def __init__(self, manager, name, config):
Module.__init__(self, manager, name, config)
#self.dm = self.manager.dataManager
self.dm = getDataManager()
self.win = Window()
mp = os.path.dirname(__file__)
self.win.setWindowIcon(QtGui.QIcon(os.path.join(mp, 'icon.png')))
self.win.dm = self ## so embedded widgets can find the module easily
self.ui = Ui_MainWindow()
self.ui.setupUi(self.win)
self.ui.analysisWidget = FileAnalysisView.FileAnalysisView(
self.ui.analysisTab, self)
self.ui.analysisTab.layout().addWidget(self.ui.analysisWidget)
self.ui.logWidget = FileLogView.FileLogView(self.ui.logTab, self)
self.ui.logTab.layout().addWidget(self.ui.logWidget)
self.win.show()
w = self.ui.splitter.width()
self.ui.splitter.setSizes([int(w * 0.4), int(w * 0.6)])
self.ui.logDock.hide()
self.dialog = FileDialog()
self.dialog.setFileMode(QtGui.QFileDialog.DirectoryOnly)
self.ui.fileTreeWidget.setSelectionMode(
QtGui.QAbstractItemView.ExtendedSelection)
## Load values into GUI
#self.model = DMModel(self.manager.getBaseDir())
#self.ui.fileTreeView.setModel(self.model)
self.baseDirChanged()
self.currentDirChanged()
self.selFile = None
self.updateNewFolderList()
## Make all connections needed
self.ui.selectDirBtn.clicked.connect(self.showFileDialog)
self.ui.setCurrentDirBtn.clicked.connect(self.setCurrentClicked)
self.dialog.filesSelected.connect(self.setBaseDir)
self.manager.sigBaseDirChanged.connect(self.baseDirChanged)
self.manager.sigCurrentDirChanged.connect(self.currentDirChanged)
self.manager.sigConfigChanged.connect(self.updateNewFolderList)
self.manager.sigLogDirChanged.connect(self.updateLogDir)
self.ui.setLogDirBtn.clicked.connect(self.setLogDir)
self.ui.newFolderList.currentIndexChanged.connect(self.newFolder)
self.ui.fileTreeWidget.itemSelectionChanged.connect(
self.fileSelectionChanged)
#self.ui.logEntryText.returnPressed.connect(self.logEntry)
self.ui.fileDisplayTabs.currentChanged.connect(self.tabChanged)
self.win.sigClosed.connect(self.quit)
self.ui.analysisWidget.sigDbChanged.connect(self.analysisDbChanged)
#self.logBtn = LogButton('Log')
self.win.setStatusBar(StatusBar())
def __init__(self, dataManager=None, dataModel=None, module=None):
Qt.QMainWindow.__init__(self)
self.dm = dataManager
self.dataModel = dataModel
self.mod = None
self.dockArea = dockarea.DockArea()
self.setCentralWidget(self.dockArea)
#self.logBtn = LogButton('Log')
#self.statusBar().addPermanentWidget(self.logBtn)
self.setStatusBar(StatusBar())
if module is not None:
self.loadModule(module)
self.show()
def __init__(self, dm, config):
clampName = config['clampDev']
QtGui.QMainWindow.__init__(self)
self.setWindowTitle(clampName)
self.startTime = None
self.redrawCommand = 1
self.analysisItems = {
'inputResistance': u'Ω',
'accessResistance': u'Ω',
'capacitance': 'F',
'restingPotential': 'V',
'restingCurrent': 'A',
'fitError': ''
}
self.params = {
'mode': 'vc',
'rate': config.get('sampleRate', 100000),
'downsample': config.get('downsample', 3),
'cycleTime': .2,
'recordTime': 0.1,
'delayTime': 0.03,
'pulseTime': 0.05,
'icPulse': -30e-12,
'vcPulse': -10e-3,
'icHolding': 0,
'vcHolding': -65e-3,
'icHoldingEnabled': False,
'icPulseEnabled': True,
'vcHoldingEnabled': False,
'vcPulseEnabled': True,
'drawFit': True,
'average': 1,
}
self.paramLock = Mutex(QtCore.QMutex.Recursive)
self.manager = dm
self.clampName = clampName
self.thread = PatchThread(self)
self.cw = QtGui.QWidget()
self.setCentralWidget(self.cw)
self.ui = Ui_Form()
self.ui.setupUi(self.cw)
#self.logBtn = LogButton("Log")
#self.statusBar().addPermanentWidget(self.logBtn)
self.setStatusBar(StatusBar())
self.stateFile = os.path.join('modules', self.clampName + '_ui.cfg')
uiState = Manager.getManager().readConfigFile(self.stateFile)
if 'geometry' in uiState:
geom = QtCore.QRect(*uiState['geometry'])
self.setGeometry(geom)
if 'window' in uiState:
ws = QtCore.QByteArray.fromPercentEncoding(uiState['window'])
self.restoreState(ws)
self.ui.splitter_2.setSizes([self.width() / 4, self.width() * 3. / 4.])
self.ui.splitter.setStretchFactor(0, 30)
self.ui.splitter.setStretchFactor(1, 10)
self.plots = {}
for k in self.analysisItems:
p = PlotWidget()
p.setLabel('left', text=k, units=self.analysisItems[k])
self.ui.plotLayout.addWidget(p)
self.plots[k] = p
irp = self.plots['inputResistance']
irp.setLogMode(y=True, x=False)
irp.setYRange(6, 11)
self.ui.icPulseSpin.setOpts(dec=True,
step=1,
minStep=1e-12,
bounds=[None, None],
siPrefix=True,
suffix='A')
self.ui.vcPulseSpin.setOpts(dec=True,
step=1,
minStep=1e-3,
bounds=[None, None],
siPrefix=True,
suffix='V')
self.ui.icHoldSpin.setOpts(dec=True,
step=1,
minStep=1e-12,
bounds=[None, None],
siPrefix=True,
suffix='A')
self.ui.vcHoldSpin.setOpts(dec=True,
step=1,
minStep=1e-3,
bounds=[None, None],
siPrefix=True,
suffix='V')
self.ui.cycleTimeSpin.setOpts(dec=True,
step=1,
minStep=1e-6,
bounds=[0, None],
siPrefix=True,
suffix='s')
self.ui.pulseTimeSpin.setOpts(dec=True,
step=1,
minStep=1e-6,
bounds=[0, 1.],
siPrefix=True,
suffix='s')
self.ui.delayTimeSpin.setOpts(dec=True,
step=1,
minStep=1e-6,
bounds=[0, 1.],
siPrefix=True,
suffix='s')
self.stateGroup = WidgetGroup([
(self.ui.icPulseSpin, 'icPulse'),
(self.ui.vcPulseSpin, 'vcPulse'),
(self.ui.icHoldSpin, 'icHolding'),
(self.ui.vcHoldSpin, 'vcHolding'),
(self.ui.icPulseCheck, 'icPulseEnabled'),
(self.ui.vcPulseCheck, 'vcPulseEnabled'),
(self.ui.icHoldCheck, 'icHoldingEnabled'),
(self.ui.vcHoldCheck, 'vcHoldingEnabled'),
(self.ui.cycleTimeSpin, 'cycleTime'),
(self.ui.pulseTimeSpin, 'pulseTime'),
(self.ui.delayTimeSpin, 'delayTime'),
(self.ui.drawFitCheck, 'drawFit'),
(self.ui.averageSpin, 'average'),
])
self.stateGroup.setState(self.params)
self.ui.patchPlot.setLabel('left', text='Primary', units='A')
self.patchCurve = self.ui.patchPlot.plot(
pen=QtGui.QPen(QtGui.QColor(200, 200, 200)))
self.patchFitCurve = self.ui.patchPlot.plot(
pen=QtGui.QPen(QtGui.QColor(0, 100, 200)))
self.ui.commandPlot.setLabel('left', text='Command', units='V')
self.commandCurve = self.ui.commandPlot.plot(
pen=QtGui.QPen(QtGui.QColor(200, 200, 200)))
self.ui.startBtn.clicked.connect(self.startClicked)
self.ui.recordBtn.clicked.connect(self.recordClicked)
self.ui.bathModeBtn.clicked.connect(self.bathMode)
self.ui.patchModeBtn.clicked.connect(self.patchMode)
self.ui.cellModeBtn.clicked.connect(self.cellMode)
self.ui.monitorModeBtn.clicked.connect(self.monitorMode)
self.ui.resetBtn.clicked.connect(self.resetClicked)
self.thread.finished.connect(self.threadStopped)
self.thread.sigNewFrame.connect(self.handleNewFrame)
self.ui.vcModeRadio.toggled.connect(self.updateParams)
self.stateGroup.sigChanged.connect(self.updateParams)
## Configure analysis plots, curves, and data arrays
self.analysisCurves = {}
self.analysisData = {'time': []}
for n in self.analysisItems:
w = getattr(self.ui, n + 'Check')
w.clicked.connect(self.showPlots)
p = self.plots[n]
self.analysisCurves[n] = p.plot(
pen=QtGui.QPen(QtGui.QColor(200, 200, 200)))
for suf in ['', 'Std']:
self.analysisData[n + suf] = []
self.showPlots()
self.updateParams()
self.show()
self.bathMode()
def __init__(self, module):
self.hasQuit = False
self.module = module # handle to the rest of the application
self.interfaces = OrderedDict() # owner: widget
self.docks = OrderedDict() # owner: dock
# Start building UI
Qt.QMainWindow.__init__(self)
self.setWindowTitle('Camera')
self.cw = dockarea.DockArea()
self.setCentralWidget(self.cw)
self.gv = pg.GraphicsView()
self.gvDock = dockarea.Dock(name="View", widget=self.gv, hideTitle=True, size=(600,600))
self.cw.addDock(self.gvDock)
# set up ViewBox
self.view = pg.ViewBox()
self.view.enableAutoRange(x=False, y=False)
self.view.setAspectLocked(True)
self.gv.setCentralItem(self.view)
# And a plot area for displaying depth-related information
self.depthPlot = pg.PlotWidget(labels={'left': ('Depth', 'm')})
self.depthPlot.setYRange(0, 1e-3)
self.depthPlot.setXRange(-1, 1)
self.depthPlot.hideAxis('bottom')
self.depthPlot.setMouseEnabled(x=False)
self.depthDock = pg.dockarea.Dock(name='Depth', widget=self.depthPlot)
self.cw.addDock(self.depthDock, 'right')
self.depthDock.hide()
# Add a group that will track to the center of the view
# self.trackedGroup = pg.GroupItem()
# self.view.addItem(self.trackedGroup)
# search for all devices that provide a cameraModuleInterface() method
man = Manager.getManager()
devices = [man.getDevice(dev) for dev in man.listDevices()]
ifaces = OrderedDict([(dev.name(), dev.cameraModuleInterface(self)) for dev in devices if hasattr(dev, 'cameraModuleInterface')])
# add each device's control panel in ots own dock
haveDevs = False
for dev, iface in ifaces.items():
if iface is not None:
haveDevs = True
self.addInterface(dev, iface)
# Add explanatory label if no devices were found
if not haveDevs:
label = Qt.QLabel("No imaging devices available")
label.setAlignment(Qt.Qt.AlignHCenter | Qt.Qt.AlignVCenter)
dock = dockarea.Dock(name="nocamera", widget=label, size=(100, 500), hideTitle=True)
self.cw.addDock(dock, 'left', self.gvDock)
# Add a dock with ROI buttons and plot
self.roiWidget = ROIPlotter(self)
self.roiDock = dockarea.Dock(name='ROI Plot', widget=self.roiWidget, size=(400, 10))
self.cw.addDock(self.roiDock, 'bottom', self.gvDock)
# Add timelapse / z stack / mosaic controls
self.sequencerWidget = ImageSequencer(self)
self.sequencerDock = dockarea.Dock(name='Image Sequencer', widget=self.sequencerWidget, size=(200, 10))
self.cw.addDock(self.sequencerDock, 'right', self.roiDock)
#grid = pg.GridItem()
#self.view.addItem(grid)
#Scale bar
self.scaleBar = pg.ScaleBar(100e-6, offset=(-20,-20))
self.scaleBar.setParentItem(self.view)
## Set up status bar labels
self.recLabel = Qt.QLabel()
self.rgnLabel = Qt.QLabel()
self.xyLabel = Qt.QLabel()
self.tLabel = Qt.QLabel()
self.vLabel = Qt.QLabel()
self.vLabel.setFixedWidth(50)
self.setStatusBar(StatusBar())
font = self.xyLabel.font()
font.setPointSize(8)
labels = [self.recLabel, self.xyLabel, self.rgnLabel, self.tLabel, self.vLabel]
for label in labels:
label.setFont(font)
self.statusBar().insertPermanentWidget(0, label)
# Load previous window state
self.stateFile = os.path.join('modules', self.module.name + '_ui.cfg')
uiState = module.manager.readConfigFile(self.stateFile)
if 'geometry' in uiState:
geom = Qt.QRect(*uiState['geometry'])
self.setGeometry(geom)
if 'window' in uiState:
ws = Qt.QByteArray.fromPercentEncoding(uiState['window'])
self.restoreState(ws)
if 'docks' in uiState:
self.cw.restoreState(uiState['docks'], missing='ignore')
# done with UI
self.show()
self.centerView()
self.gv.scene().sigMouseMoved.connect(self.updateMouse)
def __init__(self, manager, name, config):
Module.__init__(self, manager, name, config)
self.lastProtoTime = None
self.loopEnabled = False
self.devListItems = {}
self.docks = {}
self.firstDock = None # all new docks should stack here
self.analysisDocks = {}
self.deleteState = 0
self.ui = Ui_MainWindow()
self.win = Window(self)
g = self.win.geometry()
self.ui.setupUi(self.win)
self.win.setGeometry(g)
self.win.setStatusBar(StatusBar())
self.ui.protoDurationSpin.setOpts(dec=True,
bounds=[1e-3, None],
step=1,
minStep=1e-3,
suffix='s',
siPrefix=True)
self.ui.protoLeadTimeSpin.setOpts(dec=True,
bounds=[0, None],
step=1,
minStep=10e-3,
suffix='s',
siPrefix=True)
self.ui.protoCycleTimeSpin.setOpts(dec=True,
bounds=[0, None],
step=1,
minStep=1e-3,
suffix='s',
siPrefix=True)
self.ui.seqCycleTimeSpin.setOpts(dec=True,
bounds=[0, None],
step=1,
minStep=1e-3,
suffix='s',
siPrefix=True)
self.protoStateGroup = pg.WidgetGroup([
(self.ui.protoContinuousCheck, 'continuous'),
(self.ui.protoDurationSpin, 'duration'),
(self.ui.protoLeadTimeSpin, 'leadTime'),
(self.ui.protoLoopCheck, 'loop'),
(self.ui.protoCycleTimeSpin, 'loopCycleTime'),
(self.ui.seqCycleTimeSpin, 'cycleTime'),
(self.ui.seqRepetitionSpin, 'repetitions', 1),
])
try:
try:
taskDir = config['taskDir']
except KeyError:
taskDir = self.manager.config[
'protocolDir'] # for backward compatibility
self.taskList = Loader(self, taskDir)
except KeyError:
raise HelpfulException(
"Config is missing 'taskDir'; cannot load task list.")
self.ui.LoaderDock.setWidget(self.taskList)
self.currentTask = None ## pointer to current task object
for m in analysisModules.MODULES:
item = Qt.QListWidgetItem(m, self.ui.analysisList)
item.setFlags(Qt.Qt.ItemIsSelectable | Qt.Qt.ItemIsEnabled
| Qt.Qt.ItemIsUserCheckable)
item.setCheckState(Qt.Qt.Unchecked)
self.taskThread = TaskThread(self)
self.newTask()
self.ui.testSingleBtn.clicked.connect(self.testSingleClicked)
self.ui.runTaskBtn.clicked.connect(self.runSingleClicked)
self.ui.testSequenceBtn.clicked.connect(self.testSequence)
self.ui.runSequenceBtn.clicked.connect(self.runSequenceClicked)
self.ui.stopSingleBtn.clicked.connect(self.stopSingle)
self.ui.stopSequenceBtn.clicked.connect(self.stopSequence)
self.ui.pauseSequenceBtn.toggled.connect(self.pauseSequence)
self.ui.deviceList.itemClicked.connect(self.deviceItemClicked)
self.taskList.sigCurrentFileChanged.connect(
self.fileChanged
) ## called if loaded task file is renamed or moved
self.taskThread.finished.connect(self.taskThreadStopped)
self.taskThread.sigNewFrame.connect(self.handleFrame)
self.taskThread.sigPaused.connect(self.taskThreadPaused)
self.taskThread.sigTaskStarted.connect(self.taskStarted)
self.taskThread.sigExitFromError.connect(self.taskErrored)
self.protoStateGroup.sigChanged.connect(self.protoGroupChanged)
self.win.show()
self.ui.sequenceParamList.itemChanged.connect(self.updateSeqReport)
self.ui.analysisList.itemClicked.connect(self.analysisItemClicked)
