Mercurial > repos > bgruening > glimmer_hmm
view glimmerHMM/glimmerhmm_to_sequence.py @ 1:4da91bb244dc draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/glimmer_hmm commit 2effed877a778e455c63a76e994a0f2bb8f4dba0
author | rmarenco |
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date | Thu, 14 Jul 2016 15:11:33 -0400 |
parents | c9699375fcf6 |
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#!/usr/bin/env python """Convert GlimmerHMM gene predictions into protein sequences. This works with both the GFF and the costumn Tabular Output. And is only a wrapper to call the appropiate scripts. Usage: glimmerhmm_to_sequence.py <glimmer output> <ref fasta> <output file> <format> <protein> """ import sys import os import glimmerhmm_tabular_to_sequence import glimmerhmm_gff_to_sequence def main(glimmer_file, ref_file, out_file, to_protein = False): if to_protein == 'True': to_protein = True else: to_protein = False glimmerhmm_gff_to_sequence.main(glimmer_file, ref_file, out_file, to_protein) if __name__ == "__main__": if len(sys.argv) != 5: print __doc__ sys.exit() main(*sys.argv[1:])