Mercurial > repos > iuc > circos
diff karyotype-from-lengths.py @ 7:4b519282a05b draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit ef20b4968a6d00c49209de6b723f8b96d8bd128a"
author | iuc |
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date | Mon, 25 May 2020 10:52:02 -0400 |
parents | |
children | e6cbe3190642 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/karyotype-from-lengths.py Mon May 25 10:52:02 2020 -0400 @@ -0,0 +1,23 @@ +#!/usr/bin/env python +import csv +import sys + + +idx = 0 +with open(sys.argv[1], "r") as csvfile: + spamreader = csv.reader(csvfile, delimiter="\t", quotechar='"') + for row in spamreader: + if len(row) < 2: + continue + + seq_id = row[0] + length = row[1] + + sys.stdout.write( + "chr - {seq_id} {seq_id} 0 {length} chr{idx}color\n".format( + seq_id=seq_id, + idx=idx, + length=length, + ) + ) + idx += 1