def create(self, parent):
self.editor = MPLFigureEditor(parent)
self.control = self.editor.control
def create(self, parent):
self.editor = MPLFigureEditor(parent)
self.control = self.editor.control
class FlowTaskPane(TaskPane):
"""
The center pane for the UI; contains the matplotlib canvas for plotting
data views. eventually, this will allow multiple views; for now, it's
just one matplotlib canvas.
"""
id = 'edu.mit.synbio.cytoflow.flow_task_pane'
name = 'Cytometry Data Viewer'
editor = Instance(MPLFigureEditor)
def create(self, parent):
self.editor = MPLFigureEditor(parent)
self.control = self.editor.control
def destroy(self):
self.editor.destroy()
self.control = self.editor = None
def clear_plot(self):
self.editor.clear = True
self.editor.draw = True
def plot(self, wi):
"""
Plot the an experiment in the center pane.
Arguments
---------
wi : WorkflowItem
The WorkflowItem (data + current view) to plot
"""
# # TODO - make this multithreaded. atm this returns "Cannot set parent,
# # new parent is in a different thread."
# def do_plot(view, experiment):
# view.plot(experiment)
#
# t = threading.Thread(target = do_plot,
# args = (view, experiment))
# t.start()
# t.join()
#
# self.editor.clear = True
# self.editor.figure = plt.gcf()
# self.editor.draw = True
# TODO - view.plot is going to create a new figure. get the new
# figure with plt.gcf() and keep track of the mapping between figure
# and view; then, set the editor to the new figure.
# TODO - make the plotting responsive to the view params. ie,
# after a new view is created, watch it so that if its params change
# we can make a new plot (figure); but if the params stay the same
# and the plot is re-selected, we can just reuse the existing figure.
if not wi.current_view:
self.clear_plot()
return
wi.current_view.error = ""
wi.current_view.warning = ""
with warnings.catch_warnings(record=True) as w:
try:
if wi.current_view == wi.default_view:
# plotting the default view
wi.current_view.plot(wi.previous.result)
else:
if not wi.result:
self.clear_plot()
return
wi.current_view.plot(wi.result)
if w:
wi.current_view.warning = w[-1].message.__str__()
except CytoflowViewError as e:
wi.current_view.error = e.__str__()
self.editor.figure = plt.gcf()
if "interactive" in wi.current_view.traits():
# we have to re-bind the Cursor to the new Axes object by twiddling
# the "interactive" trait
wi.current_view.interactive = False
wi.current_view.interactive = True
def export(self, filename):
# TODO - eventually give a preview, allow changing size, dpi, aspect
# ratio, plot layout, etc. at the moment, just export exactly what's
# on the screen
plt.savefig(filename, bbox_inches='tight')
class FlowTaskPane(TaskPane):
"""
The center pane for the UI; contains the matplotlib canvas for plotting
data views. eventually, this will allow multiple views; for now, it's
just one matplotlib canvas.
"""
id = "edu.mit.synbio.cytoflow.flow_task_pane"
name = "Cytometry Data Viewer"
editor = Instance(MPLFigureEditor)
def create(self, parent):
self.editor = MPLFigureEditor(parent)
self.control = self.editor.control
def destroy(self):
self.editor.destroy()
self.control = self.editor = None
def clear_plot(self):
self.editor.clear = True
self.editor.draw = True
def plot(self, wi):
"""
Plot the an experiment in the center pane.
Arguments
---------
wi : WorkflowItem
The WorkflowItem (data + current view) to plot
"""
# # TODO - make this multithreaded. atm this returns "Cannot set parent,
# # new parent is in a different thread."
# def do_plot(view, experiment):
# view.plot(experiment)
#
# t = threading.Thread(target = do_plot,
# args = (view, experiment))
# t.start()
# t.join()
#
# self.editor.clear = True
# self.editor.figure = plt.gcf()
# self.editor.draw = True
# TODO - view.plot is going to create a new figure. get the new
# figure with plt.gcf() and keep track of the mapping between figure
# and view; then, set the editor to the new figure.
# TODO - make the plotting responsive to the view params. ie,
# after a new view is created, watch it so that if its params change
# we can make a new plot (figure); but if the params stay the same
# and the plot is re-selected, we can just reuse the existing figure.
if not wi.current_view:
self.clear_plot()
return
wi.current_view.error = ""
wi.current_view.warning = ""
with warnings.catch_warnings(record=True) as w:
try:
if wi.current_view == wi.default_view:
# plotting the default view
wi.current_view.plot(wi.previous.result)
else:
if not wi.result:
self.clear_plot()
return
wi.current_view.plot(wi.result)
if w:
wi.current_view.warning = w[-1].message.__str__()
except CytoflowViewError as e:
wi.current_view.error = e.__str__()
self.editor.figure = plt.gcf()
if "interactive" in wi.current_view.traits():
# we have to re-bind the Cursor to the new Axes object by twiddling
# the "interactive" trait
wi.current_view.interactive = False
wi.current_view.interactive = True
def export(self, filename):
# TODO - eventually give a preview, allow changing size, dpi, aspect
# ratio, plot layout, etc. at the moment, just export exactly what's
# on the screen
plt.savefig(filename, bbox_inches="tight")
