def onOpenImageDir(self):
self.cbar.clearContours()
self.viewer.clearRects()
self.viewer.clearPolygons()
idir = self.imageDir.text()
ofile = self.dataFile.text()
if isdir(idir):
path = dirname(idir)
elif isfile(ofile):
path = dirname(ofile)
else:
path = expanduser("~")
# TODO use getOpenFileNames instead
idir = QFileDialog.getExistingDirectory(self,
"Select an image directory",
path)
# cancel button
if not idir:
return
self.imageDir.setText(idir)
scanner = FileScanner(self.structType.currentText(), idir)
self._files = scanner()
if not self._files:
QMessageBox.warning(self, "Error", "No files found")
return
self.dirinfo.setText("%d images found" % len(self._files))
proc = LsmProcessor(self._files.keys()[0],
self.segdlg.segmentationParams(),
self.cbar.checkedChannels(),
treatment=self._files.values()[0])
self.metadata = proc.metadata
self.metadata.n_images = len(self._files)
images = list(proc.iterQImages())
props = list(proc.iterprops())
self.cbar.addChannels(len(images))
self.cbar.setImages(images, list(proc.iterprops()))
state = self.segdlg.blockSignals(True)
self.segdlg.setRegions(self.cbar.allChannels(), props)
self.segdlg.setMaxZSlice(self.metadata.n_zslices - 1)
self.segdlg.blockSignals(state)
self.slider.setRange(0, self.metadata.n_images - 1)
self.slider.setValue(0)
self.showObjects()
def __init__(self, *args, **kw):
super(ImportDialog, self).__init__(*args, **kw)
loadUI(splitext(__file__)[0] + '.ui', self)
for name, scn in FileScanner.iterclasses():
self.structType.addItem(scn.icon(), name)
self.structType.setIconSize(QtCore.QSize(48, 24))
self.metadata = None
self._files = None
self.progressBar.hide()
self.segdlg = SegmentationDialog(self)
self.segdlg.hide()
self.thread = AtThread(self)
self.viewer.setSizePolicy(QtWidgets.QSizePolicy.MinimumExpanding,
QtWidgets.QSizePolicy.MinimumExpanding)
self.cbar = ChannelBar(self, self.viewer)
self.cbox.addWidget(self.cbar)
self.cbar.newPixmap.connect(self.viewer.showPixmap,
Qt.DirectConnection)
self.cbar.newContourImage.connect(self.viewer.contourImage)
self.dataFileBtn.clicked.connect(self.onOpenOutFile)
self.imageDirBtn.clicked.connect(self.onOpenImageDir)
self.startBtn.clicked.connect(self.raw2hdf)
self.closeBtn.clicked.connect(self.close)
self.closeBtn.clicked.connect(self.cbar.clear)
self.segmentationBtn.clicked.connect(self.onSegmentationBtn)
self.slider.newValue.connect(self.showObjects)
self.slider.valueChanged.connect(self.showImage)
self.slider.sliderReleased.connect(self.showObjects)
self.slider.sliderPressed.connect(self.cbar.clearContours)
self.contoursCb.stateChanged.connect(self.onContours)
self.showBBoxes.stateChanged.connect(self.onBBoxes)
self.showBBoxes.stateChanged.connect(self.showObjects)
self.segdlg.paramsChanged.connect(self.showObjects)
self.segdlg.refreshBtn.clicked.connect(self.showObjects)
self.segdlg.imageUpdate.connect(self.showImage)
self.segdlg.activateChannels.connect(self.cbar.activateChannels)
self.segdlg.changeColor.connect(self.cbar.setColor)
self.nextBtn.clicked.connect(self.onNextBtn)
self.prevBtn.clicked.connect(self.onPrevBtn)
def __init__(self, *args, **kw):
super(ImportDialog, self).__init__(*args, **kw)
loadUI(splitext(__file__)[0]+'.ui', self)
for name, scn in FileScanner.iterclasses():
self.structType.addItem(scn.icon(), name)
self.structType.setIconSize(QtCore.QSize(48, 24))
self.metadata = None
self._files = None
self.progressBar.hide()
self.segdlg = SegmentationDialog(self)
self.segdlg.hide()
self.thread = AtThread(self)
self.viewer.setSizePolicy(QtWidgets.QSizePolicy.MinimumExpanding,
QtWidgets.QSizePolicy.MinimumExpanding)
self.cbar = ChannelBar(self, self.viewer)
self.cbox.addWidget(self.cbar)
self.cbar.newPixmap.connect(self.viewer.showPixmap,
Qt.DirectConnection)
self.cbar.newContourImage.connect(self.viewer.contourImage)
self.dataFileBtn.clicked.connect(self.onOpenOutFile)
self.imageDirBtn.clicked.connect(self.onOpenImageDir)
self.startBtn.clicked.connect(self.raw2hdf)
self.closeBtn.clicked.connect(self.close)
self.closeBtn.clicked.connect(self.cbar.clear)
self.segmentationBtn.clicked.connect(self.onSegmentationBtn)
self.slider.newValue.connect(self.showObjects)
self.slider.valueChanged.connect(self.showImage)
self.slider.sliderReleased.connect(self.showObjects)
self.slider.sliderPressed.connect(self.cbar.clearContours)
self.contoursCb.stateChanged.connect(self.onContours)
self.showBBoxes.stateChanged.connect(self.onBBoxes)
self.showBBoxes.stateChanged.connect(self.showObjects)
self.segdlg.paramsChanged.connect(self.showObjects)
self.segdlg.refreshBtn.clicked.connect(self.showObjects)
self.segdlg.imageUpdate.connect(self.showImage)
self.segdlg.activateChannels.connect(self.cbar.activateChannels)
self.segdlg.changeColor.connect(self.cbar.setColor)
self.nextBtn.clicked.connect(self.onNextBtn)
self.prevBtn.clicked.connect(self.onPrevBtn)
def __init__(self, *args, **kw):
super(ImportDialog, self).__init__(*args, **kw)
loadUI(splitext(__file__)[0] + ".ui", self)
self.zsliceMethod.addItems(ZProject.names())
self.zsliceMethod.currentIndexChanged.connect(self.onZSliceMethodChanged)
self.pool = None
self._pool_running = False
for name, scn in FileScanner.iterclasses():
self.structType.addItem(scn.icon(), name)
self.structType.setIconSize(QtCore.QSize(48, 24))
self._files = None
self._regex = None
self.progressBar.hide()
self.segdlg = SegmentationDialog(self)
self.segdlg.hide()
self.zslice.valueChanged.connect(self.segdlg.setZSlice)
self.segdlg.zslice.valueChanged.connect(self.zslice.setValue)
self.zsliceMethod.currentIndexChanged.connect(self.segdlg.zsliceMethod.setCurrentIndex)
self.segdlg.zsliceMethod.currentIndexChanged.connect(self.zsliceMethod.setCurrentIndex)
self.viewer.setSizePolicy(QtWidgets.QSizePolicy.MinimumExpanding, QtWidgets.QSizePolicy.MinimumExpanding)
self.cbar = ChannelBar(self, self.viewer)
self.cbox.addWidget(self.cbar)
self.cbar.newPixmap.connect(self.viewer.showPixmap, Qt.DirectConnection)
self.cbar.newContourImage.connect(self.viewer.contourImage)
self.cbar.colorsChanged.connect(self.segdlg.updateRowColors)
self.dataFileBtn.clicked.connect(self.onOpenOutFile)
self.imageDirBtn.clicked.connect(self.onOpenImageDir)
self.startBtn.clicked.connect(self.raw2hdf)
self.closeBtn.clicked.connect(self.close)
self.closeBtn.clicked.connect(self.cbar.clear)
self.segmentationBtn.clicked.connect(self.onSegmentationBtn)
self.slider.newValue.connect(self.showObjects)
self.slider.valueChanged.connect(self.showImage)
self.slider.sliderReleased.connect(self.showObjects)
self.slider.sliderPressed.connect(self.cbar.clearContours)
self.contoursCb.stateChanged.connect(self.onContours)
self.showBBoxes.stateChanged.connect(self.onBBoxes)
self.showBBoxes.stateChanged.connect(self.showObjects)
self.segdlg.paramsChanged.connect(self.showObjects)
self.segdlg.refreshBtn.clicked.connect(self.showObjects)
self.segdlg.imageUpdate.connect(self.showImage)
self.segdlg.activateChannels.connect(self.cbar.activateChannels)
self.segdlg.changeColor.connect(self.cbar.setColor)
self.nextBtn.clicked.connect(self.onNextBtn)
self.prevBtn.clicked.connect(self.onPrevBtn)
self.reloadBtn.clicked.connect(self.onReloadBtn)
self.setProgressRange.connect(self.progressBar.setRange)
self.setProgress.connect(self.progressBar.setValue, Qt.DirectConnection)
