[Bioperl-l] Beginner Script Error
Cavin Ward-Caviness
cavin.wardcaviness at gmail.com
Mon Sep 14 02:25:51 UTC 2009
I am very new to perl and bioperl and figured I'd start learning by trying
to run a simple script to get BLAST data. Here is the code I am trying to
run
use Bio::Perl;
$seq = get_sequence('swiss',"ROA1_HUMAN");
# uses the default database - nr in this case
$blast_result = blast_sequence($seq);
write_blast(">roa1.blast",$blast_result);
Instead of creating a file of the blast results I get the following error
message
Bio::SeqIO: swiss cannot be found.
Exception
Msg: Failed to load module Bio::SeqIO:swiss
It seems as though I may simply be missing the proper module. I am running
bioperl 1.5.9_4 installed using the Perl Package Manager from the
instructions on the bioperl wiki page. If I am simply missing a module
please let me know which one it is - and any other helpful modules that
someone in the bioinformatics field is likely to use.
Thanks,
Cavin
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