hmmm, never got a error like that.
you have velvet 1.1.03 and oases 0.1.20 ?
you have velvet 1.1.03 and oases 0.1.20 ?
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jpreuss@velvet-vm:~/Oases$ make 'VELVET_DIR=/home/jpreuss/Velvet' 'MAXKMERLENGTH=35' rm -f obj/*.o obj/dbg/*.o cd /home/jpreuss/Velvet && make obj make[1]: Betrete Verzeichnis '/home/jpreuss/Velvet' cd third-party/zlib-1.2.3; ./configure; make; rm minigzip.o; rm example.o Checking for gcc... Building static library libz.a version 1.2.3 with gcc. Checking for unistd.h... Yes. Checking whether to use vs[n]printf() or s[n]printf()... using vs[n]printf() Checking for vsnprintf() in stdio.h... Yes. Checking for return value of vsnprintf()... Yes. Checking for errno.h... Yes. Checking for mmap support... Yes. make[2]: Betrete Verzeichnis '/home/jpreuss/Velvet/third-party/zlib-1.2.3' gcc -O3 -DUSE_MMAP -c -o example.o example.c gcc -O3 -DUSE_MMAP -c -o adler32.o adler32.c gcc -O3 -DUSE_MMAP -c -o compress.o compress.c gcc -O3 -DUSE_MMAP -c -o crc32.o crc32.c gcc -O3 -DUSE_MMAP -c -o gzio.o gzio.c gcc -O3 -DUSE_MMAP -c -o uncompr.o uncompr.c gcc -O3 -DUSE_MMAP -c -o deflate.o deflate.c gcc -O3 -DUSE_MMAP -c -o trees.o trees.c gcc -O3 -DUSE_MMAP -c -o zutil.o zutil.c gcc -O3 -DUSE_MMAP -c -o inflate.o inflate.c gcc -O3 -DUSE_MMAP -c -o infback.o infback.c gcc -O3 -DUSE_MMAP -c -o inftrees.o inftrees.c gcc -O3 -DUSE_MMAP -c -o inffast.o inffast.c ar rc libz.a adler32.o compress.o crc32.o gzio.o uncompr.o deflate.o trees.o zutil.o inflate.o infback.o inftrees.o inffast.o gcc -O3 -DUSE_MMAP -o example example.o -L. libz.a gcc -O3 -DUSE_MMAP -c -o minigzip.o minigzip.c gcc -O3 -DUSE_MMAP -o minigzip minigzip.o -L. libz.a make[2]: Verlasse Verzeichnis '/home/jpreuss/Velvet/third-party/zlib-1.2.3' rm obj/*.o obj/dbg/*.o rm: Entfernen von „obj/dbg/*.o“ nicht möglich: Datei oder Verzeichnis nicht gefunden make[1]: [cleanobj] Fehler 1 (ignoriert) mkdir -p obj gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/tightString.c -o obj/tightString.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/run.c -o obj/run.o src/run.c: In function ‘main’: src/run.c:212: warning: ignoring return value of ‘system’, declared with attribute warn_unused_result gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/splay.c -o obj/splay.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/splayTable.c -o obj/splayTable.o src/splayTable.c: In function ‘computeClearHSPs’: src/splayTable.c:631: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result src/splayTable.c: In function ‘inputSequenceArrayIntoSplayTableAndArchive’: src/splayTable.c:931: warning: ignoring return value of ‘fgets’, declared with attribute warn_unused_result gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/graph.c -o obj/graph.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/run2.c -o obj/run2.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/fibHeap.c -o obj/fibHeap.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/fib.c -o obj/fib.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/concatenatedGraph.c -o obj/concatenatedGraph.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/passageMarker.c -o obj/passageMarker.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/graphStats.c -o obj/graphStats.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/correctedGraph.c -o obj/correctedGraph.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/dfib.c -o obj/dfib.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/dfibHeap.c -o obj/dfibHeap.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/recycleBin.c -o obj/recycleBin.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/readSet.c -o obj/readSet.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/shortReadPairs.c -o obj/shortReadPairs.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/locallyCorrectedGraph.c -o obj/locallyCorrectedGraph.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/graphReConstruction.c -o obj/graphReConstruction.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/roadMap.c -o obj/roadMap.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/preGraph.c -o obj/preGraph.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/preGraphConstruction.c -o obj/preGraphConstruction.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/concatenatedPreGraph.c -o obj/concatenatedPreGraph.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/readCoherentGraph.c -o obj/readCoherentGraph.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/utility.c -o obj/utility.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/kmer.c -o obj/kmer.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/scaffold.c -o obj/scaffold.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/kmerOccurenceTable.c -o obj/kmerOccurenceTable.o gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/allocArray.c -o obj/allocArray.o make[1]: Verlasse Verzeichnis '/home/jpreuss/Velvet' gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/oases.c -o obj/oases.o -I/home/jpreuss/Velvet/src gcc -Wall -O3 -D MAXKMERLENGTH=35 -D CATEGORIES=2 -c src/transcript.c -o obj/transcript.o -I/home/jpreuss/Velvet/src src/transcript.c:564: error: static declaration of ‘getTotalCoverage’ follows non-static declaration /home/jpreuss/Velvet/src/graph.h:99: note: previous declaration of ‘getTotalCoverage’ was here make: *** [obj/transcript.o] Fehler 1
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