def __init__(self, parent=None, *args, **kwds):
self._img = None
self._imgReq = None
self._sizeHint = (640,480) ## no clue why this is needed, but it seems to be the default sizeHint for GraphicsView.
## without it, the widget will not compete for space against another GraphicsView.
QtGui.QWidget.__init__(self)
self._proc = mp.QtProcess(debug=False)
self.pg = self._proc._import('pyqtgraph')
self.pg.setConfigOptions(**self.pg.CONFIG_OPTIONS)
rpgRemote = self._proc._import('pyqtgraph.widgets.RemoteGraphicsView')
self._view = rpgRemote.Renderer(*args, **kwds)
self._view._setProxyOptions(deferGetattr=True)
self.setFocusPolicy(QtCore.Qt.StrongFocus)
self.setSizePolicy(QtGui.QSizePolicy.Expanding, QtGui.QSizePolicy.Expanding)
self.setMouseTracking(True)
self.shm = None
shmFileName = self._view.shmFileName()
if sys.platform.startswith('win'):
self.shmtag = shmFileName
else:
self.shmFile = open(shmFileName, 'r')
self._view.sceneRendered.connect(mp.proxy(self.remoteSceneChanged)) #, callSync='off'))
## Note: we need synchronous signals
## even though there is no return value--
## this informs the renderer that it is
## safe to begin rendering again.
for method in ['scene', 'setCentralItem']:
setattr(self, method, getattr(self._view, method))
def listDataItems(self):
"""
Create a picklable list of data items.
"""
data_items = super().listDataItems()
data_items = [mp.proxy(item) for item in data_items]
return data_items
def getWindows(cls):
windows = [mp.proxy(item) for item in cls._windows]
return windows
def getLayoutItems(self):
layout = self.ci
items = list(layout.items.keys())
items = [mp.proxy(item) for item in items]
return items
view.addItem(scatter2)
proc2 = mp.QtProcess(processRequests=False)
rpg2 = proc2._import('pyqtgraph')
plotwindow2 = rpg2.plot()
plot2 = plotwindow2.plot(pen=None, symbol='o')
plotwindow2.setRange(xRange=[-10, 10], yRange=[0, 25])
a = 0
def mouseCallback(event):
a += 1
proxy = mp.proxy(mouseCallback, callSync='off', autoProxy=True)
plot2.scene().sigMouseClicked.connect(proxy)
textitems = [rpg2.TextItem(text="test") for i in range(max_targets)]
for x in textitems:
plotwindow2.addItem(x)
#END OF GRAPHING
#Open a file to store data
#f = h5py.File(sys.argv[1]+datetime.now().strftime("%Y%m%d%H%M%S") + ".hdf5", 'w')
# try:
# samples = f['/'+datasetName+'/samples']
# labels = f['/'+datasetName+'/labels']
# timestamps = f['/'+datasetName+'/timestamps']
# except KeyError as e:
def __init__(self):
# set up simulation in remote process
self.dt = 25*us
self.proc = mp.QtProcess(debug=False)
ndemo = self.proc._import('neurodemo')
self.sim = ndemo.Sim(temp=6.3, dt=self.dt)
self.sim._setProxyOptions(deferGetattr=True)
self.neuron = ndemo.Section(name='soma')
self.sim.add(self.neuron)
self.hhna = self.neuron.add(ndemo.HHNa())
self.leak = self.neuron.add(ndemo.Leak())
self.hhk = self.neuron.add(ndemo.HHK())
self.dexh = self.neuron.add(ndemo.IH())
self.dexh.enabled = False
self.clamp = self.neuron.add(ndemo.PatchClamp(mode='ic'))
#cmd = np.zeros(int(1/self.dt))
#cmd[int(0.4/self.dt):int(0.8/self.dt)] = 200e-12
#self.clamp.set_command(cmd, dt=self.dt)
mechanisms = [self.clamp, self.hhna, self.leak, self.hhk, self.dexh]
# loop to run the simulation indefinitely
self.runner = ndemo.SimRunner(self.sim)
#self.runner.add_request('soma.Vm')
self.runner.add_request('t')
self.runner.new_result.connect(mp.proxy(self.new_result, autoProxy=False, callSync='off'))
# set up GUI
QtGui.QWidget.__init__(self)
self.fullscreen_widget = None
self.resize(1024, 768)
self.layout = QtGui.QGridLayout()
self.layout.setContentsMargins(0, 0, 0, 0)
self.setLayout(self.layout)
self.splitter = QtGui.QSplitter(QtCore.Qt.Horizontal)
self.layout.addWidget(self.splitter, 0, 0)
self.ptree = pt.ParameterTree(showHeader=False)
self.splitter.addWidget(self.ptree)
self.plot_splitter = QtGui.QSplitter(QtCore.Qt.Vertical)
self.splitter.addWidget(self.plot_splitter)
self.neuronview = NeuronView(self.neuron, mechanisms)
self.plot_splitter.addWidget(self.neuronview)
#self.vm_plot = ScrollingPlot(dt=self.dt, npts=int(1.0/self.dt),
#parent=self, labels={'left': ('Membrane Potential', 'V'),
#'bottom': ('Time', 's')})
#self.vm_plot.setYRange(-90*mV, 50*mV)
#self.vm_plot.setXRange(-1000*ms, 0*ms)
#self.vm_plot.addLine(y=self.neuron.ek)
#self.vm_plot.addLine(y=self.neuron.ena)
#self.plot_splitter.addWidget(self.vm_plot)
self.channel_plots = {}
self.channel_params = [
ChannelParameter(self.leak),
ChannelParameter(self.hhna),
ChannelParameter(self.hhk),
ChannelParameter(self.dexh),
]
for ch in self.channel_params:
ch.plots_changed.connect(self.plots_changed)
self.clamp_param = ClampParameter(self.clamp, self)
self.clamp_param.plots_changed.connect(self.plots_changed)
self.vm_plot = self.add_plot('soma.V', 'Membrane Potential', 'V')
self.splitter.setSizes([350, 650])
self.show()
self.params = pt.Parameter.create(name='params', type='group', children=[
dict(name='Preset', type='list', values=['', 'Passive Membrane', 'Action Potential']),
dict(name='Run', type='bool', value=True),
dict(name='Speed', type='float', value=0.3, limits=[0, 10], step=1, dec=True),
dict(name='Temp', type='float', value=self.sim.temp, suffix='C', step=1.0),
dict(name='Capacitance', type='float', value=self.neuron.cap, suffix='F', siPrefix=True, dec=True),
dict(name='Cell Schematic', type='bool', value=True, children=[
dict(name='Show Circuit', type='bool', value=False),
]),
self.clamp_param,
dict(name='Ion Channels', type='group', children=self.channel_params),
])
self.ptree.setParameters(self.params)
self.params.sigTreeStateChanged.connect(self.params_changed)
self.start()
self.clamp_param['Plot Current'] = True
self.plot_splitter.setSizes([300, 500, 200])
self.pause_shortcut = QtGui.QShortcut(QtGui.QKeySequence('Space'), self)
self.pause_shortcut.activated.connect(self.pause)
self.slow_shortcut = QtGui.QShortcut(QtGui.QKeySequence('-'), self)
self.slow_shortcut.activated.connect(self.slower)
self.fast_shortcut = QtGui.QShortcut(QtGui.QKeySequence('='), self)
self.fast_shortcut.activated.connect(self.faster)
self.fullscreen_shortcut = QtGui.QShortcut(QtGui.QKeySequence('F11'), self)
self.fullscreen_shortcut.activated.connect(self.fullscreen)
self.fullscreen_shortcut.setContext(QtCore.Qt.ApplicationShortcut)
