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

[Sendu Bala]

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.