[Bioperl-l] Syntax for load_interpro.pl?

[John LaCava]

Hi again,

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.

Best wishes,
John


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?
>
> 	-hilmar
>
> On Jul 5, 2009, at 4:30 PM, John LaCava wrote:
>
>> Greetings,
>>
>> 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:
>>
>> e.g.
>> /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 made obsolete or superseded by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.
>>
>> John
>> _______________________________________________
>> BioSQL-l mailing list
>> BioSQL-l at lists.open-bio.org
>> http://lists.open-bio.org/mailman/listinfo/biosql-l
>
> -- 
> ===========================================================
> : Hilmar Lapp  -:-  Durham, NC  -:-  hlapp at gmx dot net :
> ===========================================================
>
>
>