[Bioperl-l] problem with a script
"Joonas Jämsen"
jajams at utu.fi
Wed Sep 16 10:04:18 UTC 2009
Hi,
Im trying to run the script below and I get an error: "Can't call method "next_result" on an undefined value at parser.pl line 5."
#!/v/linux26_x86_64/appl/molbio/bioperl/perl/bin/
use Bio::SearchIO
my $searchio = Bio::SearchIO->new(-format => 'hmmer', -file => '/wrk/xxxx/hmm/hmmsearch_nr.out');
while ( my $result = $in->next_result ) {
while ( my $hit = $result->next_hit ) {
while ( my $hsp-evalue<=10 ) {
while ( my $hsp = $hit->next_hsp ) {
print $hit->accession(), "\n";
}
}
}
Could someone tell me what is wrong?
Thanks.
More information about the Bioperl-l
mailing list