[Bioperl-l] Ask for help about Bioperl

[Brian Osborne]

胡江,

You're going to have show us your code, we can't help you just by seeing the error messages. Show us the input file as well, or the beginning of it.

Brian O.


On Nov 6, 2012, at 2:38 AM, 胡江 <mooldhu at gmail.com> wrote:

> hi,
> when I use bioperl ,it report errors like this :---------------------
> WARNING ---------------------
> MSG: sequence '1' doesn't validate, mismatch is )81,95,0(,::
> ---------------------------------------------------
> Error providing evidence type: GeneModel
> The error was:
> 
> ------------- EXCEPTION: Bio::Root::Exception -------------
> MSG: Attempting to set the sequence '1' to
> [)81hvf95x0(DSTD=qeSrytkiyP::oiV] which does not look healthy
> STACK: Error::throw
> STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:486
> STACK: Bio::PrimarySeq::seq /usr/share/perl5/Bio/PrimarySeq.pm:285
> STACK: Bio::PrimarySeq::new /usr/share/perl5/Bio/PrimarySeq.pm:239
> STACK: Bio::PrimarySeqI::revcom /usr/share/perl5/Bio/PrimarySeqI.pm:383
> 
> 
> but,I am sure that the input file only cotain [ATGCN],I also try to use
> another sequences ,but the errors are the same.my bioperl is Bioperl-live
> 1.006902;
> 
> -- 
> 胡江
> 
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