view genome-lengths-to-karyotype.py @ 4:184dfd9e113d draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"

#!/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} {theme}-{color}\n".format(
                seq_id=seq_id,
                idx=idx,
                length=length,
                color=((idx + 1) % 12),
                theme=sys.argv[2],
            )
        )
        idx += 1