Added GFF support for reporting (1ee004c1) · Commits · Chaos / Cutandrun

bin/igv_files_to_session.py

+4 −0

Original line number	Diff line number	Diff line
		@@ -94,6 +94,10 @@ def igv_files_to_session(XMLOut,ListFile,Genome,PathPrefix=''):
		XMLStr += '\t\t<Track altColor="0,0,178" autoScale="false" clazz="org.broad.igv.track.FeatureTrack" color="%s" ' % (colour)
		XMLStr += 'displayMode="COLLAPSED" featureVisibilityWindow="-1" fontSize="12" '
		XMLStr += 'id="%s" name="%s" renderer="BASIC_FEATURE" sortable="false" visible="true" windowFunction="count"/>\n' % (ifile,os.path.basename(ifile))
		elif extension in ['.gff']:
		XMLStr += '\t\t<Track altColor="0,0,178" autoScale="false" clazz="org.broad.igv.track.FeatureTrack" color="%s" ' % (colour)
		XMLStr += 'displayMode="COLLAPSED" featureVisibilityWindow="-1" fontSize="12" '
		XMLStr += 'id="%s" name="%s" renderer="BASIC_FEATURE" sortable="false" visible="true" windowFunction="count"/>\n' % (ifile,os.path.basename(ifile))
		elif extension in ['.bam']:
		pass
		else: