[Bioperl-pipeline] RE: bioperl-pipeline for the small lab

[Elia Stupka]

> So a cron wrapper on an already existing pipeline path?

The blasts you were suggesting can happen in parallel, so it would be a
parallel pipeline with a cronjob rerunning it whenever you want. As I was
suggesting earlier, we might want to write a Scheduler module which reruns
specific (independent) parts at specific times. These could be written in
as analysis_groups within a pipeline.

> Regarding 2, I can help with trying to write first passes at any
> runnable that I might need (it sounds simple enough), but will wait
> for Martin's attempt to define the interface as you suggest.

Don't worry if I were you I would start working on it. The core of the
Bio::Tools::Run is passing the right input and parsing the output, which
will stay the same, and then you can tweak the wrapper to comply with the
interface.

Elia

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