Mercurial > repos > eduardo > mergegffs

comparison mergegffs.py @ 9:79d6bb2e6a5d draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mergegffs commit b370006ad76357c5f9014e0af87205737197ace2
author eduardo
date Sat, 08 Apr 2017 18:17:27 -0400
parents 2b2efd0c4df8
children 8d0c12c9241d
comparison
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8:072ab1b781d8 9:79d6bb2e6a5d
11 argv.append("-h") 11 argv.append("-h")
12 parser = argparse.ArgumentParser(formatter_class=argparse.RawDescriptionHelpFormatter, description=__doc__) 12 parser = argparse.ArgumentParser(formatter_class=argparse.RawDescriptionHelpFormatter, description=__doc__)
13 parser.add_argument('-m','--genemap', help="mapping of genes to transcripts") 13 parser.add_argument('-m','--genemap', help="mapping of genes to transcripts")
14 parser.add_argument('-p','--peptides',required=True, help="peptide prediction gff") 14 parser.add_argument('-p','--peptides',required=True, help="peptide prediction gff")
15 parser.add_argument('-b','--blastp', help="blastp outfmt6 results for peptides") 15 parser.add_argument('-b','--blastp', help="blastp outfmt6 results for peptides")
16 parser.add_argument('-x','--blastx', help="blastx outfmt6 results for transcripts")
16 parser.add_argument('-f','--pfam', help="hmmer results for peptides") 17 parser.add_argument('-f','--pfam', help="hmmer results for peptides")
17 parser.add_argument('-t','--tmhmm', help="tmhmm results for peptides") 18 parser.add_argument('-t','--tmhmm', help="tmhmm results for peptides")
18 parser.add_argument('-s','--signalP', help="signalP results for peptides") 19 parser.add_argument('-s','--signalP', help="signalP results for peptides")
19 parser.add_argument('-d','--database', required=True, help="gff database to load or create") 20 parser.add_argument('-d','--database', required=True, help="gff database to load or create")
20 parser.add_argument('-o','--output', required=True, help="output in gff format") 21 parser.add_argument('-o','--output', required=True, help="output in gff format")