parser for ab initio gene predictor GlimmerM in CVS

Jason writes:

I’ve added a parser for the ab initio gene predictor GlimmerM in Bio::Tools::Glimmer. Tests are added to t/Genpred.t now.

It follows the Bio::Tools::AnalysisParser interface which support the next_prediction call and returns a Bio::Tools::Prediction::Gene object in the same way as Genscan.

I also have some scripts for building the training set file so you can run Glimmer on other species. There is also a similar script for building custom splice sites file for Genewise which I’ll commit soon. Basically it takes as input a GFF file which has exons annotated (typically from Sim4/Exonerate alignments of cDNA to DNA) and a reference to the genomic DNA db (typically just a flatfile which we index with Bio::DB::Flat).

Not sure where to put these - scripts/gene_prediction ?