xcms 1.30.3
Ralf Tautenhahn
| 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/xcms | | Last Changed Rev: 60901 / Revision: 64395 | | Last Changed Date: 2011-11-27 08:24:47 -0800 (Sun, 27 Nov 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | OK | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | [ OK ] |
| pitt | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
install for i386
* installing *source* package 'xcms' ...
** libs
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O2 -Wall -mtune=core2 -c obiwarp/mat.cpp -o obiwarp/mat.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O2 -Wall -mtune=core2 -c obiwarp/vec.cpp -o obiwarp/vec.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O2 -Wall -mtune=core2 -c obiwarp/xcms_dynprog.cpp -o obiwarp/xcms_dynprog.o
obiwarp/xcms_dynprog.cpp: In member function 'void DynProg::find_path(VEC::MatF&, VEC::VecF&, int, float, float, int, float)':
obiwarp/xcms_dynprog.cpp:1110:9: warning: variable 'bestscore' set but not used [-Wunused-but-set-variable]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O2 -Wall -mtune=core2 -c obiwarp/xcms_lmat.cpp -o obiwarp/xcms_lmat.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O2 -Wall -mtune=core2 -c obiwarp/xcms_obiwarp.cpp -o obiwarp/xcms_obiwarp.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O3 -Wall -std=gnu99 -mtune=core2 -fno-inline -c fastMatch.c -o fastMatch.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O3 -Wall -std=gnu99 -mtune=core2 -fno-inline -c mzClust_hclust.c -o mzClust_hclust.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O3 -Wall -std=gnu99 -mtune=core2 -fno-inline -c mzROI.c -o mzROI.o
mzROI.c: In function 'getMZ':
mzROI.c:486:17: warning: variable 'pintensity' set but not used [-Wunused-but-set-variable]
mzROI.c: In function 'findmzROI':
mzROI.c:538:41: warning: variable 'mzrangeTo' set but not used [-Wunused-but-set-variable]
mzROI.c:538:29: warning: variable 'mzrangeFrom' set but not used [-Wunused-but-set-variable]
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O3 -Wall -std=gnu99 -mtune=core2 -fno-inline -c netCDF.c -o netCDF.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O2 -Wall -mtune=core2 -c ramp_base64.cpp -o ramp_base64.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O2 -Wall -mtune=core2 -c ramp.cpp -o ramp.o
ramp.cpp: In function 'RAMPFILE* rampOpenFile(const char*)':
ramp.cpp:190:8: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'ramp_fileoffset_t getIndexOffset(RAMPFILE*)':
ramp.cpp:314:8: warning: variable 'nread_now' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'ramp_fileoffset_t* readIndex(RAMPFILE*, ramp_fileoffset_t, int*)':
ramp.cpp:392:10: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'void readHeader(RAMPFILE*, ramp_fileoffset_t, ScanHeaderStruct*)':
ramp.cpp:855:10: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'int readMsLevel(RAMPFILE*, ramp_fileoffset_t)':
ramp.cpp:1176:10: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'RAMPREAL* readPeaks(RAMPFILE*, ramp_fileoffset_t)':
ramp.cpp:1814:31: warning: variable 'pEndAttrValue' set but not used [-Wunused-but-set-variable]
ramp.cpp:1833:31: warning: variable 'pEndAttrValue' set but not used [-Wunused-but-set-variable]
ramp.cpp:1938:15: warning: variable 'err' set but not used [-Wunused-but-set-variable]
ramp.cpp:1553:8: warning: variable 'nread_now' set but not used [-Wunused-but-set-variable]
ramp.cpp:1592:10: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'void readMSRun(RAMPFILE*, RunHeaderStruct*)':
ramp.cpp:2043:10: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'InstrumentStruct* getInstrumentStruct(RAMPFILE*)':
ramp.cpp:2176:9: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O2 -Wall -mtune=core2 -c rampR.cpp -o rampR.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O3 -Wall -std=gnu99 -mtune=core2 -fno-inline -c util.c -o util.o
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//i386 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -O3 -Wall -std=gnu99 -mtune=core2 -fno-inline -c xcms.c -o xcms.o
g++ -shared -s -static-libgcc -o xcms.dll tmp.def obiwarp/mat.o obiwarp/vec.o obiwarp/xcms_dynprog.o obiwarp/xcms_lmat.o obiwarp/xcms_obiwarp.o fastMatch.o mzClust_hclust.o mzROI.o netCDF.o ramp_base64.o ramp.o rampR.o util.o xcms.o -L./win//i386 -lws2_32 -lnetcdf -lz -LD:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/xcms.buildbin-libdir/xcms/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
'xcmsDirect.Rnw'
'xcmsInstall.Rnw'
'xcmsMSn.Rnw'
'xcmsPreprocess.Rnw'
** testing if installed package can be loaded
add DLL for x64
* installing *source* package 'xcms' ...
** libs
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c obiwarp/mat.cpp -o obiwarp/mat.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c obiwarp/vec.cpp -o obiwarp/vec.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c obiwarp/xcms_dynprog.cpp -o obiwarp/xcms_dynprog.o
obiwarp/xcms_dynprog.cpp: In member function 'void DynProg::find_path(VEC::MatF&, VEC::VecF&, int, float, float, int, float)':
obiwarp/xcms_dynprog.cpp:1110:9: warning: variable 'bestscore' set but not used [-Wunused-but-set-variable]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c obiwarp/xcms_lmat.cpp -o obiwarp/xcms_lmat.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c obiwarp/xcms_obiwarp.cpp -o obiwarp/xcms_obiwarp.o
gcc -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -fno-inline -c fastMatch.c -o fastMatch.o
gcc -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -fno-inline -c mzClust_hclust.c -o mzClust_hclust.o
gcc -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -fno-inline -c mzROI.c -o mzROI.o
mzROI.c: In function 'getMZ':
mzROI.c:486:17: warning: variable 'pintensity' set but not used [-Wunused-but-set-variable]
mzROI.c: In function 'findmzROI':
mzROI.c:538:41: warning: variable 'mzrangeTo' set but not used [-Wunused-but-set-variable]
mzROI.c:538:29: warning: variable 'mzrangeFrom' set but not used [-Wunused-but-set-variable]
gcc -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -fno-inline -c netCDF.c -o netCDF.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c ramp_base64.cpp -o ramp_base64.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c ramp.cpp -o ramp.o
ramp.cpp: In function 'RAMPFILE* rampOpenFile(const char*)':
ramp.cpp:190:8: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'ramp_fileoffset_t getIndexOffset(RAMPFILE*)':
ramp.cpp:314:8: warning: variable 'nread_now' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'ramp_fileoffset_t* readIndex(RAMPFILE*, ramp_fileoffset_t, int*)':
ramp.cpp:392:10: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'void readHeader(RAMPFILE*, ramp_fileoffset_t, ScanHeaderStruct*)':
ramp.cpp:855:10: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'int readMsLevel(RAMPFILE*, ramp_fileoffset_t)':
ramp.cpp:1176:10: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'RAMPREAL* readPeaks(RAMPFILE*, ramp_fileoffset_t)':
ramp.cpp:1814:31: warning: variable 'pEndAttrValue' set but not used [-Wunused-but-set-variable]
ramp.cpp:1833:31: warning: variable 'pEndAttrValue' set but not used [-Wunused-but-set-variable]
ramp.cpp:1938:15: warning: variable 'err' set but not used [-Wunused-but-set-variable]
ramp.cpp:1553:8: warning: variable 'nread_now' set but not used [-Wunused-but-set-variable]
ramp.cpp:1592:10: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'void readMSRun(RAMPFILE*, RunHeaderStruct*)':
ramp.cpp:2043:10: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
ramp.cpp: In function 'InstrumentStruct* getInstrumentStruct(RAMPFILE*)':
ramp.cpp:2176:9: warning: variable 'bufptr' set but not used [-Wunused-but-set-variable]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c rampR.cpp -o rampR.o
gcc -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -fno-inline -c util.c -o util.o
gcc -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I./win//x64 -D_MSC_VER -DWIN32_LEAN_AND_MEAN -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -fno-inline -c xcms.c -o xcms.o
g++ -m64 -shared -s -static-libgcc -o xcms.dll tmp.def obiwarp/mat.o obiwarp/vec.o obiwarp/xcms_dynprog.o obiwarp/xcms_lmat.o obiwarp/xcms_obiwarp.o fastMatch.o mzClust_hclust.o mzROI.o netCDF.o ramp_base64.o ramp.o rampR.o util.o xcms.o -L./win//x64 -lws2_32 -lnetcdf -lz -Ld:/RCompile/CRANpkg/extralibs64/local/lib/x64 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LD:/biocbld/BBS-2˜1.9-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/xcms.buildbin-libdir/xcms/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'xcms' as xcms_1.30.3.zip
* DONE (xcms)