[Bioperl-l] Issues with new Bio::Tools::Run modules for Genemark and Glimmer

Sendu Bala bix at sendu.me.uk
Wed Feb 28 15:52:23 EST 2007

Mark Johnson wrote:
>    One final thing.  I'm lazy, I don't want to deal with parsing arguments
> to the constructor, so I'm just calling _rearrange() to deal with it.  The
> Bio::Tools:: parsers all take dash options, but it looks like a bunch of the
> stuff in Bio::Tools::Run:: takes dashless args.  Objections?

You can make use of _set_from_args(). See Bio::Tools::Run::Phylo::Gumby 
for an example.

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