Mercurial > repos > brinkmanlab > biopython_convert

annotate bioperl_compat.py @ 0:869e206b3ca1 draft

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"planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
author brinkmanlab
date Fri, 24 Jan 2020 18:52:04 -0500
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children a5cb5e374399
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869e206b3ca1 "planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
brinkmanlab
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1 #!/usr/bin/env python
869e206b3ca1 "planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
brinkmanlab
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2 import sys
869e206b3ca1 "planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
brinkmanlab
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3 from biopython_convert import get_args, convert
869e206b3ca1 "planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
brinkmanlab
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4 from Bio.SeqIO.InsdcIO import _InsdcWriter
869e206b3ca1 "planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
brinkmanlab
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869e206b3ca1 "planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
brinkmanlab
parents:
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6 # Quote anticodon qualifiers
869e206b3ca1 "planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
brinkmanlab
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7 _InsdcWriter.FTQUAL_NO_QUOTE = tuple(v for v in _InsdcWriter.FTQUAL_NO_QUOTE if v not in ['anticodon', 'transl_except'])
869e206b3ca1 "planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
brinkmanlab
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869e206b3ca1 "planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
brinkmanlab
parents:
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9 if __name__ == '__main__':
869e206b3ca1 "planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
brinkmanlab
parents:
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10 convert(*get_args(sys.argv[1:]))
869e206b3ca1 "planemo upload for repository https://github.com/brinkmanlab/galaxy-tools/tree/master/biopython-convert commit 2f8c5be3bf3117a8d3296a6b82655ff08edd2f34"
brinkmanlab
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