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Gentoo's Bugzilla – Attachment 279741 Details for
Bug 374815
sci-biology/wgs-assembler-7.0-r2 stabilization
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Build log
wgs-assembler-6.1:20110708-122919.log (text/plain), 117.41 KB, created by
Diego Elio Pettenò (RETIRED)
on 2011-07-11 09:24:39 UTC
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Description:
Build log
Filename:
MIME Type:
Creator:
Diego Elio Pettenò (RETIRED)
Created:
2011-07-11 09:24:39 UTC
Size:
117.41 KB
patch
obsolete
> * Package: sci-biology/wgs-assembler-6.1 > * Repository: gentoo > * Maintainer: weaver@gentoo.org sci-biology@gentoo.org > * USE: elibc_glibc kernel_linux test userland_GNU x86 > * FEATURES: sandbox test userpriv usersandbox >>>> Unpacking source... >>>> Unpacking wgs-6.1.tar.bz2 to /var/tmp/portage/sci-biology/wgs-assembler-6.1/work >>>> Source unpacked in /var/tmp/portage/sci-biology/wgs-assembler-6.1/work >>>> Preparing source in /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1 ... >>>> Source prepared. >>>> Configuring source in /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1 ... >WARNING: 'python' program found, but can't find include file 'Python.h' -- is python installed correctly? >WARNING: Set PYTHONHOME to the directory containing include/Pyhton.h >WARNING: Will not build ATAC. >i686-pc-linux-gnu-gcc -O2 -pipe -L/usr/local/lib -o ./makepath build/makepath.c -pthread -ldl -lm -lbz2 >Configured. >>>> Source configured. >>>> Compiling source in /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1 ... >make -j14 -C kmer -j1 install >make: Entering directory `/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/kmer' >making ../kmer/libutil/kazlib/sfx.c.d >making ../kmer/libutil/kazlib/list.c.d >making ../kmer/libutil/kazlib/hash.c.d >making ../kmer/libutil/kazlib/except.c.d >making ../kmer/libutil/kazlib/dict.c.d >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/mt19937ar/mt19937ar.o -c ../kmer/libutil/mt19937ar/mt19937ar.c >../kmer/libutil/mt19937ar/mt19937ar.c: In function âmtRandomGaussianâ: >../kmer/libutil/mt19937ar/mt19937ar.c:166:34: warning: variable ây2â set but not used [-Wunused-but-set-variable] >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/mt19937ar/mt19937ar-test.o -c ../kmer/libutil/mt19937ar/mt19937ar-test.c >i686-pc-linux-gnu-gcc -L/usr/local/lib -o ../kmer/libutil/mt19937ar/mt19937ar-test ../kmer/libutil/mt19937ar/mt19937ar.o ../kmer/libutil/mt19937ar/mt19937ar-test.o -pthread -ldl -lm -lbz2 >../kmer/libutil/mt19937ar/mt19937ar-test | diff - ../kmer/libutil/mt19937ar/mt19937ar.out > ../kmer/libutil/mt19937ar/diffs 2>&1 >if test -s ../kmer/libutil/mt19937ar/diffs ; then echo 'MT19937: TEST FAILED'; else echo 'MT19937: Test Passed'; fi >MT19937: Test Passed >touch ../kmer/libutil/mt19937ar/test.c >../kmer/libutil/mt19937ar/mt19937ar-test | diff - ../kmer/libutil/mt19937ar/mt19937ar.out >making ../kmer/libutil/mt19937ar/test.c.d >making ../kmer/libutil/mt19937ar/mt19937ar.c.d >making ../kmer/libutil/sweatShop.C.d >making ../kmer/libutil/speedCounter.C.d >making ../kmer/libutil/recordFile.C.d >making ../kmer/libutil/readBuffer.C.d >making ../kmer/libutil/intervalList.C.d >making ../kmer/libutil/fibonacciNumbers.C.d >making ../kmer/libutil/bitPackedFile.C.d >making ../kmer/libutil/bitPackedArray.C.d >making ../kmer/libutil/bigQueue.C.d >making ../kmer/libutil/util.c.d >making ../kmer/libutil/qsort_mt.c.d >making ../kmer/libutil/palloc.c.d >making ../kmer/libutil/md5.c.d >making ../kmer/libutil/file.c.d >making ../kmer/libseq/test-merStream.C.d >making ../kmer/libseq/test-seqStream.C.d >making ../kmer/libseq/test-seqCache.C.d >making ../kmer/libseq/merStream.C.d >making ../kmer/libseq/seqStream.C.d >making ../kmer/libseq/seqCache.C.d >making ../kmer/libseq/seqFactory.C.d >making ../kmer/libseq/sffFile.C.d >making ../kmer/libseq/seqStore.C.d >making ../kmer/libseq/fastaStdin.C.d >making ../kmer/libseq/fastaFile.C.d >making ../kmer/libbio/reversecomplement.c.d >making ../kmer/libbio/halign.c.d >making ../kmer/libbio/alphabet-colorspace.c.d >making ../kmer/libbio/alphabet-acgtspace.c.d >making ../kmer/libbio/alphabet.c.d >making ../kmer/libmeryl/libmeryl.C.d >making ../kmer/libkmer/mask.C.d >making ../kmer/libkmer/percentCovered.C.d >making ../kmer/libkmer/driver-posDB.C.d >making ../kmer/libkmer/driver-existDB.C.d >making ../kmer/libkmer/positionDB.C.d >making ../kmer/libkmer/positionDB-sort.C.d >making ../kmer/libkmer/positionDB-mismatch.C.d >making ../kmer/libkmer/positionDB-file.C.d >making ../kmer/libkmer/positionDB-dump.C.d >making ../kmer/libkmer/positionDB-access.C.d >making ../kmer/libkmer/existDB.C.d >making ../kmer/libkmer/existDB-state.C.d >making ../kmer/libkmer/existDB-create-from-meryl.C.d >making ../kmer/libkmer/existDB-create-from-fasta.C.d >making meryl/maskMers.C.d >making meryl/mapMers-depth.C.d >making meryl/mapMers.C.d >making meryl/asmMerQC.C.d >making meryl/meryl.C.d >making meryl/unaryOp.C.d >making meryl/merge.C.d >making meryl/estimate.C.d >making meryl/dump.C.d >making meryl/build-threads.C.d >making meryl/build.C.d >making meryl/binaryOp.C.d >making meryl/args.C.d >make: Leaving directory `/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/kmer' >make: Entering directory `/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/kmer' >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/meryl.o -c meryl/meryl.C >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/args.o -c meryl/args.C >meryl/args.C: In member function âbool merylArgs::writeConfig()â: >meryl/args.C:568:49: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/args.C:570:40: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/args.C: In constructor âmerylArgs::merylArgs(const char*)â: >meryl/args.C:509:36: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/args.C:517:39: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/args.C: In function âchar* readString(FILE*)â: >meryl/args.C:40:36: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/args.C:50:37: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/args.C: In function âbool writeString(const char*, FILE*)â: >meryl/args.C:19:39: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/args.C:20:39: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/args.C:22:39: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/binaryOp.o -c meryl/binaryOp.C >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/build.o -c meryl/build.C >meryl/build.C:243:2: warning: #warning not submitting prepareBatch to grid [-Wcpp] >meryl/build.C: In function âvoid build(merylArgs*)â: >meryl/build.C:765:41: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/build.C:766:41: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/build.C:767:41: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/build.C:771:22: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/build.C:776:22: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/build.C:783:41: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/build-threads.o -c meryl/build-threads.C >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/dump.o -c meryl/dump.C >meryl/dump.C:50:2: warning: #warning make this a test [-Wcpp] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/estimate.o -c meryl/estimate.C >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/merge.o -c meryl/merge.C >meryl/merge.C: In function âvoid multipleOperations(merylArgs*)â: >meryl/merge.C:32:96: warning: format â%dâ expects argument of type âintâ, but argument 3 has type âu32bitâ [-Wformat] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/unaryOp.o -c meryl/unaryOp.C >rm -f meryl/libmerylguts.a && ar ruvs meryl/libmerylguts.a meryl/args.o meryl/binaryOp.o meryl/build.o meryl/build-threads.o meryl/dump.o meryl/estimate.o meryl/merge.o meryl/unaryOp.o >ar: creating meryl/libmerylguts.a >a - meryl/args.o >a - meryl/binaryOp.o >a - meryl/build.o >a - meryl/build-threads.o >a - meryl/dump.o >a - meryl/estimate.o >a - meryl/merge.o >a - meryl/unaryOp.o >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libmeryl/libmeryl.o -c ../kmer/libmeryl/libmeryl.C >../kmer/libmeryl/libmeryl.C:72:2: warning: #warning not checking pmagic [-Wcpp] >../kmer/libmeryl/libmeryl.C:6:24: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libmeryl/libmeryl.C:7:24: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libmeryl/libmeryl.C:8:24: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libmeryl/libmeryl.C:9:24: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libmeryl/libmeryl.C:10:24: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libmeryl/libmeryl.C:11:24: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libmeryl/libmeryl.C: In constructor âmerylStreamReader::merylStreamReader(const char*, u32bit)â: >../kmer/libmeryl/libmeryl.C:42:11: warning: variable âPmagicâ set but not used [-Wunused-but-set-variable] >rm -f ../kmer/libmeryl/libmeryl.a && ar ruvs ../kmer/libmeryl/libmeryl.a ../kmer/libmeryl/libmeryl.o >ar: creating ../kmer/libmeryl/libmeryl.a >a - ../kmer/libmeryl/libmeryl.o >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libutil/ -I../kmer/libbio/ -I../kmer/libseq/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libseq/fastaFile.o -c ../kmer/libseq/fastaFile.C >../kmer/libseq/fastaFile.C: In member function âvoid fastaFile::constructIndex()â: >../kmer/libseq/fastaFile.C:515:55: warning: format â%uâ expects argument of type âunsigned intâ, but argument 5 has type âu32bitâ [-Wformat] >../kmer/libseq/fastaFile.C:566:76: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/fastaFile.C:567:76: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/fastaFile.C:568:76: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/fastaFile.C: In member function âvoid fastaFile::loadIndex(char*)â: >../kmer/libseq/fastaFile.C:350:49: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/fastaFile.C:370:71: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/fastaFile.C:371:71: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libutil/ -I../kmer/libbio/ -I../kmer/libseq/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libseq/fastaStdin.o -c ../kmer/libseq/fastaStdin.C >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libutil/ -I../kmer/libbio/ -I../kmer/libseq/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libseq/seqStore.o -c ../kmer/libseq/seqStore.C >../kmer/libseq/seqStore.C: In member function âvoid seqStore::loadIndex()â: >../kmer/libseq/seqStore.C:320:199: warning: format â%lluâ expects argument of type âlong long unsigned intâ, but argument 4 has type âlong unsigned intâ [-Wformat] >../kmer/libseq/seqStore.C:321:199: warning: format â%lluâ expects argument of type âlong long unsigned intâ, but argument 4 has type âlong unsigned intâ [-Wformat] >../kmer/libseq/seqStore.C:322:199: warning: format â%lluâ expects argument of type âlong long unsigned intâ, but argument 4 has type âlong unsigned intâ [-Wformat] >../kmer/libseq/seqStore.C: In function âvoid constructSeqStore(char*, seqCache*)â: >../kmer/libseq/seqStore.C:562:66: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/seqStore.C:566:63: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/seqStore.C:570:51: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/seqStore.C:573:46: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/seqStore.C: In member function âvoid seqStore::loadIndex()â: >../kmer/libseq/seqStore.C:318:50: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/seqStore.C:329:73: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/seqStore.C:332:70: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/seqStore.C:336:67: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/seqStore.C: In member function âvirtual seqFile* seqStore::openFile(const char*)â: >../kmer/libseq/seqStore.C:73:39: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/seqStore.C:74:39: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libseq/seqStore.C: In constructor âseqStore::seqStore(const char*)â: >../kmer/libseq/seqStore.C:21:50: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >In file included from /usr/include/string.h:642:0, > from ../kmer/libutil/u32bitList.H:4, > from ../kmer/libutil/util++.H:29, > from ../kmer/libseq/seqStore.H:4, > from ../kmer/libseq/seqStore.C:2: >In function âvoid* memset(void*, int, size_t)â, > inlined from âvoid constructSeqStore(char*, seqCache*)â at ../kmer/libseq/seqStore.C:396:43: >/usr/include/bits/string3.h:82:32: warning: call to â__warn_memset_zero_lenâ declared with attribute warning: memset used with constant zero length parameter; this could be due to transposed parameters [enabled by default] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libutil/ -I../kmer/libbio/ -I../kmer/libseq/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libseq/sffFile.o -c ../kmer/libseq/sffFile.C >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libutil/ -I../kmer/libbio/ -I../kmer/libseq/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libseq/seqFactory.o -c ../kmer/libseq/seqFactory.C >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libutil/ -I../kmer/libbio/ -I../kmer/libseq/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libseq/seqCache.o -c ../kmer/libseq/seqCache.C >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libutil/ -I../kmer/libbio/ -I../kmer/libseq/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libseq/seqStream.o -c ../kmer/libseq/seqStream.C >../kmer/libseq/seqStream.C: In constructor âseqStream::seqStream(const char*)â: >../kmer/libseq/seqStream.C:23:66: warning: format â%lluâ expects argument of type âlong long unsigned intâ, but argument 3 has type âlong unsigned intâ [-Wformat] >../kmer/libseq/seqStream.C:23:66: warning: format â%lluâ expects argument of type âlong long unsigned intâ, but argument 4 has type âu32bitâ [-Wformat] >../kmer/libseq/seqStream.C: In member function âvoid seqStream::tradeSpaceForTime()â: >../kmer/libseq/seqStream.C:147:90: warning: format â%luâ expects argument of type âlong unsigned intâ, but argument 3 has type âu64bitâ [-Wformat] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libutil/ -I../kmer/libbio/ -I../kmer/libseq/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libseq/merStream.o -c ../kmer/libseq/merStream.C >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libutil/ -I../kmer/libbio/ -I../kmer/libseq/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libseq/test-seqCache.o -c ../kmer/libseq/test-seqCache.C >In file included from ../kmer/libseq/test-seqCache.C:7:0: >../kmer/libseq/test-correctSequence.H: In function âvoid generateCorrectSequence(u32bit, u32bit, u32bit)â: >../kmer/libseq/test-correctSequence.H:45:55: warning: format â%dâ expects argument of type âintâ, but argument 3 has type âu32bitâ [-Wformat] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libutil/ -I../kmer/libbio/ -I../kmer/libseq/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libseq/test-seqStream.o -c ../kmer/libseq/test-seqStream.C >In file included from ../kmer/libseq/test-seqStream.C:7:0: >../kmer/libseq/test-correctSequence.H: In function âvoid generateCorrectSequence(u32bit, u32bit, u32bit)â: >../kmer/libseq/test-correctSequence.H:45:55: warning: format â%dâ expects argument of type âintâ, but argument 3 has type âu32bitâ [-Wformat] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libutil/ -I../kmer/libbio/ -I../kmer/libseq/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libseq/test-merStream.o -c ../kmer/libseq/test-merStream.C >../kmer/libseq/test-merStream.C:11:2: warning: #warning HOW DO WE TEST IF WE GET ALL THE MERS? [-Wcpp] >In file included from ../kmer/libseq/test-merStream.C:7:0: >../kmer/libseq/test-correctSequence.H: In function âvoid generateCorrectSequence(u32bit, u32bit, u32bit)â: >../kmer/libseq/test-correctSequence.H:45:55: warning: format â%dâ expects argument of type âintâ, but argument 3 has type âu32bitâ [-Wformat] >../kmer/libseq/test-merStream.C: In function âint main(int, char**)â: >../kmer/libseq/test-merStream.C:219:80: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libseq/test-merStream.C:223:64: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libseq/test-merStream.C:225:64: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libseq/test-merStream.C:228:64: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libseq/test-merStream.C:239:90: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libseq/test-merStream.C:243:60: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libseq/test-merStream.C:245:60: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >../kmer/libseq/test-merStream.C:248:60: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >rm -f ../kmer/libseq/libseq.a && ar ruvs ../kmer/libseq/libseq.a ../kmer/libseq/fastaFile.o ../kmer/libseq/fastaStdin.o ../kmer/libseq/seqStore.o ../kmer/libseq/sffFile.o ../kmer/libseq/seqFactory.o ../kmer/libseq/seqCache.o ../kmer/libseq/seqStream.o ../kmer/libseq/merStream.o ../kmer/libseq/test-seqCache.o ../kmer/libseq/test-seqStream.o ../kmer/libseq/test-merStream.o >ar: creating ../kmer/libseq/libseq.a >a - ../kmer/libseq/fastaFile.o >a - ../kmer/libseq/fastaStdin.o >a - ../kmer/libseq/seqStore.o >a - ../kmer/libseq/sffFile.o >a - ../kmer/libseq/seqFactory.o >a - ../kmer/libseq/seqCache.o >a - ../kmer/libseq/seqStream.o >a - ../kmer/libseq/merStream.o >a - ../kmer/libseq/test-seqCache.o >a - ../kmer/libseq/test-seqStream.o >a - ../kmer/libseq/test-merStream.o >i686-pc-linux-gnu-gcc -O2 -pipe -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libbio/alphabet.o -c ../kmer/libbio/alphabet.c >i686-pc-linux-gnu-gcc -O2 -pipe -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libbio/alphabet-acgtspace.o -c ../kmer/libbio/alphabet-acgtspace.c >i686-pc-linux-gnu-gcc -O2 -pipe -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libbio/alphabet-colorspace.o -c ../kmer/libbio/alphabet-colorspace.c >i686-pc-linux-gnu-gcc -O2 -pipe -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libbio/halign.o -c ../kmer/libbio/halign.c >i686-pc-linux-gnu-gcc -O2 -pipe -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libbio/reversecomplement.o -c ../kmer/libbio/reversecomplement.c >rm -f ../kmer/libbio/libbio.a && ar ruvs ../kmer/libbio/libbio.a ../kmer/libbio/alphabet.o ../kmer/libbio/alphabet-acgtspace.o ../kmer/libbio/alphabet-colorspace.o ../kmer/libbio/halign.o ../kmer/libbio/reversecomplement.o >ar: creating ../kmer/libbio/libbio.a >a - ../kmer/libbio/alphabet.o >a - ../kmer/libbio/alphabet-acgtspace.o >a - ../kmer/libbio/alphabet-colorspace.o >a - ../kmer/libbio/halign.o >a - ../kmer/libbio/reversecomplement.o >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/file.o -c ../kmer/libutil/file.c >../kmer/libutil/file.c: In function âopenFileâ: >../kmer/libutil/file.c:390:9: warning: variable âisRWâ set but not used [-Wunused-but-set-variable] >../kmer/libutil/file.c: In function âcopyFileâ: >../kmer/libutil/file.c:223:13: warning: ignoring return value of âfwriteâ, declared with attribute warn_unused_result [-Wunused-result] >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/md5.o -c ../kmer/libutil/md5.c >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/palloc.o -c ../kmer/libutil/palloc.c >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/qsort_mt.o -c ../kmer/libutil/qsort_mt.c >../kmer/libutil/qsort_mt.c: In function âqsort_algoâ: >../kmer/libutil/qsort_mt.c:264:13: warning: variable âidâ set but not used [-Wunused-but-set-variable] >../kmer/libutil/qsort_mt.c: In function âqsort_threadâ: >../kmer/libutil/qsort_mt.c:370:13: warning: variable âidâ set but not used [-Wunused-but-set-variable] >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/util.o -c ../kmer/libutil/util.c >i686-pc-linux-gnu-g++ -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/bigQueue.o -c ../kmer/libutil/bigQueue.C >../kmer/libutil/bigQueue.C: In member function âbool bigQueue::next()â: >../kmer/libutil/bigQueue.C:302:60: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/bigQueue.C: In member function âvoid bigQueue::mergeTemporaryFiles()â: >../kmer/libutil/bigQueue.C:204:59: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/bigQueue.C:236:49: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/bigQueue.C:255:62: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/bigQueue.C: In member function âvoid bigQueue::sortAndWriteBuffer()â: >../kmer/libutil/bigQueue.C:147:82: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/bigQueue.C: In member function âvoid bigQueue::add(void*)â: >../kmer/libutil/bigQueue.C:110:75: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >i686-pc-linux-gnu-g++ -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/bitPackedArray.o -c ../kmer/libutil/bitPackedArray.C >i686-pc-linux-gnu-g++ -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/bitPackedFile.o -c ../kmer/libutil/bitPackedFile.C >../kmer/libutil/bitPackedFile.C: In member function âvoid bitPackedFile::flushDirty()â: >../kmer/libutil/bitPackedFile.C:230:47: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/bitPackedFile.C: In constructor âbitPackedFile::bitPackedFile(const char*, u64bit, bool)â: >../kmer/libutil/bitPackedFile.C:107:41: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/bitPackedFile.C:108:38: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/bitPackedFile.C:109:38: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >i686-pc-linux-gnu-g++ -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/fibonacciNumbers.o -c ../kmer/libutil/fibonacciNumbers.C >i686-pc-linux-gnu-g++ -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/intervalList.o -c ../kmer/libutil/intervalList.C >i686-pc-linux-gnu-g++ -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/readBuffer.o -c ../kmer/libutil/readBuffer.C >../kmer/libutil/readBuffer.C: In constructor âreadBuffer::readBuffer(const char*, u32bit)â: >../kmer/libutil/readBuffer.C:39:39: warning: too many arguments for format [-Wformat-extra-args] >i686-pc-linux-gnu-g++ -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/recordFile.o -c ../kmer/libutil/recordFile.C >../kmer/libutil/recordFile.C: In member function âvoid recordFile::seek(u64bit, bool)â: >../kmer/libutil/recordFile.C:231:43: warning: ignoring return value of âssize_t read(int, void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C: In member function âvoid recordFile::flushDirty()â: >../kmer/libutil/recordFile.C:197:41: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C: In destructor ârecordFile::~recordFile()â: >../kmer/libutil/recordFile.C:151:53: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:152:53: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:153:53: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:154:53: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:155:53: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:156:65: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C: In constructor ârecordFile::recordFile(const char*, u32bit, u32bit, char)â: >../kmer/libutil/recordFile.C:68:53: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:69:53: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:70:53: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:71:53: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:72:53: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:73:65: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:112:52: warning: ignoring return value of âssize_t read(int, void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:113:52: warning: ignoring return value of âssize_t read(int, void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:114:52: warning: ignoring return value of âssize_t read(int, void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:115:52: warning: ignoring return value of âssize_t read(int, void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:116:52: warning: ignoring return value of âssize_t read(int, void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libutil/recordFile.C:117:64: warning: ignoring return value of âssize_t read(int, void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >i686-pc-linux-gnu-g++ -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/speedCounter.o -c ../kmer/libutil/speedCounter.C >i686-pc-linux-gnu-g++ -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/sweatShop.o -c ../kmer/libutil/sweatShop.C >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/kazlib/dict.o -c ../kmer/libutil/kazlib/dict.c >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/kazlib/except.o -c ../kmer/libutil/kazlib/except.c >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/kazlib/hash.o -c ../kmer/libutil/kazlib/hash.c >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/kazlib/list.o -c ../kmer/libutil/kazlib/list.c >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/kazlib/sfx.o -c ../kmer/libutil/kazlib/sfx.c >rm -f ../kmer/libutil/libutil.a && ar ruvs ../kmer/libutil/libutil.a ../kmer/libutil/file.o ../kmer/libutil/md5.o ../kmer/libutil/palloc.o ../kmer/libutil/qsort_mt.o ../kmer/libutil/util.o ../kmer/libutil/bigQueue.o ../kmer/libutil/bitPackedArray.o ../kmer/libutil/bitPackedFile.o ../kmer/libutil/fibonacciNumbers.o ../kmer/libutil/intervalList.o ../kmer/libutil/readBuffer.o ../kmer/libutil/recordFile.o ../kmer/libutil/speedCounter.o ../kmer/libutil/sweatShop.o ../kmer/libutil/mt19937ar/mt19937ar.o ../kmer/libutil/kazlib/dict.o ../kmer/libutil/kazlib/except.o ../kmer/libutil/kazlib/hash.o ../kmer/libutil/kazlib/list.o ../kmer/libutil/kazlib/sfx.o >ar: creating ../kmer/libutil/libutil.a >a - ../kmer/libutil/file.o >a - ../kmer/libutil/md5.o >a - ../kmer/libutil/palloc.o >a - ../kmer/libutil/qsort_mt.o >a - ../kmer/libutil/util.o >a - ../kmer/libutil/bigQueue.o >a - ../kmer/libutil/bitPackedArray.o >a - ../kmer/libutil/bitPackedFile.o >a - ../kmer/libutil/fibonacciNumbers.o >a - ../kmer/libutil/intervalList.o >a - ../kmer/libutil/readBuffer.o >a - ../kmer/libutil/recordFile.o >a - ../kmer/libutil/speedCounter.o >a - ../kmer/libutil/sweatShop.o >a - ../kmer/libutil/mt19937ar/mt19937ar.o >a - ../kmer/libutil/kazlib/dict.o >a - ../kmer/libutil/kazlib/except.o >a - ../kmer/libutil/kazlib/hash.o >a - ../kmer/libutil/kazlib/list.o >a - ../kmer/libutil/kazlib/sfx.o >i686-pc-linux-gnu-g++ -L/usr/local/lib -o meryl/meryl meryl/meryl.o meryl/libmerylguts.a ../kmer/libmeryl/libmeryl.a ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >../kmer/libseq/libseq.a(seqStore.o): In function `constructSeqStore(char*, seqCache*)': >seqStore.C:(.text+0x1c80): warning: memset used with constant zero length parameter; this could be due to transposed parameters >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/asmMerQC.o -c meryl/asmMerQC.C >meryl/asmMerQC.C: In function âvoid compare(merylStreamReader*, merylStreamReader*, kMer&, u32bit, u32bit (*)[6])â: >meryl/asmMerQC.C:111:12: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >meryl/asmMerQC.C:130:10: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >meryl/asmMerQC.C:149:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >meryl/asmMerQC.C: In function âint main(int, char**)â: >meryl/asmMerQC.C:384:81: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/asmMerQC.C:385:81: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/asmMerQC.C:386:81: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/asmMerQC.C:387:81: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/asmMerQC.C:388:81: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/asmMerQC.C:389:81: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >i686-pc-linux-gnu-g++ -L/usr/local/lib -o meryl/asmMerQC meryl/asmMerQC.o ../kmer/libmeryl/libmeryl.a ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/mapMers.o -c meryl/mapMers.C >In file included from meryl/mapMers.C:9:0: >../kmer/libkmer/existDB.H: In member function âvoid existDB::insertMer(u64bit, u64bit, u64bit, u64bit*)â: >../kmer/libkmer/existDB.H:83:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >meryl/mapMers.C: In function âint main(int, char**)â: >meryl/mapMers.C:19:13: warning: variable âbeVerboseâ set but not used [-Wunused-but-set-variable] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/existDB-create-from-fasta.o -c ../kmer/libkmer/existDB-create-from-fasta.C >In file included from ../kmer/libkmer/existDB-create-from-fasta.C:5:0: >../kmer/libkmer/existDB.H: In member function âvoid existDB::insertMer(u64bit, u64bit, u64bit, u64bit*)â: >../kmer/libkmer/existDB.H:83:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/existDB-create-from-meryl.o -c ../kmer/libkmer/existDB-create-from-meryl.C >In file included from ../kmer/libkmer/existDB-create-from-meryl.C:5:0: >../kmer/libkmer/existDB.H: In member function âvoid existDB::insertMer(u64bit, u64bit, u64bit, u64bit*)â: >../kmer/libkmer/existDB.H:83:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/existDB-state.o -c ../kmer/libkmer/existDB-state.C >In file included from ../kmer/libkmer/existDB-state.C:5:0: >../kmer/libkmer/existDB.H: In member function âvoid existDB::insertMer(u64bit, u64bit, u64bit, u64bit*)â: >../kmer/libkmer/existDB.H:83:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >../kmer/libkmer/existDB-state.C: In member function âbool existDB::loadState(const char*, bool, bool)â: >../kmer/libkmer/existDB-state.C:77:36: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:116:48: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:117:40: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:118:40: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:119:39: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:120:39: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:121:42: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:122:42: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:123:42: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:125:48: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:126:48: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:127:48: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:137:58: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:138:58: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:139:58: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C: In member function âvoid existDB::saveState(const char*)â: >../kmer/libkmer/existDB-state.C:35:37: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:37:49: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:38:41: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:39:41: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:40:40: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:41:40: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:42:43: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:43:43: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:44:43: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:46:49: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:47:49: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:48:49: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:50:57: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:51:57: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/existDB-state.C:52:57: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/existDB.o -c ../kmer/libkmer/existDB.C >In file included from ../kmer/libkmer/existDB.C:5:0: >../kmer/libkmer/existDB.H: In member function âvoid existDB::insertMer(u64bit, u64bit, u64bit, u64bit*)â: >../kmer/libkmer/existDB.H:83:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/positionDB-access.o -c ../kmer/libkmer/positionDB-access.C >../kmer/libkmer/positionDB-access.C: In member function âvoid positionDB::filter(u64bit, u64bit)â: >../kmer/libkmer/positionDB-access.C:204:11: warning: unused variable âvvâ [-Wunused-variable] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/positionDB-dump.o -c ../kmer/libkmer/positionDB-dump.C >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/positionDB-file.o -c ../kmer/libkmer/positionDB-file.C >../kmer/libkmer/positionDB-file.C: In member function âvoid positionDB::saveState(const char*)â: >../kmer/libkmer/positionDB-file.C:37:39: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/positionDB-file.C:39:39: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >../kmer/libkmer/positionDB-file.C:95:39: warning: ignoring return value of âssize_t write(int, const void*, size_t)â, declared with attribute warn_unused_result [-Wunused-result] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/positionDB-mismatch.o -c ../kmer/libkmer/positionDB-mismatch.C >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/positionDB-sort.o -c ../kmer/libkmer/positionDB-sort.C >../kmer/libkmer/positionDB-sort.C: In member function âvoid positionDB::sortAndRepackBucket(u64bit)â: >../kmer/libkmer/positionDB-sort.C:37:86: warning: format â%luâ expects argument of type âlong unsigned intâ, but argument 3 has type âu64bitâ [-Wformat] >../kmer/libkmer/positionDB-sort.C:37:86: warning: format â%luâ expects argument of type âlong unsigned intâ, but argument 4 has type âu64bitâ [-Wformat] >../kmer/libkmer/positionDB-sort.C:37:86: warning: format â%luâ expects argument of type âlong unsigned intâ, but argument 5 has type âu64bitâ [-Wformat] >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/positionDB.o -c ../kmer/libkmer/positionDB.C >In file included from ../kmer/libkmer/positionDB.C:7:0: >../kmer/libkmer/existDB.H: In member function âvoid existDB::insertMer(u64bit, u64bit, u64bit, u64bit*)â: >../kmer/libkmer/existDB.H:83:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >rm -f ../kmer/libkmer/libkmer.a && ar ruvs ../kmer/libkmer/libkmer.a ../kmer/libkmer/existDB-create-from-fasta.o ../kmer/libkmer/existDB-create-from-meryl.o ../kmer/libkmer/existDB-state.o ../kmer/libkmer/existDB.o ../kmer/libkmer/positionDB-access.o ../kmer/libkmer/positionDB-dump.o ../kmer/libkmer/positionDB-file.o ../kmer/libkmer/positionDB-mismatch.o ../kmer/libkmer/positionDB-sort.o ../kmer/libkmer/positionDB.o >ar: creating ../kmer/libkmer/libkmer.a >a - ../kmer/libkmer/existDB-create-from-fasta.o >a - ../kmer/libkmer/existDB-create-from-meryl.o >a - ../kmer/libkmer/existDB-state.o >a - ../kmer/libkmer/existDB.o >a - ../kmer/libkmer/positionDB-access.o >a - ../kmer/libkmer/positionDB-dump.o >a - ../kmer/libkmer/positionDB-file.o >a - ../kmer/libkmer/positionDB-mismatch.o >a - ../kmer/libkmer/positionDB-sort.o >a - ../kmer/libkmer/positionDB.o >i686-pc-linux-gnu-g++ -L/usr/local/lib -o meryl/mapMers meryl/mapMers.o ../kmer/libkmer/libkmer.a ../kmer/libmeryl/libmeryl.a ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >../kmer/libseq/libseq.a(seqStore.o): In function `constructSeqStore(char*, seqCache*)': >seqStore.C:(.text+0x1c80): warning: memset used with constant zero length parameter; this could be due to transposed parameters >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/mapMers-depth.o -c meryl/mapMers-depth.C >In file included from meryl/mapMers-depth.C:9:0: >../kmer/libkmer/existDB.H: In member function âvoid existDB::insertMer(u64bit, u64bit, u64bit, u64bit*)â: >../kmer/libkmer/existDB.H:83:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >meryl/mapMers-depth.C: In function âint main(int, char**)â: >meryl/mapMers-depth.C:86:67: warning: format â%luâ expects argument of type âlong unsigned intâ, but argument 4 has type âintâ [-Wformat] >meryl/mapMers-depth.C:91:65: warning: format â%luâ expects argument of type âlong unsigned intâ, but argument 4 has type âintâ [-Wformat] >meryl/mapMers-depth.C:17:13: warning: variable âbeVerboseâ set but not used [-Wunused-but-set-variable] >i686-pc-linux-gnu-g++ -L/usr/local/lib -o meryl/mapMers-depth meryl/mapMers-depth.o ../kmer/libkmer/libkmer.a ../kmer/libmeryl/libmeryl.a ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >../kmer/libseq/libseq.a(seqStore.o): In function `constructSeqStore(char*, seqCache*)': >seqStore.C:(.text+0x1c80): warning: memset used with constant zero length parameter; this could be due to transposed parameters >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/testPositionBias.o -c meryl/testPositionBias.C >meryl/testPositionBias.C: In function âvoid showBias(u32bit)â: >meryl/testPositionBias.C:54:43: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/testPositionBias.C:55:50: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/testPositionBias.C:56:60: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/testPositionBias.C: In function âdouble computeRMSD(u32bit)â: >meryl/testPositionBias.C:83:43: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/testPositionBias.C:84:50: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >meryl/testPositionBias.C:85:60: warning: deprecated conversion from string constant to âchar*â [-Wwrite-strings] >i686-pc-linux-gnu-g++ -L/usr/local/lib -o meryl/testPositionBias meryl/testPositionBias.o ../kmer/libkmer/libkmer.a ../kmer/libmeryl/libmeryl.a ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libkmer/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/maskMers.o -c meryl/maskMers.C >meryl/maskMers.C: In member function âvoid merMaskedSequence::saveMasking()â: >meryl/maskMers.C:166:59: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/maskMers.C:167:59: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/maskMers.C:168:59: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/maskMers.C:171:67: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/maskMers.C:172:67: warning: ignoring return value of âsize_t fwrite(const void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/maskMers.C: In member function âvoid merMaskedSequence::loadMasking(u32bit)â: >meryl/maskMers.C:125:52: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/maskMers.C:126:52: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/maskMers.C:134:59: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/maskMers.C:149:68: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >meryl/maskMers.C:150:68: warning: ignoring return value of âsize_t fread(void*, size_t, size_t, FILE*)â, declared with attribute warn_unused_result [-Wunused-result] >i686-pc-linux-gnu-g++ -L/usr/local/lib -o meryl/maskMers meryl/maskMers.o ../kmer/libkmer/libkmer.a ../kmer/libmeryl/libmeryl.a ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >../kmer/libseq/libseq.a(seqStore.o): In function `constructSeqStore(char*, seqCache*)': >seqStore.C:(.text+0x1c80): warning: memset used with constant zero length parameter; this could be due to transposed parameters >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/driver-existDB.o -c ../kmer/libkmer/driver-existDB.C >In file included from ../kmer/libkmer/driver-existDB.C:7:0: >../kmer/libkmer/existDB.H: In member function âvoid existDB::insertMer(u64bit, u64bit, u64bit, u64bit*)â: >../kmer/libkmer/existDB.H:83:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >../kmer/libkmer/driver-existDB.C: In function âint testExhaustive(char*, char*, u32bit)â: >../kmer/libkmer/driver-existDB.C:102:55: warning: format â%lxâ expects argument of type âlong unsigned intâ, but argument 3 has type âu64bitâ [-Wformat] >../kmer/libkmer/driver-existDB.C:104:63: warning: format â%lxâ expects argument of type âlong unsigned intâ, but argument 3 has type âu64bitâ [-Wformat] >../kmer/libkmer/driver-existDB.C:118:36: warning: format â%lxâ expects argument of type âlong unsigned intâ, but argument 3 has type âu64bitâ [-Wformat] >i686-pc-linux-gnu-g++ -L/usr/local/lib -o ../kmer/libkmer/existDB ../kmer/libkmer/driver-existDB.o ../kmer/libkmer/libkmer.a ../kmer/libmeryl/libmeryl.a ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >../kmer/libseq/libseq.a(seqStore.o): In function `constructSeqStore(char*, seqCache*)': >seqStore.C:(.text+0x1c80): warning: memset used with constant zero length parameter; this could be due to transposed parameters >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/driver-posDB.o -c ../kmer/libkmer/driver-posDB.C >In file included from ../kmer/libkmer/driver-posDB.C:7:0: >../kmer/libkmer/existDB.H: In member function âvoid existDB::insertMer(u64bit, u64bit, u64bit, u64bit*)â: >../kmer/libkmer/existDB.H:83:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >i686-pc-linux-gnu-g++ -L/usr/local/lib -o ../kmer/libkmer/positionDB ../kmer/libkmer/driver-posDB.o ../kmer/libkmer/libkmer.a ../kmer/libmeryl/libmeryl.a ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >../kmer/libseq/libseq.a(seqStore.o): In function `constructSeqStore(char*, seqCache*)': >seqStore.C:(.text+0x1c80): warning: memset used with constant zero length parameter; this could be due to transposed parameters >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/percentCovered.o -c ../kmer/libkmer/percentCovered.C >In file included from ../kmer/libkmer/percentCovered.C:3:0: >../kmer/libkmer/existDB.H: In member function âvoid existDB::insertMer(u64bit, u64bit, u64bit, u64bit*)â: >../kmer/libkmer/existDB.H:83:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >i686-pc-linux-gnu-g++ -L/usr/local/lib -o ../kmer/libkmer/percentCovered ../kmer/libkmer/percentCovered.o ../kmer/libkmer/libkmer.a ../kmer/libmeryl/libmeryl.a ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >../kmer/libseq/libseq.a(seqStore.o): In function `constructSeqStore(char*, seqCache*)': >seqStore.C:(.text+0x1c80): warning: memset used with constant zero length parameter; this could be due to transposed parameters >i686-pc-linux-gnu-g++ -O2 -pipe -I../kmer/libmeryl/ -I../kmer/libbio/ -I../kmer/libseq/ -I../kmer/libutil/ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libkmer/mask.o -c ../kmer/libkmer/mask.C >In file included from ../kmer/libkmer/mask.C:7:0: >../kmer/libkmer/existDB.H: In member function âvoid existDB::insertMer(u64bit, u64bit, u64bit, u64bit*)â: >../kmer/libkmer/existDB.H:83:8: warning: suggest explicit braces to avoid ambiguous âelseâ [-Wparentheses] >i686-pc-linux-gnu-g++ -L/usr/local/lib -o ../kmer/libkmer/mask ../kmer/libkmer/mask.o ../kmer/libkmer/libkmer.a ../kmer/libmeryl/libmeryl.a ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >../kmer/libseq/libseq.a(seqStore.o): In function `constructSeqStore(char*, seqCache*)': >seqStore.C:(.text+0x1c80): warning: memset used with constant zero length parameter; this could be due to transposed parameters >i686-pc-linux-gnu-g++ -L/usr/local/lib -o ../kmer/libseq/test-seqCache ../kmer/libseq/test-seqCache.o ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >../kmer/libseq/libseq.a(seqStore.o): In function `constructSeqStore(char*, seqCache*)': >seqStore.C:(.text+0x1c80): warning: memset used with constant zero length parameter; this could be due to transposed parameters >i686-pc-linux-gnu-g++ -L/usr/local/lib -o ../kmer/libseq/test-seqStream ../kmer/libseq/test-seqStream.o ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >../kmer/libseq/libseq.a(seqStore.o): In function `constructSeqStore(char*, seqCache*)': >seqStore.C:(.text+0x1c80): warning: memset used with constant zero length parameter; this could be due to transposed parameters >i686-pc-linux-gnu-g++ -L/usr/local/lib -o ../kmer/libseq/test-merStream ../kmer/libseq/test-merStream.o ../kmer/libseq/libseq.a ../kmer/libbio/libbio.a ../kmer/libutil/libutil.a -pthread -ldl -lm -lbz2 >../kmer/libseq/libseq.a(seqStore.o): In function `constructSeqStore(char*, seqCache*)': >seqStore.C:(.text+0x1c80): warning: memset used with constant zero length parameter; this could be due to transposed parameters >i686-pc-linux-gnu-gcc -O2 -pipe -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ../kmer/libutil/mt19937ar/test.o -c ../kmer/libutil/mt19937ar/test.c >rm -f ../kmer/libutil/mt19937ar/libmt19937ar.a && ar ruvs ../kmer/libutil/mt19937ar/libmt19937ar.a ../kmer/libutil/mt19937ar/mt19937ar.o ../kmer/libutil/mt19937ar/test.o >ar: creating ../kmer/libutil/mt19937ar/libmt19937ar.a >a - ../kmer/libutil/mt19937ar/mt19937ar.o >a - ../kmer/libutil/mt19937ar/test.o >rm -f ../kmer/libutil/kazlib/libkaz.a && ar ruvs ../kmer/libutil/kazlib/libkaz.a ../kmer/libutil/kazlib/dict.o ../kmer/libutil/kazlib/except.o ../kmer/libutil/kazlib/hash.o ../kmer/libutil/kazlib/list.o ../kmer/libutil/kazlib/sfx.o >ar: creating ../kmer/libutil/kazlib/libkaz.a >a - ../kmer/libutil/kazlib/dict.o >a - ../kmer/libutil/kazlib/except.o >a - ../kmer/libutil/kazlib/hash.o >a - ../kmer/libutil/kazlib/list.o >a - ../kmer/libutil/kazlib/sfx.o >make: Leaving directory `/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/kmer' >make -j14 -C src -j1 SITE_NAME=LOCAL >make: Entering directory `/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src' >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >make: Leaving directory `/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src' >make: Entering directory `/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src' >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_global.o AS_global.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >* Make Target is objs >############################## AS_RUN ############################## >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/fragmentDepth.o fragmentDepth.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/markUniqueUnique.o markUniqueUnique.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >############################## AS_UTL ############################## >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_Hash.o AS_UTL_Hash.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_heap.o AS_UTL_heap.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_Var.o AS_UTL_Var.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >AS_UTL_Hash.C: In function âint DeleteFromHashTable_AS(HashTable_AS*, uint64, uint32)â: >AS_UTL_Hash.C:439:3: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] >AS_UTL_Hash.C: In function âuint64 ReplaceInHashTable_AS(HashTable_AS*, uint64, uint32, uint64, uint32)â: >AS_UTL_Hash.C:505:3: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] >AS_UTL_Hash.C: In function âint LookupInHashTable_AS(HashTable_AS*, uint64, uint32, uint64*, uint32*)â: >AS_UTL_Hash.C:559:3: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_rand.o AS_UTL_rand.C >AS_UTL_heap.C: In function âvoid* NextHeapIterator_AS(HeapIterator_AS*)â: >AS_UTL_heap.C:78:42: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >AS_UTL_Var.C: In function âint MakeRoom_VA(VarArrayType*, size_t)â: >AS_UTL_Var.C:145:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_interval.o AS_UTL_interval.C >AS_UTL_Var.C: In function âvoid ReadVA(FILE*, VarArrayType*, FileVarArrayType*)â: >AS_UTL_Var.C:343:58: warning: format â%lldâ expects argument of type âlong long intâ, but argument 4 has type âsize_tâ [-Wformat] >AS_UTL_Var.C:343:58: warning: format â%lldâ expects argument of type âlong long intâ, but argument 5 has type âsize_tâ [-Wformat] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/UnionFind_AS.o UnionFind_AS.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_skiplist.o AS_UTL_skiplist.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_alloc.o AS_UTL_alloc.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_fileIO.o AS_UTL_fileIO.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_qsort_mt.o AS_UTL_qsort_mt.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_fasta.o AS_UTL_fasta.C >AS_UTL_fileIO.C: In function âoff_t AS_UTL_sizeOfFile(const char*)â: >AS_UTL_fileIO.C:263:35: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â, declared with attribute warn_unused_result [-Wunused-result] >AS_UTL_fileIO.C:264:43: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â, declared with attribute warn_unused_result [-Wunused-result] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >AS_UTL_qsort_mt.C: In function âvoid qsort_mt(void*, size_t, size_t, int (*)(const void*, const void*), int, int)â: >AS_UTL_qsort_mt.C:153:11: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_UID.o AS_UTL_UID.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/AS_UTL_reverseComplement.o AS_UTL_reverseComplement.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >############################## AS_UID ############################## >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/uidclient.o uidclient.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/uidserver.o uidserver.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >g++ -O2 -pipe -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -DANSI_C -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -fPIC -pthread -O2 -Wall -Wimplicit -Wno-write-strings -Wno-unused -Wno-char-subscripts -march=i686 -DX86_GCC_LINUX -c -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_RUN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UTL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_UID -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MSG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_PER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_GKP -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OBT -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_MER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVL -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_OVS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ALN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGB -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_BOG -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REZ -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CNS -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_LIN -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_CGW -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_TER -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ENV -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_ARD -I/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src/AS_REF -o /var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/Linux-i686/obj/SYS_UIDclient_LOCAL.o SYS_UIDclient_LOCAL.C >cc1plus: warning: command line option â-Wimplicitâ is valid for C/ObjC but not for C++ [enabled by default] >In file included from uidserver.C:24:0: >uidserver_common.h:15:23: fatal error: rpc/types.h: No such file or directory >compilation terminated. >make[1]: *** [uidserver.o] Error 1 >make[1]: *** Waiting for unfinished jobs.... >SYS_UIDclient_LOCAL.C: In function âuint64 getGUIDBlock(int)â: >SYS_UIDclient_LOCAL.C:61:37: warning: ignoring return value of âint fscanf(FILE*, const char*, ...)â, declared with attribute warn_unused_result [-Wunused-result] >make: *** [objs] Error 1 >make: Leaving directory `/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1/src' >emake failed > * ERROR: sci-biology/wgs-assembler-6.1 failed (compile phase): > * (no error message) > * > * Call stack: > * ebuild.sh, line 56: Called src_compile > * environment, line 2343: Called die > * The specific snippet of code: > * emake -C src -j1 SITE_NAME=LOCAL || die > * > * If you need support, post the output of 'emerge --info =sci-biology/wgs-assembler-6.1', > * the complete build log and the output of 'emerge -pqv =sci-biology/wgs-assembler-6.1'. > * The complete build log is located at '/var/log/portage/build/sci-biology/wgs-assembler-6.1:20110708-122919.log'. > * The ebuild environment file is located at '/var/tmp/portage/sci-biology/wgs-assembler-6.1/temp/environment'. > * S: '/var/tmp/portage/sci-biology/wgs-assembler-6.1/work/wgs-6.1'
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