[Bioperl-l] bioperl-run parameter question
bix at sendu.me.uk
Mon Dec 11 13:21:42 EST 2006
Chris Fields wrote:
> I am writing up a few bioperl-run modules and have a simple question,
> though I don't know if anyone knows the answer. I was curious as to
> why parameters for most (all?) bioperl-run modules lack the '-'
> preceding them. This came up re: StandAloneBlast last week
> (something Torsten fixed), but I noticed just about every bioperl-run
> module uses the dashless parameters.
I didn't follow that particular thread, but from my experience there is
a useful distinction between bioperl options using the - as normal for
full consistency with core (eg. -verbose), whilst the options that
belong to the program the run module is a wrapper for do not take
dashes. Again, this seems consistent within the run package.
I'd suggest sticking to the current pattern.
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