Mercurial > repos > greg > meme_fimo
comparison fimo_wrapper.py @ 1:a64feed0d508 draft
Uploaded
| author | greg |
|---|---|
| date | Thu, 14 Apr 2016 09:47:22 -0400 |
| parents | 09098f34f445 |
| children | 97fb2d36c482 |
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| 0:09098f34f445 | 1:a64feed0d508 |
|---|---|
| 128 if returncode != 0: | 128 if returncode != 0: |
| 129 stderr = get_stderr(tmp_stderr) | 129 stderr = get_stderr(tmp_stderr) |
| 130 stop_err(stderr) | 130 stop_err(stderr) |
| 131 # Sort by chromosome id, identifying and eliminating identical | 131 # Sort by chromosome id, identifying and eliminating identical |
| 132 # motif occurrences. | 132 # motif occurrences. |
| 133 cmd = 'sort -k1,1 -u -o %s %s' % (gff_file, gff_file) | 133 cmd = 'sort -k1,1 -o %s %s' % (gff_file, gff_file) |
| 134 proc = subprocess.Popen(args=cmd, stderr=tmp_stderr, shell=True) | 134 proc = subprocess.Popen(args=cmd, stderr=tmp_stderr, shell=True) |
| 135 returncode = proc.wait() | 135 returncode = proc.wait() |
| 136 if returncode != 0: | 136 if returncode != 0: |
| 137 stderr = get_stderr(tmp_stderr) | 137 stderr = get_stderr(tmp_stderr) |
| 138 stop_err(stderr) | 138 stop_err(stderr) |