[Bioperl-l] SeqIO documentation

[Chris Fields]

Brian,

That fits current behavior, so yes that makes sense.

chris

On Aug 8, 2009, at 9:18 AM, Brian Osborne wrote:

> Chris,
>
> Since we've been discussing formats I just wanted to mention that  
> I've changed this documentation from SeqIO.pm:
>
> If no format is specified and a filename is given then the module  
> will attempt to deduce the format from the filename suffix. If there  
> is no suffix that Bioperl understands then it will attempt to guess  
> the format based on file content. If this is unsuccessful then Fasta  
> format is assumed.
>
> To:
>
> If no format is specified and a filename is given then the module  
> will attempt to deduce the format from the filename suffix. If there  
> is no suffix that Bioperl understands then it will attempt to guess  
> the format based on file content. If this is unsuccessful then SeqIO  
> will throw a fatal error.
>
> The code is clear, if SeqIO can't figure out what the format is then  
> it dies, "fasta" is not the default format.
>
>
> Brian O.
>
>
>
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