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Sample sequences by locus tag input file #24

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To add locus file, include --locus_tag locus_tags.txt

chars, basemap = _get_DNA_map()

def _read_seq(self, path):
self.logger.info('reading %s', path)
kwargs = {'format': 'fasta', 'constructor': self.skbio_cls, 'validate': False}
for seq in skbio.io.read(path, **kwargs):
ltag = re.findall("\[locus_tag=([^[\]]*)\]", seq.metadata['description'])[0]
yield seq, ltag
if ltag in self.locus_ids:
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make sure self.locus_ids is a set

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