Mercurial > repos > iuc > jbrowse

comparison jbrowse.py @ 14:18be2d72fdee draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse commit 0bfb0de98c918860c21808e8832caad9f0535975
author iuc
date Thu, 08 Jun 2017 17:31:38 -0400
parents 69c5e9c0add0
children b5c5470d7c09
comparison
equal deleted inserted replaced
13:69c5e9c0add0 14:18be2d72fdee
470 "urlTemplate": url, 470 "urlTemplate": url,
471 "type": "JBrowse/View/Track/Alignments2", 471 "type": "JBrowse/View/Track/Alignments2",
472 "storeClass": "JBrowse/Store/SeqFeature/BAM", 472 "storeClass": "JBrowse/Store/SeqFeature/BAM",
473 }) 473 })
474 474
475 # Apollo will only switch to the (prettier) 'bam-read' className if it's not set explicitly in the track config
476 # So remove the default 'feature' value for these bam tracks
477 if 'className' in trackData['style'] and trackData['style']['className'] == 'feature':
478 del trackData['style']['className']
479
475 self._add_track_json(trackData) 480 self._add_track_json(trackData)
476 481
477 if bamOpts.get('auto_snp', 'false') == 'true': 482 if bamOpts.get('auto_snp', 'false') == 'true':
478 trackData2 = copy.copy(trackData) 483 trackData2 = copy.copy(trackData)
479 trackData2.update({ 484 trackData2.update({