Packaging BLAT for Debian
Hi Jim,
I'm writing you on behalf of the Debian Med team that has the goal to
introduce official Debian packages of Free Software which is relevant
in medicine and biology. Considering that you are the author of BLAT
you might be interested in our biology task here
http://blends.debian.org/med/tasks/bio
to get an overview what we are working on.
You might have noticed that also your software BLAT is mentioned on
this page
http://blends.debian.org/med/tasks/bio#blat
on out todo list. Please note that it needs to go in Debian's non-free
section since it is restricted to scientific use only.
The problem I currently have is that I try to run any test suite of
software if it is available. So I also tried
cd blat/test; make
which quickly ends up in
blat -verbose=0 throwback/target1.fa throwback/query1.fa throwback/test.psl
Loaded 129433 letters in 1 sequences
Searched 2050 bases in 1 sequences
pslCheck -verbose=0 throwback/test.psl
make: pslCheck: Command not found
make: *** [tThrowback] Error 127
since there is no binary pslCheck. Did I missed something when creating
the binaries from BLAT source since I only found a function
int pslCheck(char *pslDesc, FILE* out, struct psl* psl)
in file lib/psl.c but no such executable to call. Any hint how to
run the test suite successfully?
Kind regards and thanks for providing BLAT
Andreas.
--
http://fam-tille.de
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