Mercurial > repos > yating-l > jbrowse_hub
diff TrackHub.py @ 12:e1f188b43750 draft
planemo upload for repository https://github.com/Yating-L/jbrowse_hub commit f18ea51d27ec7addfa6413716391cfefebc8acbc-dirty
| author | yating-l |
|---|---|
| date | Tue, 14 Mar 2017 14:31:36 -0400 |
| parents | e7c80e9b70ae |
| children | 8627394693c6 |
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--- a/TrackHub.py Tue Mar 14 14:00:30 2017 -0400 +++ b/TrackHub.py Tue Mar 14 14:31:36 2017 -0400 @@ -80,9 +80,9 @@ label = track['fileName'] if track['dataType'] == 'bedSpliceJunctions' or track['dataType'] == 'gtf': p = subprocess.Popen(['flatfile-to-json.pl', '--gff', gff3_file, '--trackType', 'CanvasFeatures', '--trackLabel', label, '--config', '{"glyph": "JBrowse/View/FeatureGlyph/Segments"}', '--out', self.json]) - elif track['dataType'] == 'gff3-transcript': + elif track['dataType'] == 'gff3_transcript': p = subprocess.Popen(['flatfile-to-json.pl', '--gff', gff3_file, '--trackType', 'MyPlugin/GenePred', '--trackLabel', label, '--config', '{"transcriptType": "transcript"}', '--out', self.json]) - elif track['dataType'] == 'gff3': + elif track['dataType'] == 'gff3_mrna': p = subprocess.Popen(['flatfile-to-json.pl', '--gff', gff3_file, '--trackType', 'MyPlugin/GenePred', '--trackLabel', label, '--out', self.json]) else: p = subprocess.Popen(['flatfile-to-json.pl', '--gff', gff3_file, '--trackType', 'CanvasFeatures', '--trackLabel', label, '--out', self.json])