[Bioperl-l] Syntax for load_interpro.pl?
lacava at gmail.com
Mon Jul 6 03:12:18 UTC 2009
Thanks for the response.
Actually, I felt I did not need the entire functions of the ontology
script, and thought I might see what
the interpro script would generate, at the potential benefit of lower
complexity to me, the novice programmer.
But I was having trouble getting the interpro script to run, since I
couldnt land the syntax.
Anyway, I have since started writing my own script and will not pursue
this matter further.
On Jul 5, 2009, at 6:00 PM, Hilmar Lapp wrote:
> Hi John,
> I presume you mean the scripts/biosql/load_interpro.pl script in
> Bioperl-db. It has indeed been obsoleted for a long time and I guess
> I should remove it because the functionality is now in
> load_ontology.pl. This is b/c InterPro for the purposes of BioPerl
> is an ontology.
> Have you found it not to work with load_ontology.pl?
> On Jul 5, 2009, at 4:30 PM, John LaCava wrote:
>> I am attempting to use this script, but I don't seem to be able to
>> determine the appropriate syntax.
>> Documentation on this script seems minimal. Moreover, I am not yet
>> terribly experienced with
>> these endeavors.
>> Could someone possibly provide me with an example syntax?
>> e.g. > load_interpro.pl ...
>> then what?
>> I must specify -db -file -version ?
>> I tried a couple of ways, but I get the similar errors each time:
>> /usr/local/bin/bp_load_interpro.pl: line 29: syntax error near
>> unexpected token `$file,'
>> /usr/local/bin/bp_load_interpro.pl: line 29: `my ($file, $version);'
>> Also, from reading the comments, it appears this is supposed to be
>> made obsolete or superseded by
>> the script load_ontologies.pl. Why is this?
>> Sorry to bother, and thanks in advance.
>> BioSQL-l mailing list
>> BioSQL-l at lists.open-bio.org
> : Hilmar Lapp -:- Durham, NC -:- hlapp at gmx dot net :
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