Created
April 5, 2012 08:59
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Tabix error
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rob-> make | |
make[1]: Entering directory `/home/rob/src/github/freebayes/vcflib/tabixpp' | |
gcc -c -g -Wall -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE bgzf.c -o bgzf.o | |
bgzf.c: In function ‘bgzf_close’: | |
bgzf.c:630:8: warning: variable ‘count’ set but not used [-Wunused-but-set-variable] | |
gcc -c -g -Wall -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE kstring.c -o kstring.o | |
gcc -c -g -Wall -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE knetfile.c -o knetfile.o | |
knetfile.c: In function ‘khttp_connect_file’: | |
knetfile.c:418:2: warning: ignoring return value of ‘write’, declared with attribute warn_unused_result [-Wunused-result] | |
knetfile.c: In function ‘kftp_send_cmd’: | |
knetfile.c:239:2: warning: ignoring return value of ‘write’, declared with attribute warn_unused_result [-Wunused-result] | |
gcc -c -g -Wall -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE index.c -o index.o | |
gcc -c -g -Wall -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE bedidx.c -o bedidx.o | |
ar -cru libtabix.a bgzf.o kstring.o knetfile.o index.o bedidx.o | |
ranlib libtabix.a | |
gcc -c -g -Wall -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE main.c -o main.o | |
gcc -g -Wall -O2 -fPIC -o tabix main.o -lm -lz -L. -ltabix | |
./libtabix.a(bgzf.o): In function `deflate_block': | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bgzf.c:311: undefined reference to `deflate' | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bgzf.c:313: undefined reference to `deflateEnd' | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bgzf.c:305: undefined reference to `deflateInit2_' | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bgzf.c:329: undefined reference to `deflateEnd' | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bgzf.c:345: undefined reference to `crc32' | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bgzf.c:346: undefined reference to `crc32' | |
./libtabix.a(bgzf.o): In function `inflate_block': | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bgzf.c:380: undefined reference to `inflateInit2_' | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bgzf.c:385: undefined reference to `inflate' | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bgzf.c:391: undefined reference to `inflateEnd' | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bgzf.c:387: undefined reference to `inflateEnd' | |
./libtabix.a(bedidx.o): In function `ks_getuntil': | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bedidx.c:11: undefined reference to `gzread' | |
./libtabix.a(bedidx.o): In function `bed_read': | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bedidx.c:103: undefined reference to `gzdopen' | |
./libtabix.a(bedidx.o): In function `ks_getc': | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bedidx.c:11: undefined reference to `gzread' | |
./libtabix.a(bedidx.o): In function `bed_read': | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bedidx.c:138: undefined reference to `gzclose' | |
/home/rob/src/github/freebayes/vcflib/tabixpp/bedidx.c:103: undefined reference to `gzopen64' | |
collect2: ld returned 1 exit status | |
make[1]: *** [tabix] Error 1 | |
make[1]: Leaving directory `/home/rob/src/github/freebayes/vcflib/tabixpp' | |
make: *** [all-recur] Error 1 |
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