Mercurial > repos > iuc > circos

comparison genome-lengths-to-karyotype.py @ 2:014a21767ac4 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit 076837a2e9c2b6ececcea4aa286ea7a412387a96"
author iuc
date Tue, 17 Sep 2019 16:54:57 -0400
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children 740057a5126d
comparison
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1:ae9994cf526f 2:014a21767ac4
1 #!/usr/bin/env python
2 import csv
3 import sys
4
5
6 idx = 0
7 with open(sys.argv[1], "r") as csvfile:
8 spamreader = csv.reader(csvfile, delimiter="\t", quotechar='"')
9 for row in spamreader:
10 if len(row) < 2:
11 continue
12
13 seq_id = row[0]
14 length = row[1]
15
16 sys.stdout.write(
17 "chr - {seq_id} {seq_id} 0 {length} {theme}-{color}\n".format(
18 seq_id=seq_id,
19 idx=idx,
20 length=length,
21 color=((idx + 1) % 12),
22 theme=sys.argv[2],
23 )
24 )
25 idx += 1