Mercurial > repos > nml > spades
comparison write_tsv_script.py @ 16:d2d1df21dfb9 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/spades commit 2609367ebbce7e0c3f5b4b2d7c60a82d4bd03246"
| author | iuc |
|---|---|
| date | Tue, 25 Jan 2022 07:55:17 +0000 |
| parents | |
| children | 78ced22d09a2 |
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| 15:a39c4cb6ab7f | 16:d2d1df21dfb9 |
|---|---|
| 1 #!/usr/bin/env python | |
| 2 | |
| 3 import re | |
| 4 import sys | |
| 5 | |
| 6 search_str = r"^>(NODE|\S+)_(\d+)(?:_|\s)length_(\d+)_cov_(\d+\.*\d*).*\$" | |
| 7 | |
| 8 replace_str = r"\1_\2\t\3\t\4" | |
| 9 | |
| 10 cmd = re.compile(search_str) | |
| 11 | |
| 12 sys.stdout.write("#name\tlength\tcoverage\n") | |
| 13 | |
| 14 for i, line in enumerate(sys.stdin): | |
| 15 if cmd.match(line): | |
| 16 sys.stdout.write(cmd.sub(replace_str, line)) |