class RandomizedTrack(Track):
IS_MEMOIZABLE = False
def __new__(cls, *args, **kwArgs):
return object.__new__(cls)
def __init__(self, origTrack, origRegion, randIndex, **kwArgs ):
self._origTrack = origTrack
self.trackName = origTrack.trackName + ['Randomized', str(randIndex)]
self._origRegion = origRegion
self._trackFormatReq = NeutralTrackFormatReq()
self._cachedTV = None
def _checkTrackFormat(self, origTV):
pass
def getTrackView(self, region):
#print 'get tv for reg: ',region
#print str(type(self._origRegion)) + " and " + str(type(region))
if Config.USE_SLOW_DEFENSIVE_ASSERTS:
assert (not isIter(self._origRegion) and self._origRegion == region) or \
(isIter(self._origRegion) and region in self._origRegion)
#if self._cachedTV is None:
self._origTrack.addFormatReq(self._trackFormatReq)
origTV = self._origTrack.getTrackView(region)
self._checkTrackFormat(origTV)
assert(not origTV.allowOverlaps)
assert(origTV.borderHandling == 'crop')
assert region == origTV.genomeAnchor
starts, ends, vals, strands, ids, edges, weights, extras = \
self._createRandomizedNumpyArrays(len(origTV.genomeAnchor), origTV.startsAsNumpyArray(), \
origTV.endsAsNumpyArray(), origTV.valsAsNumpyArray(), \
origTV.strandsAsNumpyArray(), origTV.idsAsNumpyArray(), \
origTV.edgesAsNumpyArray(), origTV.weightsAsNumpyArray(), \
origTV.allExtrasAsDictOfNumpyArrays(), origTV.trackFormat, region)
from gtrackcore.util.CommonFunctions import getClassName
self._cachedTV = TrackView(origTV.genomeAnchor, \
(starts + origTV.genomeAnchor.start if starts is not None else None), \
(ends + origTV.genomeAnchor.start if ends is not None else None), \
vals, strands, ids, edges, weights, origTV.borderHandling, origTV.allowOverlaps, extraLists=extras)
assert self._trackFormatReq.isCompatibleWith(self._cachedTV.trackFormat), 'Incompatible track-format: '\
+ str(self._trackFormatReq) + ' VS ' + str(self._cachedTV.trackFormat)
return self._cachedTV
def _createRandomizedNumpyArrays(self, binLen, starts, ends, vals, strands, ids, edges, weights, extras, origTrackFormat, region):
raise AbstractClassError
