| Previous changeset 0:581d217c7337 (2016-07-22) Next changeset 2:d86ccac2a660 (2017-05-17) |
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Commit message:
RSEM process files corrected in pre_sartools.py |
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modified:
pre_sartools.py |
| b |
| diff -r 581d217c7337 -r fe0ee346b17d pre_sartools.py --- a/pre_sartools.py Fri Jul 22 05:39:13 2016 -0400 +++ b/pre_sartools.py Wed Apr 26 05:04:18 2017 -0400 |
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| @@ -40,7 +40,7 @@ reader = csv.DictReader(csvfile, delimiter='\t', skipinitialspace=True) if len(reader.fieldnames) > 2: for row in reader: - spamwriter.writerow((row['gene_id'], int(float(row['effective_length'])))) + spamwriter.writerow((row['gene_id'], int(float(row['expected_count'])))) zip_cmd += ' %s ' % (join(tmpdir, basename(filename))) else : zip_cmd += ' %s ' % (filename) @@ -57,7 +57,7 @@ reader = csv.DictReader(csvfile, delimiter='\t', skipinitialspace=True) if len(reader.fieldnames) > 2: for row in reader: - spamwriter.writerow((row['gene_id'], int(float(row['effective_length'])))) + spamwriter.writerow((row['gene_id'], int(float(row['expected_count'])))) zip_cmd += ' %s ' % (join(tmpdir, basename(filename))) else: zip_cmd += ' %s ' % (filename) |