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Gaius-Augustus / Augustus

Genome annotation with AUGUSTUS
http://bioinf.uni-greifswald.de/webaugustus/
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/usr/bin/ld: cannot find -lhts #365

Open ypchan opened 1 year ago

ypchan commented 1 year ago

Dear developers,

I successfully compiled augustus but failed to compile auxprogs. please check the error message. Thanks

make auxprogs -j 12

make[2]: Leaving directory '/home/data/t190303/biosoft/Augustus/auxprogs/utrrnaseq' cd bam2wig; make; make[2]: Entering directory '/home/data/t190303/biosoft/Augustus/auxprogs/bam2wig' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -Wall -O2 -I/home/data/t190303/biosoft/htslib/htslib_install/include/htslib -I/home/data/t190303/biosoft/zlib/zlib_install/include -c bam2wig.c cc -Wall -O2 -L/usr/lib//home/data/t190303/biosoft/htslib/htslib_install/lib -Wl,-rpath,/home/data/t190303/biosoft/htslib/htslib_install/lib -L/home/data/t190303/biosoft/zlib/zlib_install/lib -Wl,-rpath,/home/data/t190303/biosoft/zlib/zlib_install/lib -o bam2wig bam2wig.o -lhts -lz -lpthread /usr/bin/ld: cannot find -lhts collect2: error: ld returned 1 exit status make[2]: *** [Makefile:58: bam2wig] Error 1 make[2]: Leaving directory '/home/data/t190303/biosoft/Augustus/auxprogs/bam2wig' make[1]: *** [Makefile:11: all] Error 2 make[1]: Leaving directory '/home/data/t190303/biosoft/Augustus/auxprogs' make: *** [Makefile:16: auxprogs] Error 2

kind regards, Yanpeng

KatharinaHoff commented 1 year ago

Do you need bam2wig for a specific reason? We have a script that does the same job... https://github.com/Gaius-Augustus/Augustus/blob/master/scripts/bamToWig.py

On Thu, Oct 20, 2022 at 8:29 AM Yanpeng Chen @.***> wrote:

Dear developers,

I successfully compiled augustus but failed to compile auxprogs. please check the error message. Thanks

make auxprogs -j 12

make[2]: Leaving directory '/home/data/t190303/biosoft/Augustus/auxprogs/utrrnaseq' cd bam2wig; make; make[2]: Entering directory '/home/data/t190303/biosoft/Augustus/auxprogs/bam2wig' make[2]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cc -Wall -O2 -I/home/data/t190303/biosoft/htslib/htslib_install/include/htslib -I/home/data/t190303/biosoft/zlib/zlib_install/include -c bam2wig.c cc -Wall -O2 -L/usr/lib//home/data/t190303/biosoft/htslib/htslib_install/lib -Wl,-rpath,/home/data/t190303/biosoft/htslib/htslib_install/lib -L/home/data/t190303/biosoft/zlib/zlib_install/lib -Wl,-rpath,/home/data/t190303/biosoft/zlib/zlib_install/lib -o bam2wig bam2wig.o -lhts -lz -lpthread /usr/bin/ld: cannot find -lhts collect2: error: ld returned 1 exit status make[2]: [Makefile:58: bam2wig] Error 1 make[2]: Leaving directory '/home/data/t190303/biosoft/Augustus/auxprogs/bam2wig' make[1]: [Makefile:11: all] Error 2 make[1]: Leaving directory '/home/data/t190303/biosoft/Augustus/auxprogs' make: *** [Makefile:16: auxprogs] Error 2

kind regards, Yanpeng

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