GeneR 2.24.0
Y. d'Aubenton-Carafa
| 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/GeneR | | Last Changed Rev: 59920 / Revision: 64395 | | Last Changed Date: 2011-10-31 15:59:03 -0700 (Mon, 31 Oct 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 |
install for i386
* installing *source* package 'GeneR' ...
** libs
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c GeneR_glob.cc -o GeneR_glob.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c GeneR_seq.cc -o GeneR_seq.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c complementaire.cc -o complementaire.o
complementaire.cc: In function 'void buf_complementaire(int*)':
complementaire.cc:43:8: warning: variable 'comp' set but not used [-Wunused-but-set-variable]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c compoSeq.cc -o compoSeq.o
compoSeq.cc: In function 'void sys_exactmatch(int*, char**, int*, int*, int*, int*, int*, int*, int*, int*, int*, int*)':
compoSeq.cc:66:7: warning: variable 'lengthRegion' set but not used [-Wunused-but-set-variable]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c dnaRna.cc -o dnaRna.o
dnaRna.cc: In function 'void dna_rna(int*, int*, int*, int*, int*)':
dnaRna.cc:62:15: warning: value computed is not used [-Wunused-value]
dnaRna.cc:63:13: warning: value computed is not used [-Wunused-value]
dnaRna.cc: In function 'void rna_dna(int*, int*, int*, int*, int*)':
dnaRna.cc:108:15: warning: value computed is not used [-Wunused-value]
dnaRna.cc:109:13: warning: value computed is not used [-Wunused-value]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c libIndex.cc -o libIndex.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c libStrings.cc -o libStrings.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c makeIndex.cc -o makeIndex.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c masked.cc -o masked.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c misc.cc -o misc.o
misc.cc: In function 'SEXPREC* str_to_nbstr(SEXP, SEXP)':
misc.cc:166:10: warning: 'ans' may be used uninitialized in this function [-Wuninitialized]
misc.cc:97:72: warning: 'multiple' may be used uninitialized in this function [-Wuninitialized]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c readEmblDescript.cc -o readEmblDescript.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c readIndex.cc -o readIndex.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c readLocation.cc -o readLocation.o
readLocation.cc: In function 'SEXPREC* readLocation(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
readLocation.cc:54:9: warning: variable 'lengthkey' set but not used [-Wunused-but-set-variable]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c readSeqEmbl.cc -o readSeqEmbl.o
readSeqEmbl.cc: In function 'void ReadSeqEMBL(char**, char**, int*, int*, int*, int*, int*)':
readSeqEmbl.cc:111:7: warning: variable 'LLBuf' set but not used [-Wunused-but-set-variable]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c readSeqFasta.cc -o readSeqFasta.o
readSeqFasta.cc: In function 'void ReadSeqFASTA(char**, char**, int*, int*, int*, int*, int*)':
readSeqFasta.cc:101:32: warning: variable 'length' set but not used [-Wunused-but-set-variable]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c readSeqGbk.cc -o readSeqGbk.o
readSeqGbk.cc: In function 'void ReadSeqGBK(char**, char**, int*, int*, int*, int*, int*)':
readSeqGbk.cc:92:7: warning: variable 'LLBuf' set but not used [-Wunused-but-set-variable]
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c seqManip.cc -o seqManip.o
seqManip.cc: In function 'void sys_placestring(char**, int*, int*)':
seqManip.cc:282:7: warning: variable 'comp' set but not used [-Wunused-but-set-variable]
gcc -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O3 -Wall -std=gnu99 -mtune=core2 -c strcasestr.c -o strcasestr.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c translate.cc -o translate.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c upperSeq.cc -o upperSeq.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c vecteurs.cc -o vecteurs.o
g++ -I"D:/biocbld/BBS-2˜1.9-B/R/include" -O2 -Wall -mtune=core2 -c writeFasta.cc -o writeFasta.o
g++ -shared -s -static-libgcc -o GeneR.dll tmp.def GeneR_glob.o GeneR_seq.o complementaire.o compoSeq.o dnaRna.o libIndex.o libStrings.o makeIndex.o masked.o misc.o readEmblDescript.o readIndex.o readLocation.o readSeqEmbl.o readSeqFasta.o readSeqGbk.o seqManip.o strcasestr.o translate.o upperSeq.o vecteurs.o writeFasta.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/GeneR.buildbin-libdir/GeneR/libs/i386
** R
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
'GeneR.Rnw'
** testing if installed package can be loaded
add DLL for x64
* installing *source* package 'GeneR' ...
** libs
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c GeneR_glob.cc -o GeneR_glob.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c GeneR_seq.cc -o GeneR_seq.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c complementaire.cc -o complementaire.o
complementaire.cc: In function 'void buf_complementaire(int*)':
complementaire.cc:43:8: warning: variable 'comp' set but not used [-Wunused-but-set-variable]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c compoSeq.cc -o compoSeq.o
compoSeq.cc: In function 'void sys_exactmatch(int*, char**, int*, int*, int*, int*, int*, int*, int*, int*, int*, int*)':
compoSeq.cc:66:7: warning: variable 'lengthRegion' set but not used [-Wunused-but-set-variable]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c dnaRna.cc -o dnaRna.o
dnaRna.cc: In function 'void dna_rna(int*, int*, int*, int*, int*)':
dnaRna.cc:62:15: warning: value computed is not used [-Wunused-value]
dnaRna.cc:63:13: warning: value computed is not used [-Wunused-value]
dnaRna.cc: In function 'void rna_dna(int*, int*, int*, int*, int*)':
dnaRna.cc:108:15: warning: value computed is not used [-Wunused-value]
dnaRna.cc:109:13: warning: value computed is not used [-Wunused-value]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c libIndex.cc -o libIndex.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c libStrings.cc -o libStrings.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c makeIndex.cc -o makeIndex.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c masked.cc -o masked.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c misc.cc -o misc.o
misc.cc: In function 'SEXPREC* str_to_nbstr(SEXP, SEXP)':
misc.cc:166:10: warning: 'ans' may be used uninitialized in this function [-Wuninitialized]
misc.cc:97:72: warning: 'multiple' may be used uninitialized in this function [-Wuninitialized]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c readEmblDescript.cc -o readEmblDescript.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c readIndex.cc -o readIndex.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c readLocation.cc -o readLocation.o
readLocation.cc: In function 'SEXPREC* readLocation(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
readLocation.cc:54:9: warning: variable 'lengthkey' set but not used [-Wunused-but-set-variable]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c readSeqEmbl.cc -o readSeqEmbl.o
readSeqEmbl.cc: In function 'void ReadSeqEMBL(char**, char**, int*, int*, int*, int*, int*)':
readSeqEmbl.cc:111:7: warning: variable 'LLBuf' set but not used [-Wunused-but-set-variable]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c readSeqFasta.cc -o readSeqFasta.o
readSeqFasta.cc: In function 'void ReadSeqFASTA(char**, char**, int*, int*, int*, int*, int*)':
readSeqFasta.cc:101:32: warning: variable 'length' set but not used [-Wunused-but-set-variable]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c readSeqGbk.cc -o readSeqGbk.o
readSeqGbk.cc: In function 'void ReadSeqGBK(char**, char**, int*, int*, int*, int*, int*)':
readSeqGbk.cc:92:7: warning: variable 'LLBuf' set but not used [-Wunused-but-set-variable]
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c seqManip.cc -o seqManip.o
seqManip.cc: In function 'void sys_placestring(char**, int*, int*)':
seqManip.cc:282:7: warning: variable 'comp' set but not used [-Wunused-but-set-variable]
gcc -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c strcasestr.c -o strcasestr.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c translate.cc -o translate.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c upperSeq.cc -o upperSeq.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c vecteurs.cc -o vecteurs.o
g++ -m64 -I"D:/biocbld/BBS-2˜1.9-B/R/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -mtune=core2 -c writeFasta.cc -o writeFasta.o
g++ -m64 -shared -s -static-libgcc -o GeneR.dll tmp.def GeneR_glob.o GeneR_seq.o complementaire.o compoSeq.o dnaRna.o libIndex.o libStrings.o makeIndex.o masked.o misc.o readEmblDescript.o readIndex.o readLocation.o readSeqEmbl.o readSeqFasta.o readSeqGbk.o seqManip.o strcasestr.o translate.o upperSeq.o vecteurs.o writeFasta.o -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/GeneR.buildbin-libdir/GeneR/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GeneR' as GeneR_2.24.0.zip
* DONE (GeneR)