Mercurial > repos > iuc > jbrowse

comparison gff3_rebase.py @ 14:18be2d72fdee draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 0bfb0de98c918860c21808e8832caad9f0535975
author iuc
date Thu, 08 Jun 2017 17:31:38 -0400
parents ad4b9d7eae6a
children ff11d442feed
comparison
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13:69c5e9c0add0 14:18be2d72fdee
168 GFF.write([rec], sys.stdout) 168 GFF.write([rec], sys.stdout)
169 169
170 170
171 if __name__ == '__main__': 171 if __name__ == '__main__':
172 parser = argparse.ArgumentParser(description='rebase gff3 features against parent locations', epilog="") 172 parser = argparse.ArgumentParser(description='rebase gff3 features against parent locations', epilog="")
173 parser.add_argument('parent', type=file, help='Parent GFF3 annotations') 173 parser.add_argument('parent', type=argparse.FileType('r'), help='Parent GFF3 annotations')
174 parser.add_argument('child', help='Child GFF3 annotations to rebase against parent') 174 parser.add_argument('child', type=argparse.FileType('r'), help='Child GFF3 annotations to rebase against parent')
175 parser.add_argument('--interpro', action='store_true', 175 parser.add_argument('--interpro', action='store_true',
176 help='Interpro specific modifications') 176 help='Interpro specific modifications')
177 parser.add_argument('--protein2dna', action='store_true', 177 parser.add_argument('--protein2dna', action='store_true',
178 help='Map protein translated results to original DNA data') 178 help='Map protein translated results to original DNA data')
179 args = parser.parse_args() 179 args = parser.parse_args()