[Bioperl-l] length of hit->description

[Francisco J. Ossandón]

Hello, 
Can you give more context of the problem?? Are you talking about a Blast
result or a HMMer result??

Is important because the default Blast output format use multiple lines if
hit description is too long, but HMMer truncates the description to what can
be fit in a single line, so BioPerl can't recover more than what appears in
the output. If your are talking about HMMer, some months ago I already
applied a patch that recovers as most as possible from the description:
https://github.com/bioperl/bioperl-live/commit/74c88d254215dd1879e23488cd308
033d0fce6f9

Also, what's your purpose with " hit->description(500)"?? Because passing an
argument would change the description to '500' instead of the original
description...

Cheers,

Francisco J. Ossandon

-----Mensaje original-----
De: bioperl-l-bounces+fossandonc=hotmail.com at mailman.open-bio.org
[mailto:bioperl-l-bounces+fossandonc=hotmail.com at mailman.open-bio.org] En
nombre de Antony03
Enviado el: jueves, 24 de julio de 2014 13:05
Para: Bioperl-l at mailman.open-bio.org
Asunto: [Bioperl-l] length of hit->description

Hello,

When I use hit->description I get a truncated result like this:

repB putative plasmid replication protein R

I tried hit->description(500) and I get the same result.

Is there something wrong?

Thanks



--
View this message in context:
http://bioperl.996286.n3.nabble.com/length-of-hit-description-tp17596.html
Sent from the Bioperl-L mailing list archive at Nabble.com.
_______________________________________________
Bioperl-l mailing list
Bioperl-l at mailman.open-bio.org
http://mailman.open-bio.org/mailman/listinfo/bioperl-l