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Package 547/553HostnameOS / ArchBUILDCHECKBUILD BIN
xcms 1.32.0
Ralf Tautenhahn
Snapshot Date: 2012-09-23 17:01:39 -0700 (Sun, 23 Sep 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_10/madman/Rpacks/xcms
Last Changed Rev: 64678 / Revision: 69725
Last Changed Date: 2012-03-30 15:05:02 -0700 (Fri, 30 Mar 2012)
lamb2 Linux (openSUSE 11.4) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK [ OK ]
petty Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: xcms
Version: 1.32.0
Command: rm -rf xcms.buildbin-libdir && mkdir xcms.buildbin-libdir && E:\biocbld\bbs-2.10-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=xcms.buildbin-libdir xcms_1.32.0.tar.gz
StartedAt: 2012-09-24 03:32:05 -0700 (Mon, 24 Sep 2012)
EndedAt: 2012-09-24 03:32:49 -0700 (Mon, 24 Sep 2012)
EllapsedTime: 43.9 seconds
RetCode: 0
Status:  OK  
PackageFile: xcms_1.32.0.zip
PackageFileSize: 1.758 MiB

Command output


install for i386

* installing *source* package 'xcms' ...
** libs
g++  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O2 -Wall  -mtune=core2 -c massifquant/xcms_massifquant.cpp -o massifquant/xcms_massifquant.o
massifquant/xcms_massifquant.cpp: In function 'SEXPREC* massifquant(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
massifquant/xcms_massifquant.cpp:33:32: warning: unused variable 'list_names' [-Wunused-variable]
massifquant/xcms_massifquant.cpp:70:12: warning: unused variable 'maxScanNums' [-Wunused-variable]
g++  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O2 -Wall  -mtune=core2 -c massifquant/TrMgr.cpp -o massifquant/TrMgr.o
g++  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O2 -Wall  -mtune=core2 -c massifquant/Tracker.cpp -o massifquant/Tracker.o
g++  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O2 -Wall  -mtune=core2 -c massifquant/SegProc.cpp -o massifquant/SegProc.o
massifquant/SegProc.cpp: In member function 'void SegProc::collapseSubsets()':
massifquant/SegProc.cpp:119:13: warning: variable 'combinedUnions' set but not used [-Wunused-but-set-variable]
massifquant/SegProc.cpp: In member function 'double SegProc::Rf_pt(double, double, int, int)':
massifquant/SegProc.cpp:358:19: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
g++  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O2 -Wall  -mtune=core2 -c massifquant/DataKeeper.cpp -o massifquant/DataKeeper.o
g++  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O2 -Wall  -mtune=core2 -c massifquant/OpOverload.cpp -o massifquant/OpOverload.o
g++  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O2 -Wall  -mtune=core2 -c obiwarp/mat.cpp -o obiwarp/mat.o
g++  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O2 -Wall  -mtune=core2 -c obiwarp/vec.cpp -o obiwarp/vec.o
g++  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O2 -Wall  -mtune=core2 -c obiwarp/xcms_dynprog.cpp -o obiwarp/xcms_dynprog.o
obiwarp/xcms_dynprog.cpp: In member function 'void DynProg::score_mutual_info(VEC::MatF&, VEC::MatF&, VEC::MatF&, int)':
obiwarp/xcms_dynprog.cpp:732:7: warning: unused variable 'cols' [-Wunused-variable]
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"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O2 -Wall  -mtune=core2 -c obiwarp/xcms_lmat.cpp -o obiwarp/xcms_lmat.o
g++  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O2 -Wall  -mtune=core2 -c xcms_obiwarp.cpp -o xcms_obiwarp.o
gcc  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O3 -Wall  -std=gnu99 -mtune=core2 -fno-inline -c fastMatch.c -o fastMatch.o
gcc  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O3 -Wall  -std=gnu99 -mtune=core2 -fno-inline -c mzClust_hclust.c -o mzClust_hclust.o
gcc  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -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"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O3 -Wall  -std=gnu99 -mtune=core2 -fno-inline -c util.c -o util.o
gcc  -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG          -O3 -Wall  -std=gnu99 -mtune=core2 -fno-inline -c xcms.c -o xcms.o
g++ -shared -s -static-libgcc -o xcms.dll tmp.def massifquant/xcms_massifquant.o massifquant/TrMgr.o massifquant/Tracker.o massifquant/SegProc.o massifquant/DataKeeper.o massifquant/OpOverload.o obiwarp/mat.o obiwarp/vec.o obiwarp/xcms_dynprog.o obiwarp/xcms_lmat.o xcms_obiwarp.o fastMatch.o mzClust_hclust.o mzROI.o util.o xcms.o -LE:/biocbld/BBS-2~1.10-/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.10-bioc/meat/xcms.buildbin-libdir/xcms/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'xcmsDirect.Rnw' 
   'xcmsInstall.Rnw' 
   'xcmsMSn.Rnw' 
   'xcmsPreprocess.Rnw' 
** testing if installed package can be loaded

install for x64

* installing *source* package 'xcms' ...
** libs
g++ -m64 -I"E:/biocbld/BBS-2~1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c massifquant/xcms_massifquant.cpp -o massifquant/xcms_massifquant.o
massifquant/xcms_massifquant.cpp: In function 'SEXPREC* massifquant(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
massifquant/xcms_massifquant.cpp:33:32: warning: unused variable 'list_names' [-Wunused-variable]
massifquant/xcms_massifquant.cpp:70:12: warning: unused variable 'maxScanNums' [-Wunused-variable]
g++ -m64 -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c massifquant/TrMgr.cpp -o massifquant/TrMgr.o
g++ -m64 -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c massifquant/Tracker.cpp -o massifquant/Tracker.o
g++ -m64 -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c massifquant/SegProc.cpp -o massifquant/SegProc.o
massifquant/SegProc.cpp: In member function 'void SegProc::collapseSubsets()':
massifquant/SegProc.cpp:119:13: warning: variable 'combinedUnions' set but not used [-Wunused-but-set-variable]
massifquant/SegProc.cpp: In member function 'double SegProc::Rf_pt(double, double, int, int)':
massifquant/SegProc.cpp:358:19: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
g++ -m64 -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c massifquant/DataKeeper.cpp -o massifquant/DataKeeper.o
g++ -m64 -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c massifquant/OpOverload.cpp -o massifquant/OpOverload.o
g++ -m64 -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c obiwarp/mat.cpp -o obiwarp/mat.o
g++ -m64 -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c obiwarp/vec.cpp -o obiwarp/vec.o
g++ -m64 -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -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::score_mutual_info(VEC::MatF&, VEC::MatF&, VEC::MatF&, int)':
obiwarp/xcms_dynprog.cpp:732:7: warning: unused variable 'cols' [-Wunused-variable]
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"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c obiwarp/xcms_lmat.cpp -o obiwarp/xcms_lmat.o
g++ -m64 -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -mtune=core2 -c xcms_obiwarp.cpp -o xcms_obiwarp.o
gcc -m64 -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -fno-inline -c fastMatch.c -o fastMatch.o
gcc -m64 -I"E:/biocbld/BBS-2~1.10-/R/include" -DNDEBUG     -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"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -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"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -fno-inline -c util.c -o util.o
gcc -m64 -I"E:/biocbld/BBS-2˜1.10-/R/include" -DNDEBUG     -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 massifquant/xcms_massifquant.o massifquant/TrMgr.o massifquant/Tracker.o massifquant/SegProc.o massifquant/DataKeeper.o massifquant/OpOverload.o obiwarp/mat.o obiwarp/vec.o obiwarp/xcms_dynprog.o obiwarp/xcms_lmat.o xcms_obiwarp.o fastMatch.o mzClust_hclust.o mzROI.o util.o xcms.o -Ld:/RCompile/CRANpkg/extralibs64/local/lib/x64 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LE:/biocbld/BBS-2~1.10-/R/bin/x64 -lR
installing to E:/biocbld/bbs-2.10-bioc/meat/xcms.buildbin-libdir/xcms/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'xcms' as xcms_1.32.0.zip

* DONE (xcms)