Mercurial > repos > nml > metaspades

view write_tsv_script.py @ 14:f369ef5f210b draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/spades commit 066e075c1599b29e92708194db2b2ccc30b7677c
author iuc
date Mon, 12 Feb 2024 21:46:17 +0000
parents 606b09cc9860
children
line wrap: on
line source

#!/usr/bin/env python

import re
import sys

search_str = r"^>(NODE|\S+)_(\d+)(?:_|\s)length_(\d+)_cov_(\d+\.*\d*)(.*\$)?"

replace_str = r"\1_\2\t\3\t\4"

cmd = re.compile(search_str)

sys.stdout.write("#name\tlength\tcoverage\n")

for i, line in enumerate(sys.stdin):
    if cmd.match(line):
        sys.stdout.write(cmd.sub(replace_str, line))