anonymoushydrogen has asked for the wisdom of the Perl Monks concerning the following question:
DEAR monks
i have tried hard to what is the real problem in code given below but unable to make it out
when i run the program over linux
plz help me out.
THE CODE
use BSD::Resource; print "the pid is:$$\n"; $lowerprio = getpriority(PRIO_PROCESS, 0); print"$lowerprio\n"; $gothigher = setpriority(PRIO_PROCESS, 0, -5); print"$gothigher\n"; print "pi of the program is:$$"; print "pi of the program is:$$"; $i=1; while($i==1){ print "entre the organism name\n"; chomp($org=<>); print "chrmosome no\n"; chomp($chr=<>); print "entre the element name\n"; chomp($ele=<>); print "entre genome file\n"; chomp($chrfile=<>); print "entre element file\n"; chomp($element=<>); body(); } sub body{ print "blast is running\n"; system("/blast/bin/./formatdb -i /anonymous/$chrfile -p F -o T " ); system("/blast/bin/./blastall -p blastn -d /anonymous/$chrfile -i /ano +nymous/$element -o /anonymous/blast-$org$chr-$ele.txt -e 1e-8 -F F"); + #### problem line print "blast is completed please chech the output file blast-$org$chr- +$ele.txt \n"; } }
the problem
the problem is now that in program takes blast-$org$chr-$ele.txt it takes "-" as a parameter.
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Re: Blast problem
by psini (Deacon) on May 25, 2008 at 11:04 UTC | |
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Re: Blast problem
by moritz (Cardinal) on May 25, 2008 at 11:16 UTC |