[BiO BB] Bio::Factory::EMBOSS problem
cwoelk at popmail.ucsd.edu
Thu Sep 16 21:26:34 EDT 2004
I was looking for some help
I am under OS X 10.3.5 and I have bioperl-1.4 and EMBOSS-2.9.0
installed. I am trying to implement to following code:
# get an EMBOSS application object from the EMBOSS factory
$factory = new Bio::Factory::EMBOSS;
$application = $factory->program('sixpack');
# run the application with an optional hash containing parameters
%input = ( -sequence => $seqobj );
I get the error message:
Can't locate Bio/Factory/EMBOSS.pm in @INC (@INC contains:
/Network/Library/Perl/5.8.1 /Network/Library/Perl .) at
./iterate_seqs.1.pl line 9.
I noticed that EMBOSS.pm does not exist in my Factory directory. I
then tried switching to emboss.pm in the AlignIO directory:
But got this error message
Can't locate object method "program" via package "Bio::AlignIO::emboss"
at ./iterate_seqs.1.pl line 40, <GEN0> line 1.
Thanks for any help
Christopher Woelk, PhD
University California at San Diego
Department of Pathology
Stein Clinical Research Bldg.
9500 Gilman Drive
La Jolla CA 92093-0679
Tel: 858 642 1106
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