def plot_circos(self):
"""
Draws the final plot!
"""
if self.output_type == 0 or self.output_type == 2:
h= HighlightContainer()
h.load()
l=LinkContainer()
l.load()
p=PlotContainer()
p.load()
for ide in self.input_builder.assembler.ideograms:
p.get_by_index(ide.level-1).min_value= ide.get_min_value()
p.get_by_index(ide.level-1).max_value= ide.get_max_value()
self.input_builder.build_circos_inputs_and_run(plots= p, links= l, highlights= h)
d= Drawer(l, p, self.colorbar_title)
self.result_image= d.get_output_image()
def onCircosPlot(self, e):
"""
GUI: Runs CIRCOS and displays a modified version of the plot in PACFM.
"""
hc= HighlightContainer()
hc.load()
l=LinkContainer()
l.load()
p=PlotContainer()
p.load()
for ide in self.input_builder.assembler.ideograms:
p.get_by_index(ide.level-1).min_value= ide.get_min_value()
p.get_by_index(ide.level-1).max_value= ide.get_max_value()
self.circos_controller = CircosController(self.biodb_selector, p, l, hc)
if self.normalized:
self.circos_controller.view.plotType.rbNorm.SetValue(1)
else:
self.circos_controller.view.plotType.rbRaw.SetValue(1)
status_text= "Drawing the plot. Please wait..."
self.view.statusBar.SetStatusText("PACFM: %s"%status_text)
response= self.circos_controller.view.ShowModal()
if response == wx.ID_OK:
plots = self.circos_controller.view.plotType.plots
links= self.circos_controller.view.links.links
### filter links that are not found in the dataset
#print self.input_builder.assembler.ideograms[l.level-1].names
for name in links.names:
if name not in self.input_builder.assembler.ideograms[l.level-1].names:
links.remove(name)
highlights= self.circos_controller.view.highlights.highlights
self.input_builder.build_circos_inputs_and_run(plots= plots,
links= links, highlights= highlights)
d= Drawer(links, plots, self.colorbar_title)
result_image= d.get_output_image()
wx_image= PilImageToWxImage(result_image)
self.view.nb.ChangeSelection(1)
if not self.normalized:
self.pltRawData= CircosPanel(self.view.nb.pltRawData, wx_image)
# There should be a simpler pnl.Refresh() method!
self.view.nb.circosBook.ChangeSelection(0)
sizer= wx.BoxSizer()
sizer.Add(self.pltRawData, 1, wx.EXPAND)
#
self.view.nb.pltRawData.SetSizer(sizer)
self.view.nb.pltRawData.Layout()
else:
self.pltNormData= CircosPanel(self.view.nb.pltNormData, wx_image)
# There should be a simpler pnl.Refresh() method!
self.view.nb.circosBook.ChangeSelection(1)
sizer= wx.BoxSizer()
sizer.Add(self.pltNormData, 1, wx.EXPAND)
self.view.nb.pltNormData.SetSizer(sizer)
self.view.nb.pltNormData.Layout()
self.circos_controller.view.Destroy()
self.normalized= self.circos_controller.view.plotType.rbNorm.GetValue()
status_text= "The PACFM plot has been successfully drawn!"
self.view.statusBar.SetStatusText("PACFM: %s"%status_text)