def _composeBoundingRegionLine(self, boundingRegionTuple):
region = copy(boundingRegionTuple.region)
if self._headerDict['1-indexed']:
region.start = region.start+1 if region.start is not None else None
region.end = region.end+1 if region.end is not None else None
if self._headerDict['end inclusive']:
region.end = region.end-1 if region.end is not None else None
brLinePartList = [(Gtrack.convertNameToGtrack(attr), getattr(region, attr)) for attr in ['genome', 'chr', 'start', 'end']]
return '####' + '; '.join(k + '=' + self._formatPhraseWithCorrectChrUsage(str(v), useUrlEncoding=True, notAllowedChars='=;#\t') \
for k,v in brLinePartList if v is not None) + os.linesep
def _composeBoundingRegionLine(self, boundingRegionTuple):
region = boundingRegionTuple.region.getCopy()
if self._headerDict['1-indexed']:
region.start = region.start + 1 if region.start is not None else None
region.end = region.end + 1 if region.end is not None else None
if self._headerDict['end inclusive']:
region.end = region.end - 1 if region.end is not None else None
brLinePartList = [(Gtrack.convertNameToGtrack(attr),
getattr(region, attr))
for attr in ['genome', 'chr', 'start', 'end']]
return '####' + '; '.join(k + '=' + self._formatPhraseWithCorrectChrUsage(str(v), useUrlEncoding=True, notAllowedChars='=;#\t') \
for k,v in brLinePartList if v is not None) + os.linesep
def _getGtrackColumnsFromHbColumns(self, hbColumns):
return [
Gtrack.convertNameToGtrack(col) for col in hbColumns
if col != 'weights'
]
def _getGtrackColumnsFromHbColumns(self, hbColumns):
return [Gtrack.convertNameToGtrack(col) for col in hbColumns if col != 'weights']