Mercurial > repos > devteam > microsats_alignment_level
comparison microsats_alignment_level.py @ 3:df7548445f4e draft
planemo upload commit 00a7926c285bc4a339bd7deebf40b28f39c7d947
| author | devteam |
|---|---|
| date | Tue, 21 Jul 2015 15:35:46 -0400 |
| parents | ad471b193191 |
| children |
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| 2:ad471b193191 | 3:df7548445f4e |
|---|---|
| 40 for block in input.split('\n\n'): | 40 for block in input.split('\n\n'): |
| 41 block_num += 1 | 41 block_num += 1 |
| 42 tmpin = tempfile.NamedTemporaryFile() | 42 tmpin = tempfile.NamedTemporaryFile() |
| 43 tmpout = tempfile.NamedTemporaryFile() | 43 tmpout = tempfile.NamedTemporaryFile() |
| 44 tmpin.write(block.strip()) | 44 tmpin.write(block.strip()) |
| 45 tmpin.flush() | |
| 46 cmdline = sputnik_cmd + " " + tmpin.name + " > /dev/null 2>&1 >> " + tmpout.name | 45 cmdline = sputnik_cmd + " " + tmpin.name + " > /dev/null 2>&1 >> " + tmpout.name |
| 47 try: | 46 try: |
| 48 os.system(cmdline) | 47 os.system(cmdline) |
| 49 except Exception: | 48 except Exception: |
| 50 continue | 49 continue |