Entering edit mode
7.2 years ago
johnnytam100
▴
110
When I tried to compile Pindel using the following command :
./INSTALL /data/tam/script/samtools-1.5/
The following error (partially) appeared :
pindel.h:34:26: error: htslib/khash.h: No such file or directory
pindel.h:35:24: error: htslib/sam.h: No such file or directory
In file included from refreader.cpp:26:
pindel.h:34:26: error: htslib/khash.h: No such file or directory
pindel.h:35:24: error: htslib/sam.h: No such file or directory
In file included from searcher.cpp:22:
pindel.h:34:26: error: htslib/khash.h: No such file or directory
pindel.h:35:24: error: htslib/sam.h: No such file or directory
In file included from reporter.cpp:32:
pindel.h:34:26: error: htslib/khash.h: No such file or directory
pindel.h:35:24: error: htslib/sam.h: No such file or directory
reader.cpp:29:24: error: htslib/sam.h: No such file or directory
reader.cpp:30:28: error: htslib/kstring.h: No such file or directory
reader.cpp:31:25: error: htslib/kseq.h: No such file or directory
reader.cpp:32:26: error: htslib/khash.h: No such file or directory
reader.cpp:33:26: error: htslib/ksort.h: No such file or directory
Is it I have to add a path to the htslib directory? Use what command?
Thank you!
Where and how did you get your samtools? There should be a
htslib
folder in/data/tam/script/samtools-1.5/
. Is it not there?