def __init__(self, assembly, exp, f, parent, active, tissue):
BigWigTrack.__init__(self, assembly, exp, f, parent, active)
self.p["color"] = ColorByTissue(tissue)
self.p["track"] = "all_" + self.p["track"]
self.p["height"] = "maxHeightPixels 32:12:8"
self.p["shortLabel"] = Helpers.makeShortLabel(tissue)
self.presentation["tissue"] = (tissue, tissue)
def _init(self):
p = OrderedDict()
p["track"] = self.parent.initials() + Helpers.sanitize(self.exp.encodeID + '_' + self.ccREaccession)
p["parent"] = self.parent.param(self.parent.on)
p["subGroups"] = Helpers.unrollEquals(self._subgroups())
p["bigDataUrl"] = self._url()
p["visibility"] = Helpers.viz("dense", self.active)
p["type"] = "bigBed 9"
if 0:
shortLabel = Helpers.makeShortLabel(self.stateType)
if "5group" == self.stateType:
shortLabel = Helpers.makeShortLabel("ccRE 5 groups")
p["shortLabel"] = shortLabel
p["longLabel"] = Helpers.makeLongLabel(self._desc())
else:
p["shortLabel"], p["longLabel"] = self._labels()
p["itemRgb"] = "On"
p["darkerLabels"] = "on"
p["metadata"] = Helpers.unrollEquals(self._metadata())
p["view"] = self.exp.encodeID
return p
def _init(self):
p = OrderedDict()
p["track"] = self.parent.initials() + Helpers.sanitize(self.f.expID + '_' + self.f.fileID)
p["parent"] = self.parent.param(self.parent.on)
p["subGroups"] = Helpers.unrollEquals(self._subgroups())
p["bigDataUrl"] = self._url()
p["visibility"] = Helpers.viz("dense", self.active)
p["type"] = "bigBed"
p["shortLabel"] = Helpers.makeShortLabel(self.exp.assay_term_name, self.exp.tf)
p["longLabel"] = Helpers.makeLongLabel(self._desc())
p["itemRgb"] = "On"
p["color"] = Helpers.colorize(self.exp)
p["darkerLabels"] = "on"
p["metadata"] = Helpers.unrollEquals(self._metadata())
p["view"] = self.exp.encodeID
return p
def _init(self):
p = OrderedDict()
p["track"] = self.parent.initials() + Helpers.sanitize(self.f.expID + '_' + self.f.fileID)
p["parent"] = self.parent.param(self.active)
p["subGroups"] = Helpers.unrollEquals(self._subgroups())
p["bigDataUrl"] = self._url()
p["visibility"] = Helpers.viz("full", self.active)
p["type"] = "bigWig"
p["color"] = Helpers.colorize(self.exp)
p["height"] = "maxHeightPixels 64:12:8"
p["shortLabel"] = Helpers.makeShortLabel(self.exp.assay_term_name, self.exp.biosample_term_name)
p["longLabel"] = Helpers.makeLongLabel(self.exp.assay_term_name + ' ' + self._desc())
p["itemRgb"] = "On"
p["darkerLabels"] = "on"
p["metadata"] = Helpers.unrollEquals(self._metadata())
p["view"] = self.view
return p
def _labels(self):
assay = self.stateType.replace("9state-", '')
if '_general' == self.exp.ct:
if "5group" == self.stateType:
shortLabel = ["general 5g ccREs"]
longLabel = ["general 5-group ccREs"]
else:
shortLabel = ["9s general", assay]
longLabel = ["general ccREs", "with high",
assay, '(9 state)']
else:
if "5group" == self.stateType:
shortLabel = ["5g", self.exp.ct]
longLabel = ["ccREs in", self.exp.ct, '(5 group)']
else:
shortLabel = ["9s", assay, self.exp.ct]
longLabel = ["ccREs in", self.exp.ct, "with high",
assay, '(9 state)']
return Helpers.makeShortLabel(*shortLabel), Helpers.makeLongLabel(*longLabel)