [ OK ] |
>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=mzR.buildbin-libdir mzR_1.0.2.tar.gz'
>>>>>>>
* installing *source* package 'mzR' ...
** libs
*** arch - i386
rm -f cramp.o ramp_base64.o ramp.o RcppRamp.o RcppRampModule.o rnetCDF.o ./boost/system/src/error_code.o ./boost/regex/src/posix_api.o ./boost/regex/src/fileiter.o ./boost/regex/src/regex_raw_buffer.o ./boost/regex/src/cregex.o ./boost/regex/src/regex_debug.o ./boost/regex/src/instances.o ./boost/regex/src/icu.o ./boost/regex/src/usinstances.o ./boost/regex/src/regex.o ./boost/regex/src/wide_posix_api.o ./boost/regex/src/regex_traits_defaults.o ./boost/regex/src/winstances.o ./boost/regex/src/wc_regex_traits.o ./boost/regex/src/c_regex_traits.o ./boost/regex/src/cpp_regex_traits.o ./boost/regex/src/static_mutex.o ./boost/regex/src/w32_regex_traits.o ./pwiz/data/msdata/Version.o ./pwiz/utility/minimxml/XMLWriter.o ./pwiz/utility/minimxml/SAXParser.o ./boost/iostreams/src/zlib.o ./boost/thread/src/pthread/once.o ./boost/filesystem/src/operations.o ./pwiz/data/common/MemoryIndex.o ./pwiz/data/common/CVTranslator.o ./pwiz/data/common/cv.o ./pwiz/data/common/ParamTypes.o ./pwiz/data/common/BinaryIndexStream.o ./pwiz/data/common/diff_std.o ./pwiz/data/msdata/SpectrumList_MGF.o ./pwiz/data/msdata/DefaultReaderList.o ./pwiz/data/msdata/ChromatogramList_mzML.o ./pwiz/data/msdata/examples.o ./pwiz/data/msdata/Serializer_mzML.o ./pwiz/data/msdata/Serializer_MSn.o ./pwiz/data/msdata/Reader.o ./pwiz/data/msdata/Serializer_MGF.o ./pwiz/data/msdata/Serializer_mzXML.o ./pwiz/data/msdata/SpectrumList_mzML.o ./pwiz/data/msdata/SpectrumList_MSn.o ./pwiz/data/msdata/BinaryDataEncoder.o ./pwiz/data/msdata/Diff.o ./pwiz/data/msdata/MSData.o ./pwiz/data/msdata/References.o ./pwiz/data/msdata/SpectrumList_mzXML.o ./pwiz/data/msdata/IO.o ./pwiz/data/msdata/SpectrumList_BTDX.o ./pwiz/data/msdata/SpectrumInfo.o ./pwiz/data/msdata/RAMPAdapter.o ./pwiz/data/msdata/LegacyAdapter.o ./pwiz/data/msdata/SpectrumIterator.o ./pwiz/data/msdata/MSDataFile.o ./pwiz/data/msdata/SpectrumListCache.o ./pwiz/utility/misc/IntegerSet.o ./pwiz/utility/misc/Base64.o ./pwiz/utility/misc/IterationListener.o ./pwiz/utility/misc/MSIHandler.o ./pwiz/utility/misc/Filesystem.o ./pwiz/utility/misc/TabReader.o ./pwiz/utility/misc/random_access_compressed_ifstream.o ./pwiz/utility/misc/SHA1.o ./pwiz/utility/misc/SHA1Calculator.o ./pwiz/utility/misc/sha1calc.o ./random_access_gzFile.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c cramp.cpp -o cramp.o
cramp.cpp:4:1: warning: "/*" within comment
cramp.h: In constructor 'cRamp::cRamp(const char*, bool)':
cramp.h:143: warning: 'cRamp::m_declaredScansOnly' will be initialized after
cramp.h:142: warning: 'rampRunInfo* cRamp::m_runInfo'
cramp.cpp:59: warning: when initialized here
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c ramp_base64.cpp -o ramp_base64.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c ramp.cpp -o ramp.o
ramp.cpp: In function 'RAMPFILE* rampOpenFile(const char*)':
ramp.cpp:201: warning: unused variable 'fgot'
ramp.cpp: In function 'ramp_fileoffset_t getIndexOffset(RAMPFILE*)':
ramp.cpp:378: warning: unused variable 'nread'
ramp.cpp: In function 'ramp_fileoffset_t* readIndex(RAMPFILE*, ramp_fileoffset_t, int*)':
ramp.cpp:555: warning: unused variable 'fgot'
ramp.cpp:591: warning: unused variable 'fgot'
ramp.cpp:627: warning: unused variable 'fgot'
ramp.cpp: In function 'void readHeader(RAMPFILE*, ramp_fileoffset_t, ScanHeaderStruct*)':
ramp.cpp:1133: warning: unused variable 'fgot'
ramp.cpp: In function 'int readMsLevel(RAMPFILE*, ramp_fileoffset_t)':
ramp.cpp:1211: warning: unused variable 'fgot'
ramp.cpp:1207: warning: unused variable 'fgot'
ramp.cpp: In function 'char* rampConstructInputPath(char*, int, const char*, const char*)':
ramp.cpp:1405: warning: comparison between signed and unsigned integer expressions
ramp.cpp: In function 'RAMPREAL* readPeaks(RAMPFILE*, ramp_fileoffset_t)':
ramp.cpp:1705: warning: unused variable 'nread'
ramp.cpp:1878: warning: unused variable 'fgot'
ramp.cpp:1922: warning: unused variable 'nread'
ramp.cpp:1803: warning: unused variable 'fgot'
ramp.cpp: In function 'void readMSRun(RAMPFILE*, RunHeaderStruct*)':
ramp.cpp:2080: warning: unused variable 'fgot'
ramp.cpp:2100: warning: unused variable 'fgot'
ramp.cpp:2076: warning: unused variable 'fgot'
ramp.cpp: In function 'InstrumentStruct* getInstrumentStruct(RAMPFILE*)':
ramp.cpp:2242: warning: unused variable 'fgot'
ramp.cpp:2278: warning: unused variable 'fgot'
ramp.cpp:2232: warning: unused variable 'fgot'
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c RcppRamp.cpp -o RcppRamp.o
RcppRamp.cpp: In member function 'Rcpp::DataFrame RcppRamp::getAllScanHeaderInfo()':
RcppRamp.cpp:170: warning: unused variable 'info'
RcppRamp.cpp: In member function 'Rcpp::NumericMatrix RcppRamp::get3DMap(std::vector<int, std::allocator<int> >, double, double, double)':
RcppRamp.cpp:309: warning: comparison between signed and unsigned integer expressions
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c RcppRampModule.cpp -o RcppRampModule.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -pedantic -c rnetCDF.c -o rnetCDF.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/system/src/error_code.cpp -o boost/system/src/error_code.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/posix_api.cpp -o boost/regex/src/posix_api.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/fileiter.cpp -o boost/regex/src/fileiter.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex_raw_buffer.cpp -o boost/regex/src/regex_raw_buffer.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/cregex.cpp -o boost/regex/src/cregex.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex_debug.cpp -o boost/regex/src/regex_debug.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/instances.cpp -o boost/regex/src/instances.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/icu.cpp -o boost/regex/src/icu.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/usinstances.cpp -o boost/regex/src/usinstances.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex.cpp -o boost/regex/src/regex.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/wide_posix_api.cpp -o boost/regex/src/wide_posix_api.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex_traits_defaults.cpp -o boost/regex/src/regex_traits_defaults.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/winstances.cpp -o boost/regex/src/winstances.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/wc_regex_traits.cpp -o boost/regex/src/wc_regex_traits.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/c_regex_traits.cpp -o boost/regex/src/c_regex_traits.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/cpp_regex_traits.cpp -o boost/regex/src/cpp_regex_traits.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/static_mutex.cpp -o boost/regex/src/static_mutex.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/w32_regex_traits.cpp -o boost/regex/src/w32_regex_traits.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Version.cpp -o pwiz/data/msdata/Version.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/minimxml/XMLWriter.cpp -o pwiz/utility/minimxml/XMLWriter.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/minimxml/SAXParser.cpp -o pwiz/utility/minimxml/SAXParser.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/iostreams/src/zlib.cpp -o boost/iostreams/src/zlib.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/thread/src/pthread/once.cpp -o boost/thread/src/pthread/once.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/filesystem/src/operations.cpp -o boost/filesystem/src/operations.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/MemoryIndex.cpp -o pwiz/data/common/MemoryIndex.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/CVTranslator.cpp -o pwiz/data/common/CVTranslator.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/cv.cpp -o pwiz/data/common/cv.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/ParamTypes.cpp -o pwiz/data/common/ParamTypes.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/BinaryIndexStream.cpp -o pwiz/data/common/BinaryIndexStream.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/diff_std.cpp -o pwiz/data/common/diff_std.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_MGF.cpp -o pwiz/data/msdata/SpectrumList_MGF.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/DefaultReaderList.cpp -o pwiz/data/msdata/DefaultReaderList.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/ChromatogramList_mzML.cpp -o pwiz/data/msdata/ChromatogramList_mzML.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/examples.cpp -o pwiz/data/msdata/examples.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_mzML.cpp -o pwiz/data/msdata/Serializer_mzML.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_MSn.cpp -o pwiz/data/msdata/Serializer_MSn.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Reader.cpp -o pwiz/data/msdata/Reader.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_MGF.cpp -o pwiz/data/msdata/Serializer_MGF.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_mzXML.cpp -o pwiz/data/msdata/Serializer_mzXML.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_mzML.cpp -o pwiz/data/msdata/SpectrumList_mzML.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_MSn.cpp -o pwiz/data/msdata/SpectrumList_MSn.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/BinaryDataEncoder.cpp -o pwiz/data/msdata/BinaryDataEncoder.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Diff.cpp -o pwiz/data/msdata/Diff.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/MSData.cpp -o pwiz/data/msdata/MSData.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/References.cpp -o pwiz/data/msdata/References.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_mzXML.cpp -o pwiz/data/msdata/SpectrumList_mzXML.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/IO.cpp -o pwiz/data/msdata/IO.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_BTDX.cpp -o pwiz/data/msdata/SpectrumList_BTDX.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumInfo.cpp -o pwiz/data/msdata/SpectrumInfo.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/RAMPAdapter.cpp -o pwiz/data/msdata/RAMPAdapter.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/LegacyAdapter.cpp -o pwiz/data/msdata/LegacyAdapter.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumIterator.cpp -o pwiz/data/msdata/SpectrumIterator.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/MSDataFile.cpp -o pwiz/data/msdata/MSDataFile.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumListCache.cpp -o pwiz/data/msdata/SpectrumListCache.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/IntegerSet.cpp -o pwiz/utility/misc/IntegerSet.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/Base64.cpp -o pwiz/utility/misc/Base64.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/IterationListener.cpp -o pwiz/utility/misc/IterationListener.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/MSIHandler.cpp -o pwiz/utility/misc/MSIHandler.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/Filesystem.cpp -o pwiz/utility/misc/Filesystem.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/TabReader.cpp -o pwiz/utility/misc/TabReader.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/random_access_compressed_ifstream.cpp -o pwiz/utility/misc/random_access_compressed_ifstream.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/SHA1.cpp -o pwiz/utility/misc/SHA1.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/SHA1Calculator.cpp -o pwiz/utility/misc/SHA1Calculator.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/sha1calc.cpp -o pwiz/utility/misc/sha1calc.o
g++ -arch i386 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c random_access_gzFile.cpp -o random_access_gzFile.o
g++ -arch i386 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o mzR.so cramp.o ramp_base64.o ramp.o RcppRamp.o RcppRampModule.o rnetCDF.o ./boost/system/src/error_code.o ./boost/regex/src/posix_api.o ./boost/regex/src/fileiter.o ./boost/regex/src/regex_raw_buffer.o ./boost/regex/src/cregex.o ./boost/regex/src/regex_debug.o ./boost/regex/src/instances.o ./boost/regex/src/icu.o ./boost/regex/src/usinstances.o ./boost/regex/src/regex.o ./boost/regex/src/wide_posix_api.o ./boost/regex/src/regex_traits_defaults.o ./boost/regex/src/winstances.o ./boost/regex/src/wc_regex_traits.o ./boost/regex/src/c_regex_traits.o ./boost/regex/src/cpp_regex_traits.o ./boost/regex/src/static_mutex.o ./boost/regex/src/w32_regex_traits.o ./pwiz/data/msdata/Version.o ./pwiz/utility/minimxml/XMLWriter.o ./pwiz/utility/minimxml/SAXParser.o ./boost/iostreams/src/zlib.o ./boost/thread/src/pthread/once.o ./boost/filesystem/src/operations.o ./pwiz/data/common/MemoryIndex.o ./pwiz/data/common/CVTranslator.o ./pwiz/data/common/cv.o ./pwiz/data/common/ParamTypes.o ./pwiz/data/common/BinaryIndexStream.o ./pwiz/data/common/diff_std.o ./pwiz/data/msdata/SpectrumList_MGF.o ./pwiz/data/msdata/DefaultReaderList.o ./pwiz/data/msdata/ChromatogramList_mzML.o ./pwiz/data/msdata/examples.o ./pwiz/data/msdata/Serializer_mzML.o ./pwiz/data/msdata/Serializer_MSn.o ./pwiz/data/msdata/Reader.o ./pwiz/data/msdata/Serializer_MGF.o ./pwiz/data/msdata/Serializer_mzXML.o ./pwiz/data/msdata/SpectrumList_mzML.o ./pwiz/data/msdata/SpectrumList_MSn.o ./pwiz/data/msdata/BinaryDataEncoder.o ./pwiz/data/msdata/Diff.o ./pwiz/data/msdata/MSData.o ./pwiz/data/msdata/References.o ./pwiz/data/msdata/SpectrumList_mzXML.o ./pwiz/data/msdata/IO.o ./pwiz/data/msdata/SpectrumList_BTDX.o ./pwiz/data/msdata/SpectrumInfo.o ./pwiz/data/msdata/RAMPAdapter.o ./pwiz/data/msdata/LegacyAdapter.o ./pwiz/data/msdata/SpectrumIterator.o ./pwiz/data/msdata/MSDataFile.o ./pwiz/data/msdata/SpectrumListCache.o ./pwiz/utility/misc/IntegerSet.o ./pwiz/utility/misc/Base64.o ./pwiz/utility/misc/IterationListener.o ./pwiz/utility/misc/MSIHandler.o ./pwiz/utility/misc/Filesystem.o ./pwiz/utility/misc/TabReader.o ./pwiz/utility/misc/random_access_compressed_ifstream.o ./pwiz/utility/misc/SHA1.o ./pwiz/utility/misc/SHA1Calculator.o ./pwiz/utility/misc/sha1calc.o ./random_access_gzFile.o /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/lib/i386/libRcpp.a -lpthread -L/usr/local/lib -lnetcdf -lhdf5_hl -lhdf5 -lm -lz -lcurl -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.9-bioc/meat/mzR.buildbin-libdir/mzR/libs/i386
** R
** inst
** preparing package for lazy loading
Creating a generic function for 'close' from package 'base' in package 'mzR'
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
'mzR.Rnw'
** testing if installed package can be loaded
* DONE (mzR)
>>>>>>>
>>>>>>> FIXING LINKS FOR mzR.buildbin-libdir/mzR/libs/i386/mzR.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgcc_s.1.dylib" "mzR.buildbin-libdir/mzR/libs/i386/mzR.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgfortran.2.dylib" "mzR.buildbin-libdir/mzR/libs/i386/mzR.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.5.2.dylib" "mzR.buildbin-libdir/mzR/libs/i386/mzR.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.dylib" "mzR.buildbin-libdir/mzR/libs/i386/mzR.so"
>>>>>>>
>>>>>>> INSTALLATION OF ppc LIBS WITH 'R_ARCH=/ppc R CMD INSTALL --preclean --no-multiarch --no-test-load --library=mzR.buildbin-libdir --libs-only mzR_1.0.2.tar.gz'
>>>>>>>
* installing *source* package 'mzR' ...
** libs
*** arch - ppc
rm -f cramp.o ramp_base64.o ramp.o RcppRamp.o RcppRampModule.o rnetCDF.o ./boost/system/src/error_code.o ./boost/regex/src/posix_api.o ./boost/regex/src/fileiter.o ./boost/regex/src/regex_raw_buffer.o ./boost/regex/src/cregex.o ./boost/regex/src/regex_debug.o ./boost/regex/src/instances.o ./boost/regex/src/icu.o ./boost/regex/src/usinstances.o ./boost/regex/src/regex.o ./boost/regex/src/wide_posix_api.o ./boost/regex/src/regex_traits_defaults.o ./boost/regex/src/winstances.o ./boost/regex/src/wc_regex_traits.o ./boost/regex/src/c_regex_traits.o ./boost/regex/src/cpp_regex_traits.o ./boost/regex/src/static_mutex.o ./boost/regex/src/w32_regex_traits.o ./pwiz/data/msdata/Version.o ./pwiz/utility/minimxml/XMLWriter.o ./pwiz/utility/minimxml/SAXParser.o ./boost/iostreams/src/zlib.o ./boost/thread/src/pthread/once.o ./boost/filesystem/src/operations.o ./pwiz/data/common/MemoryIndex.o ./pwiz/data/common/CVTranslator.o ./pwiz/data/common/cv.o ./pwiz/data/common/ParamTypes.o ./pwiz/data/common/BinaryIndexStream.o ./pwiz/data/common/diff_std.o ./pwiz/data/msdata/SpectrumList_MGF.o ./pwiz/data/msdata/DefaultReaderList.o ./pwiz/data/msdata/ChromatogramList_mzML.o ./pwiz/data/msdata/examples.o ./pwiz/data/msdata/Serializer_mzML.o ./pwiz/data/msdata/Serializer_MSn.o ./pwiz/data/msdata/Reader.o ./pwiz/data/msdata/Serializer_MGF.o ./pwiz/data/msdata/Serializer_mzXML.o ./pwiz/data/msdata/SpectrumList_mzML.o ./pwiz/data/msdata/SpectrumList_MSn.o ./pwiz/data/msdata/BinaryDataEncoder.o ./pwiz/data/msdata/Diff.o ./pwiz/data/msdata/MSData.o ./pwiz/data/msdata/References.o ./pwiz/data/msdata/SpectrumList_mzXML.o ./pwiz/data/msdata/IO.o ./pwiz/data/msdata/SpectrumList_BTDX.o ./pwiz/data/msdata/SpectrumInfo.o ./pwiz/data/msdata/RAMPAdapter.o ./pwiz/data/msdata/LegacyAdapter.o ./pwiz/data/msdata/SpectrumIterator.o ./pwiz/data/msdata/MSDataFile.o ./pwiz/data/msdata/SpectrumListCache.o ./pwiz/utility/misc/IntegerSet.o ./pwiz/utility/misc/Base64.o ./pwiz/utility/misc/IterationListener.o ./pwiz/utility/misc/MSIHandler.o ./pwiz/utility/misc/Filesystem.o ./pwiz/utility/misc/TabReader.o ./pwiz/utility/misc/random_access_compressed_ifstream.o ./pwiz/utility/misc/SHA1.o ./pwiz/utility/misc/SHA1Calculator.o ./pwiz/utility/misc/sha1calc.o ./random_access_gzFile.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c cramp.cpp -o cramp.o
cramp.cpp:4:1: warning: "/*" within comment
cramp.h: In constructor 'cRamp::cRamp(const char*, bool)':
cramp.h:143: warning: 'cRamp::m_declaredScansOnly' will be initialized after
cramp.h:142: warning: 'rampRunInfo* cRamp::m_runInfo'
cramp.cpp:59: warning: when initialized here
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c ramp_base64.cpp -o ramp_base64.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c ramp.cpp -o ramp.o
ramp.cpp: In function 'RAMPFILE* rampOpenFile(const char*)':
ramp.cpp:201: warning: unused variable 'fgot'
ramp.cpp: In function 'ramp_fileoffset_t getIndexOffset(RAMPFILE*)':
ramp.cpp:378: warning: unused variable 'nread'
ramp.cpp: In function 'ramp_fileoffset_t* readIndex(RAMPFILE*, ramp_fileoffset_t, int*)':
ramp.cpp:555: warning: unused variable 'fgot'
ramp.cpp:591: warning: unused variable 'fgot'
ramp.cpp:627: warning: unused variable 'fgot'
ramp.cpp: In function 'void readHeader(RAMPFILE*, ramp_fileoffset_t, ScanHeaderStruct*)':
ramp.cpp:1133: warning: unused variable 'fgot'
ramp.cpp: In function 'int readMsLevel(RAMPFILE*, ramp_fileoffset_t)':
ramp.cpp:1211: warning: unused variable 'fgot'
ramp.cpp:1207: warning: unused variable 'fgot'
ramp.cpp: In function 'char* rampConstructInputPath(char*, int, const char*, const char*)':
ramp.cpp:1405: warning: comparison between signed and unsigned integer expressions
ramp.cpp: In function 'RAMPREAL* readPeaks(RAMPFILE*, ramp_fileoffset_t)':
ramp.cpp:1705: warning: unused variable 'nread'
ramp.cpp:1878: warning: unused variable 'fgot'
ramp.cpp:1922: warning: unused variable 'nread'
ramp.cpp:1803: warning: unused variable 'fgot'
ramp.cpp: In function 'void readMSRun(RAMPFILE*, RunHeaderStruct*)':
ramp.cpp:2080: warning: unused variable 'fgot'
ramp.cpp:2100: warning: unused variable 'fgot'
ramp.cpp:2076: warning: unused variable 'fgot'
ramp.cpp: In function 'InstrumentStruct* getInstrumentStruct(RAMPFILE*)':
ramp.cpp:2242: warning: unused variable 'fgot'
ramp.cpp:2278: warning: unused variable 'fgot'
ramp.cpp:2232: warning: unused variable 'fgot'
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c RcppRamp.cpp -o RcppRamp.o
RcppRamp.cpp: In member function 'Rcpp::DataFrame RcppRamp::getAllScanHeaderInfo()':
RcppRamp.cpp:170: warning: unused variable 'info'
RcppRamp.cpp: In member function 'Rcpp::NumericMatrix RcppRamp::get3DMap(std::vector<int, std::allocator<int> >, double, double, double)':
RcppRamp.cpp:309: warning: comparison between signed and unsigned integer expressions
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c RcppRampModule.cpp -o RcppRampModule.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -pedantic -c rnetCDF.c -o rnetCDF.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/system/src/error_code.cpp -o boost/system/src/error_code.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/posix_api.cpp -o boost/regex/src/posix_api.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/fileiter.cpp -o boost/regex/src/fileiter.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex_raw_buffer.cpp -o boost/regex/src/regex_raw_buffer.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/cregex.cpp -o boost/regex/src/cregex.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex_debug.cpp -o boost/regex/src/regex_debug.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/instances.cpp -o boost/regex/src/instances.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/icu.cpp -o boost/regex/src/icu.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/usinstances.cpp -o boost/regex/src/usinstances.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex.cpp -o boost/regex/src/regex.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/wide_posix_api.cpp -o boost/regex/src/wide_posix_api.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex_traits_defaults.cpp -o boost/regex/src/regex_traits_defaults.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/winstances.cpp -o boost/regex/src/winstances.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/wc_regex_traits.cpp -o boost/regex/src/wc_regex_traits.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/c_regex_traits.cpp -o boost/regex/src/c_regex_traits.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/cpp_regex_traits.cpp -o boost/regex/src/cpp_regex_traits.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/static_mutex.cpp -o boost/regex/src/static_mutex.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/w32_regex_traits.cpp -o boost/regex/src/w32_regex_traits.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Version.cpp -o pwiz/data/msdata/Version.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/minimxml/XMLWriter.cpp -o pwiz/utility/minimxml/XMLWriter.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/minimxml/SAXParser.cpp -o pwiz/utility/minimxml/SAXParser.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/iostreams/src/zlib.cpp -o boost/iostreams/src/zlib.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/thread/src/pthread/once.cpp -o boost/thread/src/pthread/once.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/filesystem/src/operations.cpp -o boost/filesystem/src/operations.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/MemoryIndex.cpp -o pwiz/data/common/MemoryIndex.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/CVTranslator.cpp -o pwiz/data/common/CVTranslator.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/cv.cpp -o pwiz/data/common/cv.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/ParamTypes.cpp -o pwiz/data/common/ParamTypes.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/BinaryIndexStream.cpp -o pwiz/data/common/BinaryIndexStream.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/diff_std.cpp -o pwiz/data/common/diff_std.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_MGF.cpp -o pwiz/data/msdata/SpectrumList_MGF.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/DefaultReaderList.cpp -o pwiz/data/msdata/DefaultReaderList.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/ChromatogramList_mzML.cpp -o pwiz/data/msdata/ChromatogramList_mzML.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/examples.cpp -o pwiz/data/msdata/examples.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_mzML.cpp -o pwiz/data/msdata/Serializer_mzML.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_MSn.cpp -o pwiz/data/msdata/Serializer_MSn.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Reader.cpp -o pwiz/data/msdata/Reader.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_MGF.cpp -o pwiz/data/msdata/Serializer_MGF.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_mzXML.cpp -o pwiz/data/msdata/Serializer_mzXML.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_mzML.cpp -o pwiz/data/msdata/SpectrumList_mzML.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_MSn.cpp -o pwiz/data/msdata/SpectrumList_MSn.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/BinaryDataEncoder.cpp -o pwiz/data/msdata/BinaryDataEncoder.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Diff.cpp -o pwiz/data/msdata/Diff.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/MSData.cpp -o pwiz/data/msdata/MSData.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/References.cpp -o pwiz/data/msdata/References.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_mzXML.cpp -o pwiz/data/msdata/SpectrumList_mzXML.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/IO.cpp -o pwiz/data/msdata/IO.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_BTDX.cpp -o pwiz/data/msdata/SpectrumList_BTDX.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumInfo.cpp -o pwiz/data/msdata/SpectrumInfo.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/RAMPAdapter.cpp -o pwiz/data/msdata/RAMPAdapter.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/LegacyAdapter.cpp -o pwiz/data/msdata/LegacyAdapter.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumIterator.cpp -o pwiz/data/msdata/SpectrumIterator.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/MSDataFile.cpp -o pwiz/data/msdata/MSDataFile.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumListCache.cpp -o pwiz/data/msdata/SpectrumListCache.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/IntegerSet.cpp -o pwiz/utility/misc/IntegerSet.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/Base64.cpp -o pwiz/utility/misc/Base64.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/IterationListener.cpp -o pwiz/utility/misc/IterationListener.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/MSIHandler.cpp -o pwiz/utility/misc/MSIHandler.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/Filesystem.cpp -o pwiz/utility/misc/Filesystem.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/TabReader.cpp -o pwiz/utility/misc/TabReader.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/random_access_compressed_ifstream.cpp -o pwiz/utility/misc/random_access_compressed_ifstream.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/SHA1.cpp -o pwiz/utility/misc/SHA1.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/SHA1Calculator.cpp -o pwiz/utility/misc/SHA1Calculator.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/sha1calc.cpp -o pwiz/utility/misc/sha1calc.o
g++ -arch ppc -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c random_access_gzFile.cpp -o random_access_gzFile.o
g++ -arch ppc -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o mzR.so cramp.o ramp_base64.o ramp.o RcppRamp.o RcppRampModule.o rnetCDF.o ./boost/system/src/error_code.o ./boost/regex/src/posix_api.o ./boost/regex/src/fileiter.o ./boost/regex/src/regex_raw_buffer.o ./boost/regex/src/cregex.o ./boost/regex/src/regex_debug.o ./boost/regex/src/instances.o ./boost/regex/src/icu.o ./boost/regex/src/usinstances.o ./boost/regex/src/regex.o ./boost/regex/src/wide_posix_api.o ./boost/regex/src/regex_traits_defaults.o ./boost/regex/src/winstances.o ./boost/regex/src/wc_regex_traits.o ./boost/regex/src/c_regex_traits.o ./boost/regex/src/cpp_regex_traits.o ./boost/regex/src/static_mutex.o ./boost/regex/src/w32_regex_traits.o ./pwiz/data/msdata/Version.o ./pwiz/utility/minimxml/XMLWriter.o ./pwiz/utility/minimxml/SAXParser.o ./boost/iostreams/src/zlib.o ./boost/thread/src/pthread/once.o ./boost/filesystem/src/operations.o ./pwiz/data/common/MemoryIndex.o ./pwiz/data/common/CVTranslator.o ./pwiz/data/common/cv.o ./pwiz/data/common/ParamTypes.o ./pwiz/data/common/BinaryIndexStream.o ./pwiz/data/common/diff_std.o ./pwiz/data/msdata/SpectrumList_MGF.o ./pwiz/data/msdata/DefaultReaderList.o ./pwiz/data/msdata/ChromatogramList_mzML.o ./pwiz/data/msdata/examples.o ./pwiz/data/msdata/Serializer_mzML.o ./pwiz/data/msdata/Serializer_MSn.o ./pwiz/data/msdata/Reader.o ./pwiz/data/msdata/Serializer_MGF.o ./pwiz/data/msdata/Serializer_mzXML.o ./pwiz/data/msdata/SpectrumList_mzML.o ./pwiz/data/msdata/SpectrumList_MSn.o ./pwiz/data/msdata/BinaryDataEncoder.o ./pwiz/data/msdata/Diff.o ./pwiz/data/msdata/MSData.o ./pwiz/data/msdata/References.o ./pwiz/data/msdata/SpectrumList_mzXML.o ./pwiz/data/msdata/IO.o ./pwiz/data/msdata/SpectrumList_BTDX.o ./pwiz/data/msdata/SpectrumInfo.o ./pwiz/data/msdata/RAMPAdapter.o ./pwiz/data/msdata/LegacyAdapter.o ./pwiz/data/msdata/SpectrumIterator.o ./pwiz/data/msdata/MSDataFile.o ./pwiz/data/msdata/SpectrumListCache.o ./pwiz/utility/misc/IntegerSet.o ./pwiz/utility/misc/Base64.o ./pwiz/utility/misc/IterationListener.o ./pwiz/utility/misc/MSIHandler.o ./pwiz/utility/misc/Filesystem.o ./pwiz/utility/misc/TabReader.o ./pwiz/utility/misc/random_access_compressed_ifstream.o ./pwiz/utility/misc/SHA1.o ./pwiz/utility/misc/SHA1Calculator.o ./pwiz/utility/misc/sha1calc.o ./random_access_gzFile.o /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/lib/ppc/libRcpp.a -lpthread -L/usr/local/lib -lnetcdf -lhdf5_hl -lhdf5 -lm -lz -lcurl -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.9-bioc/meat/mzR.buildbin-libdir/mzR/libs/ppc
* DONE (mzR)
>>>>>>>
>>>>>>> FIXING LINKS FOR mzR.buildbin-libdir/mzR/libs/ppc/mzR.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgcc_s.1.dylib" "mzR.buildbin-libdir/mzR/libs/ppc/mzR.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgfortran.2.dylib" "mzR.buildbin-libdir/mzR/libs/ppc/mzR.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.5.2.dylib" "mzR.buildbin-libdir/mzR/libs/ppc/mzR.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.dylib" "mzR.buildbin-libdir/mzR/libs/ppc/mzR.so"
>>>>>>>
>>>>>>> INSTALLATION OF x86_64 LIBS WITH 'R_ARCH=/x86_64 R CMD INSTALL --preclean --no-multiarch --no-test-load --library=mzR.buildbin-libdir --libs-only mzR_1.0.2.tar.gz'
>>>>>>>
* installing *source* package 'mzR' ...
** libs
*** arch - x86_64
rm -f cramp.o ramp_base64.o ramp.o RcppRamp.o RcppRampModule.o rnetCDF.o ./boost/system/src/error_code.o ./boost/regex/src/posix_api.o ./boost/regex/src/fileiter.o ./boost/regex/src/regex_raw_buffer.o ./boost/regex/src/cregex.o ./boost/regex/src/regex_debug.o ./boost/regex/src/instances.o ./boost/regex/src/icu.o ./boost/regex/src/usinstances.o ./boost/regex/src/regex.o ./boost/regex/src/wide_posix_api.o ./boost/regex/src/regex_traits_defaults.o ./boost/regex/src/winstances.o ./boost/regex/src/wc_regex_traits.o ./boost/regex/src/c_regex_traits.o ./boost/regex/src/cpp_regex_traits.o ./boost/regex/src/static_mutex.o ./boost/regex/src/w32_regex_traits.o ./pwiz/data/msdata/Version.o ./pwiz/utility/minimxml/XMLWriter.o ./pwiz/utility/minimxml/SAXParser.o ./boost/iostreams/src/zlib.o ./boost/thread/src/pthread/once.o ./boost/filesystem/src/operations.o ./pwiz/data/common/MemoryIndex.o ./pwiz/data/common/CVTranslator.o ./pwiz/data/common/cv.o ./pwiz/data/common/ParamTypes.o ./pwiz/data/common/BinaryIndexStream.o ./pwiz/data/common/diff_std.o ./pwiz/data/msdata/SpectrumList_MGF.o ./pwiz/data/msdata/DefaultReaderList.o ./pwiz/data/msdata/ChromatogramList_mzML.o ./pwiz/data/msdata/examples.o ./pwiz/data/msdata/Serializer_mzML.o ./pwiz/data/msdata/Serializer_MSn.o ./pwiz/data/msdata/Reader.o ./pwiz/data/msdata/Serializer_MGF.o ./pwiz/data/msdata/Serializer_mzXML.o ./pwiz/data/msdata/SpectrumList_mzML.o ./pwiz/data/msdata/SpectrumList_MSn.o ./pwiz/data/msdata/BinaryDataEncoder.o ./pwiz/data/msdata/Diff.o ./pwiz/data/msdata/MSData.o ./pwiz/data/msdata/References.o ./pwiz/data/msdata/SpectrumList_mzXML.o ./pwiz/data/msdata/IO.o ./pwiz/data/msdata/SpectrumList_BTDX.o ./pwiz/data/msdata/SpectrumInfo.o ./pwiz/data/msdata/RAMPAdapter.o ./pwiz/data/msdata/LegacyAdapter.o ./pwiz/data/msdata/SpectrumIterator.o ./pwiz/data/msdata/MSDataFile.o ./pwiz/data/msdata/SpectrumListCache.o ./pwiz/utility/misc/IntegerSet.o ./pwiz/utility/misc/Base64.o ./pwiz/utility/misc/IterationListener.o ./pwiz/utility/misc/MSIHandler.o ./pwiz/utility/misc/Filesystem.o ./pwiz/utility/misc/TabReader.o ./pwiz/utility/misc/random_access_compressed_ifstream.o ./pwiz/utility/misc/SHA1.o ./pwiz/utility/misc/SHA1Calculator.o ./pwiz/utility/misc/sha1calc.o ./random_access_gzFile.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c cramp.cpp -o cramp.o
cramp.cpp:4:1: warning: "/*" within comment
cramp.h: In constructor 'cRamp::cRamp(const char*, bool)':
cramp.h:143: warning: 'cRamp::m_declaredScansOnly' will be initialized after
cramp.h:142: warning: 'rampRunInfo* cRamp::m_runInfo'
cramp.cpp:59: warning: when initialized here
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c ramp_base64.cpp -o ramp_base64.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c ramp.cpp -o ramp.o
ramp.cpp: In function 'RAMPFILE* rampOpenFile(const char*)':
ramp.cpp:201: warning: unused variable 'fgot'
ramp.cpp: In function 'ramp_fileoffset_t getIndexOffset(RAMPFILE*)':
ramp.cpp:378: warning: unused variable 'nread'
ramp.cpp: In function 'ramp_fileoffset_t* readIndex(RAMPFILE*, ramp_fileoffset_t, int*)':
ramp.cpp:555: warning: unused variable 'fgot'
ramp.cpp:591: warning: unused variable 'fgot'
ramp.cpp:627: warning: unused variable 'fgot'
ramp.cpp: In function 'void readHeader(RAMPFILE*, ramp_fileoffset_t, ScanHeaderStruct*)':
ramp.cpp:1133: warning: unused variable 'fgot'
ramp.cpp: In function 'int readMsLevel(RAMPFILE*, ramp_fileoffset_t)':
ramp.cpp:1211: warning: unused variable 'fgot'
ramp.cpp:1207: warning: unused variable 'fgot'
ramp.cpp: In function 'char* rampConstructInputPath(char*, int, const char*, const char*)':
ramp.cpp:1405: warning: comparison between signed and unsigned integer expressions
ramp.cpp: In function 'RAMPREAL* readPeaks(RAMPFILE*, ramp_fileoffset_t)':
ramp.cpp:1705: warning: unused variable 'nread'
ramp.cpp:1878: warning: unused variable 'fgot'
ramp.cpp:1922: warning: unused variable 'nread'
ramp.cpp:1803: warning: unused variable 'fgot'
ramp.cpp: In function 'void readMSRun(RAMPFILE*, RunHeaderStruct*)':
ramp.cpp:2080: warning: unused variable 'fgot'
ramp.cpp:2100: warning: unused variable 'fgot'
ramp.cpp:2076: warning: unused variable 'fgot'
ramp.cpp: In function 'InstrumentStruct* getInstrumentStruct(RAMPFILE*)':
ramp.cpp:2242: warning: unused variable 'fgot'
ramp.cpp:2278: warning: unused variable 'fgot'
ramp.cpp:2232: warning: unused variable 'fgot'
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c RcppRamp.cpp -o RcppRamp.o
RcppRamp.cpp: In member function 'Rcpp::DataFrame RcppRamp::getAllScanHeaderInfo()':
RcppRamp.cpp:170: warning: unused variable 'info'
RcppRamp.cpp: In member function 'Rcpp::NumericMatrix RcppRamp::get3DMap(std::vector<int, std::allocator<int> >, double, double, double)':
RcppRamp.cpp:309: warning: comparison between signed and unsigned integer expressions
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c RcppRampModule.cpp -o RcppRampModule.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -pedantic -c rnetCDF.c -o rnetCDF.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/system/src/error_code.cpp -o boost/system/src/error_code.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/posix_api.cpp -o boost/regex/src/posix_api.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/fileiter.cpp -o boost/regex/src/fileiter.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex_raw_buffer.cpp -o boost/regex/src/regex_raw_buffer.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/cregex.cpp -o boost/regex/src/cregex.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex_debug.cpp -o boost/regex/src/regex_debug.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/instances.cpp -o boost/regex/src/instances.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/icu.cpp -o boost/regex/src/icu.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/usinstances.cpp -o boost/regex/src/usinstances.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex.cpp -o boost/regex/src/regex.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/wide_posix_api.cpp -o boost/regex/src/wide_posix_api.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/regex_traits_defaults.cpp -o boost/regex/src/regex_traits_defaults.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/winstances.cpp -o boost/regex/src/winstances.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/wc_regex_traits.cpp -o boost/regex/src/wc_regex_traits.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/c_regex_traits.cpp -o boost/regex/src/c_regex_traits.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/cpp_regex_traits.cpp -o boost/regex/src/cpp_regex_traits.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/static_mutex.cpp -o boost/regex/src/static_mutex.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/regex/src/w32_regex_traits.cpp -o boost/regex/src/w32_regex_traits.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Version.cpp -o pwiz/data/msdata/Version.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/minimxml/XMLWriter.cpp -o pwiz/utility/minimxml/XMLWriter.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/minimxml/SAXParser.cpp -o pwiz/utility/minimxml/SAXParser.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/iostreams/src/zlib.cpp -o boost/iostreams/src/zlib.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/thread/src/pthread/once.cpp -o boost/thread/src/pthread/once.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c boost/filesystem/src/operations.cpp -o boost/filesystem/src/operations.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/MemoryIndex.cpp -o pwiz/data/common/MemoryIndex.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/CVTranslator.cpp -o pwiz/data/common/CVTranslator.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/cv.cpp -o pwiz/data/common/cv.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/ParamTypes.cpp -o pwiz/data/common/ParamTypes.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/BinaryIndexStream.cpp -o pwiz/data/common/BinaryIndexStream.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/common/diff_std.cpp -o pwiz/data/common/diff_std.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_MGF.cpp -o pwiz/data/msdata/SpectrumList_MGF.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/DefaultReaderList.cpp -o pwiz/data/msdata/DefaultReaderList.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/ChromatogramList_mzML.cpp -o pwiz/data/msdata/ChromatogramList_mzML.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/examples.cpp -o pwiz/data/msdata/examples.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_mzML.cpp -o pwiz/data/msdata/Serializer_mzML.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_MSn.cpp -o pwiz/data/msdata/Serializer_MSn.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Reader.cpp -o pwiz/data/msdata/Reader.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_MGF.cpp -o pwiz/data/msdata/Serializer_MGF.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Serializer_mzXML.cpp -o pwiz/data/msdata/Serializer_mzXML.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_mzML.cpp -o pwiz/data/msdata/SpectrumList_mzML.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_MSn.cpp -o pwiz/data/msdata/SpectrumList_MSn.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/BinaryDataEncoder.cpp -o pwiz/data/msdata/BinaryDataEncoder.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/Diff.cpp -o pwiz/data/msdata/Diff.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/MSData.cpp -o pwiz/data/msdata/MSData.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/References.cpp -o pwiz/data/msdata/References.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_mzXML.cpp -o pwiz/data/msdata/SpectrumList_mzXML.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/IO.cpp -o pwiz/data/msdata/IO.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumList_BTDX.cpp -o pwiz/data/msdata/SpectrumList_BTDX.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumInfo.cpp -o pwiz/data/msdata/SpectrumInfo.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/RAMPAdapter.cpp -o pwiz/data/msdata/RAMPAdapter.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/LegacyAdapter.cpp -o pwiz/data/msdata/LegacyAdapter.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumIterator.cpp -o pwiz/data/msdata/SpectrumIterator.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/MSDataFile.cpp -o pwiz/data/msdata/MSDataFile.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/data/msdata/SpectrumListCache.cpp -o pwiz/data/msdata/SpectrumListCache.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/IntegerSet.cpp -o pwiz/utility/misc/IntegerSet.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/Base64.cpp -o pwiz/utility/misc/Base64.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/IterationListener.cpp -o pwiz/utility/misc/IterationListener.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/MSIHandler.cpp -o pwiz/utility/misc/MSIHandler.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/Filesystem.cpp -o pwiz/utility/misc/Filesystem.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/TabReader.cpp -o pwiz/utility/misc/TabReader.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/random_access_compressed_ifstream.cpp -o pwiz/utility/misc/random_access_compressed_ifstream.o
pwiz/utility/misc/random_access_compressed_ifstream.cpp: In member function 'virtual int pwiz::util::random_access_compressed_streambuf::underflow()':
pwiz/utility/misc/random_access_compressed_ifstream.cpp:485: warning: comparison between signed and unsigned integer expressions
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/SHA1.cpp -o pwiz/utility/misc/SHA1.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/SHA1Calculator.cpp -o pwiz/utility/misc/SHA1Calculator.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c pwiz/utility/misc/sha1calc.cpp -o pwiz/utility/misc/sha1calc.o
g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -D_LARGEFILE_SOURCE -I./boost_aux/ -I. -DHAVE_PWIZ_MZML_LIB -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/include" -fPIC -g -O2 -Wall -fasm-blocks -c random_access_gzFile.cpp -o random_access_gzFile.o
g++ -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o mzR.so cramp.o ramp_base64.o ramp.o RcppRamp.o RcppRampModule.o rnetCDF.o ./boost/system/src/error_code.o ./boost/regex/src/posix_api.o ./boost/regex/src/fileiter.o ./boost/regex/src/regex_raw_buffer.o ./boost/regex/src/cregex.o ./boost/regex/src/regex_debug.o ./boost/regex/src/instances.o ./boost/regex/src/icu.o ./boost/regex/src/usinstances.o ./boost/regex/src/regex.o ./boost/regex/src/wide_posix_api.o ./boost/regex/src/regex_traits_defaults.o ./boost/regex/src/winstances.o ./boost/regex/src/wc_regex_traits.o ./boost/regex/src/c_regex_traits.o ./boost/regex/src/cpp_regex_traits.o ./boost/regex/src/static_mutex.o ./boost/regex/src/w32_regex_traits.o ./pwiz/data/msdata/Version.o ./pwiz/utility/minimxml/XMLWriter.o ./pwiz/utility/minimxml/SAXParser.o ./boost/iostreams/src/zlib.o ./boost/thread/src/pthread/once.o ./boost/filesystem/src/operations.o ./pwiz/data/common/MemoryIndex.o ./pwiz/data/common/CVTranslator.o ./pwiz/data/common/cv.o ./pwiz/data/common/ParamTypes.o ./pwiz/data/common/BinaryIndexStream.o ./pwiz/data/common/diff_std.o ./pwiz/data/msdata/SpectrumList_MGF.o ./pwiz/data/msdata/DefaultReaderList.o ./pwiz/data/msdata/ChromatogramList_mzML.o ./pwiz/data/msdata/examples.o ./pwiz/data/msdata/Serializer_mzML.o ./pwiz/data/msdata/Serializer_MSn.o ./pwiz/data/msdata/Reader.o ./pwiz/data/msdata/Serializer_MGF.o ./pwiz/data/msdata/Serializer_mzXML.o ./pwiz/data/msdata/SpectrumList_mzML.o ./pwiz/data/msdata/SpectrumList_MSn.o ./pwiz/data/msdata/BinaryDataEncoder.o ./pwiz/data/msdata/Diff.o ./pwiz/data/msdata/MSData.o ./pwiz/data/msdata/References.o ./pwiz/data/msdata/SpectrumList_mzXML.o ./pwiz/data/msdata/IO.o ./pwiz/data/msdata/SpectrumList_BTDX.o ./pwiz/data/msdata/SpectrumInfo.o ./pwiz/data/msdata/RAMPAdapter.o ./pwiz/data/msdata/LegacyAdapter.o ./pwiz/data/msdata/SpectrumIterator.o ./pwiz/data/msdata/MSDataFile.o ./pwiz/data/msdata/SpectrumListCache.o ./pwiz/utility/misc/IntegerSet.o ./pwiz/utility/misc/Base64.o ./pwiz/utility/misc/IterationListener.o ./pwiz/utility/misc/MSIHandler.o ./pwiz/utility/misc/Filesystem.o ./pwiz/utility/misc/TabReader.o ./pwiz/utility/misc/random_access_compressed_ifstream.o ./pwiz/utility/misc/SHA1.o ./pwiz/utility/misc/SHA1Calculator.o ./pwiz/utility/misc/sha1calc.o ./random_access_gzFile.o /Library/Frameworks/R.framework/Versions/2.14/Resources/library/Rcpp/lib/x86_64/libRcpp.a -lpthread -L/usr/local/lib -lnetcdf -lhdf5_hl -lhdf5 -lm -lz -lcurl -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.9-bioc/meat/mzR.buildbin-libdir/mzR/libs/x86_64
* DONE (mzR)
>>>>>>>
>>>>>>> FIXING LINKS FOR mzR.buildbin-libdir/mzR/libs/x86_64/mzR.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgcc_s.1.dylib" "mzR.buildbin-libdir/mzR/libs/x86_64/mzR.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libgfortran.2.dylib" "mzR.buildbin-libdir/mzR/libs/x86_64/mzR.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.5.2.dylib" "mzR.buildbin-libdir/mzR/libs/x86_64/mzR.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/2.14/Resources/lib/libreadline.dylib" "mzR.buildbin-libdir/mzR/libs/x86_64/mzR.so"