def __init__(self, ivm, parent, acq_options): OptionsWidget.__init__(self, ivm, parent) self.acq_options = acq_options vbox = QtWidgets.QVBoxLayout() self.setLayout(vbox) self._optbox = OptionBox() self._optbox.add("<b>Model options</b>") self._optbox.add("Delay minimum (s)", NumericOption(minval=-100, maxval=100, default=0), key="delay-min") self._optbox.add("Delay maximum (s)", NumericOption(minval=-100, maxval=100, default=0), key="delay-max") self._optbox.add("Delay step (s)", NumericOption(minval=-5, maxval=5, default=1), key="delay-step") self._optbox.add("<b>Output options</b>") self._optbox.add("Output data name suffix", TextOption(), checked=True, key="output-suffix") vbox.addWidget(self._optbox) vbox.addWidget(RunWidget(self, save_option=True)) vbox.addStretch(1)
def interface(self, generic_options=None): if generic_options is None: generic_options = {} if self.options_widget is None: self.options_widget = QtGui.QWidget() vbox = QtGui.QVBoxLayout() self.options_widget.setLayout(vbox) cite = Citation(CITE_TITLE, CITE_AUTHOR, CITE_JOURNAL) vbox.addWidget(cite) self.optbox = OptionBox() self.optbox.add("Mask for registration data", DataOption(self.ivm, rois=True, data=False), key="inmask", checked=True) self.optbox.add("Mask for reference data", DataOption(self.ivm, rois=True, data=False), key="refmask", checked=True) self.optbox.add("Spline order", ChoiceOption([2, 3]), key="splineorder", checked=True) self.optbox.add("Use pre-defined configuration", ChoiceOption( ["T1_2_MNI152_2mm", "FA_2_FMRIB58_1mm"]), key="config", checked=True) vbox.addWidget(self.optbox) return self.options_widget
def init_ui(self): vbox = QtGui.QVBoxLayout() self.setLayout(vbox) title = TitleWidget(self) vbox.addWidget(title) self._options = OptionBox("Options") self._options.add("Signal data", DataOption(self.ivm), key="data") self._clear_btn = QtGui.QPushButton("Clear points") self._options.add("Method", ChoiceOption(["Pick points", "Use existing ROI"], ["points", "roi"]), self._clear_btn, key="method") self._options.add("ROI", DataOption(self.ivm, data=False, rois=True), key="roi") self._view_btn = QtGui.QPushButton("View") self._view_btn.setEnabled(False) self._save_btn = QtGui.QPushButton("Save") self._save_btn.setEnabled(False) self._options.add("AIF name", TextOption("aif"), self._view_btn, self._save_btn, key="output-name") self._options.option("method").sig_changed.connect(self._method_changed) self._options.option("data").sig_changed.connect(self._recalc_aif) self._options.option("roi").sig_changed.connect(self._recalc_aif) self._clear_btn.clicked.connect(self._clear_btn_clicked) self._save_btn.clicked.connect(self._save_btn_clicked) self._view_btn.clicked.connect(self._view_btn_clicked) vbox.addWidget(self._options) self._plot = Plot(qpo=None, parent=self, title="AIF", display_mode=False) self._plot.set_xlabel("Volume") self._plot.set_ylabel("Signal") vbox.addWidget(self._plot) vbox.addStretch(1)
def __init__(self, ivm, parent, acq_options): OptionsWidget.__init__(self, ivm, parent) self.acq_options = acq_options vbox = QtWidgets.QVBoxLayout() self.setLayout(vbox) cite = Citation(FAB_CITE_TITLE, FAB_CITE_AUTHOR, FAB_CITE_JOURNAL) vbox.addWidget(cite) self._optbox = OptionBox() self._optbox.add("<b>Model options</b>") self._optbox.add("Infer constant signal offset", BoolOption(default=True), key="infer-sig0") self._optbox.add("Infer delay", BoolOption(default=True), key="infer-delay") #self._optbox.add("<b>Model fitting options</b>") #self._optbox.add("Spatial regularization", BoolOption(default=True), key="spatial") self._optbox.add("<b>Output options</b>") self._optbox.add("Output data name suffix", TextOption(), checked=True, key="output-suffix") vbox.addWidget(self._optbox) vbox.addWidget(RunWidget(self, save_option=True)) vbox.addStretch(1)
def init_ui(self): layout = QtGui.QVBoxLayout() self.setLayout(layout) title = TitleWidget(self, help="simple_maths") layout.addWidget(title) info = QtGui.QLabel(MATHS_INFO) info.setWordWrap(True) layout.addWidget(info) self.optbox = OptionBox() self.optbox.add("Data space from", DataOption(self.ivm), key="grid") self.optbox.add("Command", TextOption(), key="cmd") self.optbox.add("Output name", OutputNameOption(src_data=self.optbox.option("grid")), key="output-name") self.optbox.add("Output is an ROI", BoolOption(), key="output-is-roi") layout.addWidget(self.optbox) hbox = QtGui.QHBoxLayout() self.go_btn = RunButton(self) hbox.addWidget(self.go_btn) hbox.addStretch(1) layout.addLayout(hbox) layout.addStretch(1)
def init_ui(self): layout = QtGui.QVBoxLayout() self.setLayout(layout) title = TitleWidget(self, help="reg") layout.addWidget(title) if not self.reg_methods: layout.addWidget(QtGui.QLabel("No registration methods found")) layout.addStretch(1) return self.options = OptionBox("General Options") self.options.add("Transform", TransformOption(self.ivm), key="transform") self.options.add("Apply to data", DataOption(self.ivm), key="data") self.options.add("Interpolation", ChoiceOption(["Nearest neighbour", "Linear", "Spline"], [0, 1, 3], default=1), key="interp-order") self.options.add("Output name", OutputNameOption(src_data=self.options.option("data"), suffix="_reg"), key="output-name") self.options.option("transform").sig_changed.connect(self._transform_changed) layout.addWidget(self.options) self.details = TransformDetails() layout.addWidget(self.details) layout.addWidget(RunButton(self)) layout.addStretch(1) self._transform_changed()
def __init__(self, fsldir, fsldevdir): super(FslDirDialog, self).__init__(quantiphyse.gui.dialogs.MAINWIN) self.setWindowTitle("Choose location of FSL installation") vbox = QtGui.QVBoxLayout() self.optbox = OptionBox() self.optbox.add("FSL installation", FileOption(dirs=True, initial=fsldir), key="fsldir") self.optbox.add("FSL development code", FileOption(dirs=True, initial=fsldevdir), checked=True, enabled=bool(fsldevdir), key="fsldevdir") self.optbox.option("fsldir").sig_changed.connect(self._fsldir_changed) self.optbox.option("fsldevdir").sig_changed.connect( self._fsldevdir_changed) vbox.addWidget(self.optbox) hbox = QtGui.QHBoxLayout() hbox.addStretch(1) self.button_box = QtGui.QDialogButtonBox( QtGui.QDialogButtonBox.Ok | QtGui.QDialogButtonBox.Cancel) self.button_box.accepted.connect(self.accept) self.button_box.rejected.connect(self.reject) hbox.addWidget(self.button_box) vbox.addLayout(hbox) self.setLayout(vbox)
def init_ui(self, run_box=True): self.vbox = QtGui.QVBoxLayout() self.setLayout(self.vbox) title = TitleWidget(self, help="fsl", subtitle="%s %s" % (self.description, __version__)) self.vbox.addWidget(title) cite = Citation(*CITATIONS.get(self.prog, CITATIONS["fsl"])) self.vbox.addWidget(cite) self.options = OptionBox("%s options" % self.prog.upper()) self.vbox.addWidget(self.options) if run_box: self.run_box = RunBox(self.get_process, self.get_options) self.vbox.addWidget(self.run_box) self.vbox.addStretch(1) fsldir = FslDirWidget() self.vbox.addWidget(fsldir) fsldir.sig_changed.connect(self._fsldir_changed) self._fsldir_changed(fsldir.fsldir)
def init_ui(self): vbox = QtGui.QVBoxLayout() self.setLayout(vbox) title = TitleWidget(self) vbox.addWidget(title) self.options = OptionBox("Options") self.options.add("Data", DataOption(self.ivm, multi=True), key="data") self.options.add("Within ROI", DataOption(self.ivm, data=False, rois=True, none_option=True), key="roi") self.options.add("All volumes", BoolOption(default=False), key="allvols") self.options.add("Number of bins", NumericOption(minval=5, maxval=250, default=50, intonly=True), key="bins") vbox.addWidget(self.options) self.plot = Plot(qpo=None, parent=self, title="Radial profile", display_mode=False) self.plot.set_xlabel("Distance (mm)") self.plot.set_ylabel("Mean data value") vbox.addWidget(self.plot) vbox.addStretch(1)
def init_ui(self): vbox = QtGui.QVBoxLayout() self.setLayout(vbox) title = TitleWidget(self) vbox.addWidget(title) self.options = OptionBox("Options") self.options.add("Data", DataOption(self.ivm, multi=True), key="data") self.options.add("Within ROI", DataOption(self.ivm, data=False, rois=True, none_option=True), key="roi") self.options.add("All volumes", BoolOption(default=False), key="allvols") self.options.add("Y-axis scale", ChoiceOption(["Count", "Probability"]), key="yscale") self.options.add("Number of bins", NumericOption(minval=5, maxval=500, default=100, intonly=True), key="bins") self.options.add("Min value", NumericOption(minval=0, maxval=100, default=0), key="min") self.options.add("Max value", NumericOption(minval=0, maxval=500, default=100), key="max") self.options.option("yscale").sig_changed.connect(self._yscale_changed) self.options.option("min").sig_changed.connect(self._min_changed) self.options.option("min").sig_changed.connect(self._max_changed) vbox.addWidget(self.options) self.plot = Plot(qpo=None, parent=self, title="Data histogram", display_mode=False) self.plot.set_xlabel("Data value") self.plot.set_ylabel("Count") vbox.addWidget(self.plot) vbox.addStretch(1)
def __init__(self, ivm, parent, model_type, abbrev, model_classes): OptionsWidget.__init__(self, ivm, parent) self._views = {} self.model = None self.view = None self._option_name = "%s-model" % abbrev for name, cls in model_classes.items(): self._views[name] = get_view_class(cls)(ivm) main_vbox = QtGui.QVBoxLayout() self.setLayout(main_vbox) self.options = OptionBox() self.options.add( "%s model" % model_type, ChoiceOption([v.model.display_name for v in self._views.values()], self._views.keys()), key=self._option_name) self.options.option(self._option_name).sig_changed.connect( self._model_changed) main_vbox.addWidget(self.options) self._create_guis(main_vbox) main_vbox.addStretch(1) self._model_changed()
def __init__(self, parent, ivm, existing_strucs): super(AddEmbeddingDialog, self).__init__(parent) self.ivm = ivm self.sel_text = None self.sel_data = None self.existing_names = [struc.name for struc in existing_strucs] self.setWindowTitle("Add embedding") vbox = QtGui.QVBoxLayout() self.setLayout(vbox) self._opts = OptionBox() pvmap = self._opts.add("PV map / mask", DataOption(ivm, data=True, rois=True), key="pvmap") pvmap.sig_changed.connect(self._pvmap_changed) self._opts.add("ROI region", ChoiceOption([]), key="region") name = self._opts.add("Name of embedded structure", TextOption(), key="name") name.textChanged.connect(self._name_changed) self._opts.add("Structure type", ChoiceOption(["Embedding", "Activation mask", "Additional PVE"], return_values=["embed", "act", "add"]), key="type") self._opts.add("Parent structure", ChoiceOption([s.display_name for s in existing_strucs], [s.name for s in existing_strucs]), key="parent") self._opts.add("Edge smoothing sigma (mm)", NumericOption(minval=0, maxval=10, default=1, decimals=2), checked=True, enabled=False, key="sigma") vbox.addWidget(self._opts) self._warning = QtWidgets.QLabel(parent=self) self._warning.setStyleSheet("color: red;") vbox.addWidget(self._warning) self.button_box = QtGui.QDialogButtonBox(QtGui.QDialogButtonBox.Ok | QtGui.QDialogButtonBox.Cancel) self.button_box.accepted.connect(self.accept) self.button_box.rejected.connect(self.reject) self.button_box.button(QtGui.QDialogButtonBox.Ok).setEnabled(False) vbox.addWidget(self.button_box) self._pvmap_changed()
def init_ui(self): self.setStatusTip("Click points on the 4D volume to see data curve") vbox = QtGui.QVBoxLayout() self.setLayout(vbox) title = TitleWidget(self, "Multi-Voxel Visualisation", help="curve_compare", batch_btn=False) vbox.addWidget(title) self.plot = Plot(clear_btn=True) self.plot.clear_btn.clicked.connect(self._clear) self.plot.options.sig_options_changed.connect(self._options_changed) vbox.addWidget(self.plot) self.options = OptionBox("Options") self.options.add("Data set", DataOption(self.ivm, include_3d=False), key="data") col_names = [text for text in self.colors] cols = [col for text, col in self.colors.items()] self.options.add("Plot colour", ChoiceOption(col_names, cols, default="red"), key="col") self.options.add("Show individual curves", BoolOption(default=True), key="indiv") self.options.add("Show mean curve", BoolOption(), key="mean") self.options.option("data").sig_changed.connect(self._data_changed) self.options.option("indiv").sig_changed.connect(self._indiv_changed) self.options.option("mean").sig_changed.connect(self._mean_changed) self.options.option("col").sig_changed.connect(self._col_changed) hbox = QtGui.QHBoxLayout() hbox.addWidget(self.options) hbox.addStretch() vbox.addLayout(hbox) vbox.addStretch(1) self._options_changed()
def init_ui(self): layout = QtGui.QVBoxLayout() title = TitleWidget(self, help="roibuilder", batch_btn=False) layout.addWidget(title) self.options = OptionBox("Options") btn = QtGui.QPushButton("New") btn.clicked.connect(self._new_roi) self.options.add("ROI", DataOption(self.ivm, rois=True, data=False), btn, key="roi") self.options.add("Current label", NumericOption(minval=1, slider=False, intonly=True), key="label") self.options.add("Label description", TextOption(), key="label_text") self.options.option("roi").sig_changed.connect(self._roi_changed) self.options.option("label").sig_changed.connect(self._label_changed) self.options.option("label_text").sig_changed.connect(self._label_text_changed) layout.addWidget(self.options) # Add toolbox buttons in a grid hbox = QtGui.QHBoxLayout() self._toolbox = QtGui.QGroupBox() self._toolbox.setTitle("Toolbox") self.tools_grid = QtGui.QGridLayout() self._toolbox.setLayout(self.tools_grid) x, y, cols = 0, 0, 4 for tool in TOOLS: self._add_tool(tool, y, x) x += 1 if x == cols: y += 1 x = 0 self._undo_btn = QtGui.QPushButton() self._undo_btn.clicked.connect(self.undo) self._undo_btn.setEnabled(False) undo_icon = QtGui.QIcon(get_icon("undo")) self._undo_btn.setIcon(undo_icon) self._undo_btn.setToolTip("Undo last action") self._undo_btn.setFixedSize(32, 32) self.tools_grid.addWidget(self._undo_btn, y, x) hbox.addWidget(self._toolbox) self._toolbox.setEnabled(False) hbox.addStretch(1) layout.addLayout(hbox) # Tool options box - initially invisible hbox = QtGui.QHBoxLayout() self._tool_options = QtGui.QGroupBox() self._tool_options.setVisible(False) hbox.addWidget(self._tool_options) hbox.addStretch(1) layout.addLayout(hbox) layout.addStretch(1) self.setLayout(layout)
def _init_ui(self): self.optbox.add("Motion correction", BoolOption(default=True), key="mc") #opt = self.optbox.add("Deblurring", BoolOption(), key="deblur") #opt.sig_changed.connect(self._deblur_changed) opt = self.optbox.add("ENABLE volume selection", BoolOption(), key="use_enable") opt.sig_changed.connect(self._enable_changed) self.optbox.add( "Distortion correction", ChoiceOption(["Fieldmap", "Phase encoding reversed calibration"], ["fmap", "cblip"]), key="distcorr", checked=True) self.optbox.option("distcorr").sig_changed.connect( self._distcorr_changed) self.optbox.add("Phase encode direction", ChoiceOption(["x", "y", "z", "-x", "-y", "-z"]), key="pedir") self.optbox.add("Echo spacing (ms)", NumericOption(minval=0, maxval=1, step=0.01, decimals=3), key="echospacing") self.fmap_opts = OptionBox("Fieldmap distortion correction") self.fmap_opts.add("Fieldmap image (rads)", DataOption(self.ivm, include_4d=False, explicit=True), key="fmap") self.fmap_opts.add("Fieldmap magnitude image (rads)", DataOption(self.ivm, include_4d=False, explicit=True), key="fmapmag") self.fmap_opts.add("Fieldmap magnitude brain image (rads)", DataOption(self.ivm, include_4d=False, explicit=True), key="fmapmagbrain") self.vbox.addWidget(self.fmap_opts) self.cblip_opts = OptionBox( "Phase-encoding reversed distortion correction") self.cblip_opts.add("Phase-encode reversed image", DataOption(self.ivm, include_4d=False, explicit=True), key="cblip") self.vbox.addWidget(self.cblip_opts) self._distcorr_changed()
def __init__(self, ivm): self.ivm = ivm self.model = UserPvModel(ivm) self.model.options.update({ "pvmaps" : {}, "additional" : {}, }) self.gui = OptionBox() self.gui.sig_changed.connect(self._update_options) self._refresh_gui()
class CheckerboardModelView: """ View for CheckerboardModel """ def __init__(self, ivm): self.model = CheckerboardModel(ivm) self.gui = OptionBox() self.gui.add("Number of voxels per patch (approx)", NumericOption(minval=1, maxval=1000, default=20, intonly=True), key="voxels-per-patch") self.gui.sig_changed.connect(self._update_options) def _update_options(self): self.model.options.update(self.gui.values())
def __init__(self, ivl, rois=True, data=True): OptionBox.__init__(self, border=True) self.ivl = ivl self.ivm = ivl.ivm self._qpdata = None self._no_update = False self.grid.setVerticalSpacing(2) self._view_btn = QtGui.QPushButton() self._view_btn.setIcon(QtGui.QIcon(get_icon("visible.png"))) self._view_btn.setFixedSize(16, 16) self._view_btn.setToolTip("Visibility") self._view_btn.clicked.connect(self._view_btn_clicked) self._data = self.add("Data" if data else "ROI", DataOption(self.ivm, data=data, rois=rois, follow_current=True), self._view_btn, key="data") self._view_roi = self.add("View ROI", DataOption(self.ivm, data=False, rois=True), checked=True, key="view_roi") self._levels_btn = QtGui.QPushButton() self._levels_btn.setIcon(QtGui.QIcon(get_icon("levels.png"))) self._levels_btn.setFixedSize(16, 16) self._levels_btn.setToolTip("Adjust colour map levels") self._levels_btn.clicked.connect(self._levels_clicked) self._cmap = self.add("Colour map", ChoiceOption([ "jet", "hot", "gist_heat", "flame", "bipolar", "spectrum", "custom" ]), self._levels_btn, key="cmap") self._alpha = self.add("Alpha", NumericOption(minval=0, maxval=255, default=255, edit=False, intonly=True), key="alpha") self._value_label = QtGui.QLabel() self.add("Value", self._value_label) self.add("", stretch=2) self._data.sig_changed.connect(self._data_changed) self._view_roi.sig_changed.connect(self._view_roi_changed) self._cmap.sig_changed.connect(self._cmap_changed) self._alpha.sig_changed.connect(self._alpha_changed) self.ivl.sig_focus_changed.connect(self._focus_changed) self.qpdata = None
def __init__(self, ivm): self.model = DceDataModel(ivm) self.gui = OptionBox() self.gui.add( "Model", ChoiceOption([ "Standard Tofts model", "Extended Tofts model (ETM)", "2 Compartment exchange model", "Compartmental Tissue Update (CTU) model", "Adiabatic Approximation to Tissue Homogeneity (AATH) Model" ], ["dce_tofts", "dce_ETM", "dce_2CXM", "dce_CTU", "dce_AATH"]), key="model") self.gui.add("Contrast agent R1 relaxivity (l/mmol s)", NumericOption(minval=0, maxval=10, default=3.7), key="r1") self.gui.add("Flip angle (\N{DEGREE SIGN})", NumericOption(minval=0, maxval=90, default=12), key="fa") self.gui.add("TR (ms)", NumericOption(minval=0, maxval=10, default=4.108), key="tr") self.gui.add("Time between volumes (s)", NumericOption(minval=0, maxval=30, default=12), key="delt") self.gui.add("AIF", ChoiceOption([ "Population (Orton 2008)", "Population (Parker)", "Measured DCE signal", "Measured concentration curve" ], ["orton", "parker", "signal", "conc"]), key="aif") self.gui.add("Number of volumes", NumericOption(minval=0, maxval=100, default=20, intonly=True), key="nt") self.gui.add("Bolus injection time (s)", NumericOption(minval=0, maxval=60, default=30), key="tinj") self.gui.add("AIF data values", NumberListOption([ 0, ]), key="aif-data") self.gui.add("Arterial transit time (s)", NumericOption(minval=0, maxval=1.0, default=0), key="delay") self.gui.option("model").sig_changed.connect(self._model_changed) self.gui.option("aif").sig_changed.connect(self._aif_changed) self._aif_changed() self._model_changed() self.gui.sig_changed.connect(self._update_options) self._update_options()
def __init__(self, ivm): self.model = DscDataModel(ivm) self.gui = OptionBox() self.gui.add("Time between volumes (s)", NumericOption(minval=0, maxval=5, default=1.0), key="delt") self.gui.add("TE (s)", NumericOption(minval=0, maxval=5, default=1.0), key="te") self.gui.add("AIF", NumberListOption(), key="aif") self.gui.sig_changed.connect(self._update_options) self._update_options()
class FastStructureModelView: """ View for FastStructureModel """ def __init__(self, ivm): self.model = FastStructureModel(ivm) self.gui = OptionBox() self.gui.add("Structural image (brain extracted)", DataOption(self.model._ivm, explicit=True), key="struc") self.gui.add("Image type", ChoiceOption(["T1 weighted", "T2 weighted", "Proton Density"], return_values=[1, 2, 3]), key="type") self.gui.sig_changed.connect(self._update_options) def _update_options(self): self.model.options.update(self.gui.values())
def __init__(self, ivm=None): QtGui.QWidget.__init__(self) self.ivm = ivm self.vbox = QtGui.QVBoxLayout() self.setLayout(self.vbox) if hasattr(self, "CITE"): self.vbox.addWidget(Citation(*self.CITE)) self.optbox = OptionBox() self.vbox.addWidget(self.optbox) self._init_ui() self.vbox.addStretch(1)
def _new_roi(self): dialog = QtGui.QDialog(self) dialog.setWindowTitle("New ROI") vbox = QtGui.QVBoxLayout() dialog.setLayout(vbox) optbox = OptionBox() optbox.add("ROI name", TextOption(), key="name") optbox.add("Data space from", DataOption(self.ivm), key="grid") vbox.addWidget(optbox) buttons = QtGui.QDialogButtonBox(QtGui.QDialogButtonBox.Ok | QtGui.QDialogButtonBox.Cancel) buttons.accepted.connect(dialog.accept) buttons.rejected.connect(dialog.reject) vbox.addWidget(buttons) ok = dialog.exec_() if ok: roiname = optbox.option("name").value grid = self.ivm.data[optbox.option("grid").value].grid roidata = np.zeros(grid.shape, dtype=np.int) self.ivm.add(NumpyData(roidata, grid=grid, roi=True, name=roiname), make_current=True) # Throw away old history. FIXME is this right, should we keep existing data and history? # Also should we cache old history in case we go back to this ROI? self._history = [] self._undo_btn.setEnabled(False) self.options.option("roi").value = roiname
def __init__(self, ivm): self.model = AslDataModel(ivm) self.gui = OptionBox() self.gui.add("Bolus duration", NumericOption(minval=0, maxval=5, default=1.8), key="tau") self.gui.add("Labelling", ChoiceOption(["CASL/pCASL", "PASL"], [True, False], default=True), key="casl") self.gui.add("PLDs", NumberListOption([0.25, 0.5, 0.75, 1.0, 1.25, 1.5]), key="plds") self.gui.add("Time per slice (ms)", NumericOption(minval=0, maxval=1000, default=0, intonly=True), key="slicedt") self.gui.add("Data format", ChoiceOption(["Differenced data", "Label/Control pairs"], ["diff", "tc"]), key="iaf") self.gui.add("Repeats", NumericOption(minval=1, maxval=100, default=1, intonly=True), key="repeats") self.gui.add("Group by", ChoiceOption(["PLDs", "Repeats"], ["tis", "rpt"]), key="ibf") self.gui.add("Inversion efficiency", NumericOption(minval=0.5, maxval=1.0, default=0.85), key="alpha") self.gui.add("M0", NumericOption(minval=0, maxval=2000, default=1000), key="m0") self.gui.add("TR (s)", NumericOption(minval=0, maxval=10, default=4), key="tr") self.gui.add("TE (ms)", NumericOption(minval=0, maxval=1000, default=13), key="te") self.gui.add("Tissue/arterial partition coefficient", NumericOption(minval=0, maxval=1, default=0.9), key="pct") #self.gui.add("Arterial component", BoolOption(), key="incart") self.gui.sig_changed.connect(self._update_options) self._update_options()
def __init__(self, ivm): self.model = SpinEchoDataModel(ivm) self.gui = OptionBox() self.gui.add("TR (s)", NumericOption(minval=0, maxval=10, default=4.8), key="tr") self.gui.add("TE (ms)", NumericOption(minval=0, maxval=1000, default=0), key="te") self.gui.add("M0", NumericOption(minval=0, maxval=10000, default=1000), key="m0") self.gui.sig_changed.connect(self._update_options) self._update_options()
class ModelOptions(OptionsWidget): def __init__(self, ivm, parent, model_type, abbrev, model_classes): OptionsWidget.__init__(self, ivm, parent) self._views = {} self.model = None self.view = None self._option_name = "%s-model" % abbrev for name, cls in model_classes.items(): self._views[name] = get_view_class(cls)(ivm) main_vbox = QtGui.QVBoxLayout() self.setLayout(main_vbox) self.options = OptionBox() self.options.add( "%s model" % model_type, ChoiceOption([v.model.display_name for v in self._views.values()], self._views.keys()), key=self._option_name) self.options.option(self._option_name).sig_changed.connect( self._model_changed) main_vbox.addWidget(self.options) self._create_guis(main_vbox) main_vbox.addStretch(1) self._model_changed() def _create_guis(self, main_vbox): # Create the GUIs for models - only one visible at a time! for view in self._views.values(): if view.gui is not None: view.gui.setVisible(False) if isinstance(view.gui, QtGui.QWidget): main_vbox.addWidget(view.gui) else: main_vbox.addLayout(view.gui) view.model.options.sig_changed.connect( self._model_option_changed) def _model_changed(self): chosen_name = self.options.option(self._option_name).value self.view = self._views[chosen_name] self.model = self.view.model for name, view in self._views.items(): view.gui.setVisible(chosen_name == name) self.sig_changed.emit() def _model_option_changed(self, _key, _value): self.sig_changed.emit()
def __init__(self, ivm, parent): OptionsWidget.__init__(self, ivm, parent) main_vbox = QtGui.QVBoxLayout() self.setLayout(main_vbox) self.options = OptionBox() self.options.add("Add noise with SNR", NumericOption(minval=0.1, maxval=100, default=10), checked=True, key="snr") self.options.sig_changed.connect(self.sig_changed.emit) main_vbox.addWidget(self.options) main_vbox.addStretch(1)
def init_ui(self): layout = QtGui.QVBoxLayout() self.setLayout(layout) title = TitleWidget(self, title="Registration and Motion Correction", help="reg") layout.addWidget(title) if not self.reg_methods: layout.addWidget(QtGui.QLabel("No registration methods found")) layout.addStretch(1) return self.options = OptionBox("General Options") self.options.add("Mode", ChoiceOption(["Registration", "Motion Correction"], ["reg", "moco"]), key="mode") self.options.add("Method", ChoiceOption([method.display_name for method in self.reg_methods], self.reg_methods), key="method") self.options.add("Registration data", DataOption(self.ivm), key="reg") self.options.add("Reference data", DataOption(self.ivm), key="ref") self.options.add("Reference volume", ChoiceOption(["Middle volume", "Mean volume", "Specified volume"], ["median", "mean", "idx"]), key="ref-vol") self.options.add("Reference volume index", NumericOption(intonly=True), key="ref-idx") self.options.add("Output space", ChoiceOption(["Reference", "Registration", "Transformed"], ["ref", "reg", "trans"]), key="output-space") self.options.add("Output name", OutputNameOption(src_data=self.options.option("reg"), suffix="_reg"), key="output-name", checked=True) self.options.add("Also apply transform to", DataOption(self.ivm, multi=True), key="add-reg") self.options.add("Save transformation", TextOption(), key="save-transform", checked=True, default=False) self.options.option("mode").sig_changed.connect(self._update_option_visibility) self.options.option("method").sig_changed.connect(self._method_changed) self.options.option("ref").sig_changed.connect(self._update_option_visibility) self.options.option("ref-vol").sig_changed.connect(self._update_option_visibility) self.options.option("reg").sig_changed.connect(self._update_option_visibility) layout.addWidget(self.options) # Create the options boxes for reg methods - only one visible at a time! self.opt_boxes = {} for method in self.reg_methods: hbox = QtGui.QHBoxLayout() opt_box = QtGui.QGroupBox() opt_box.setTitle(method.display_name) vbox = QtGui.QVBoxLayout() opt_box.setLayout(vbox) vbox.addWidget(method.interface()) hbox.addWidget(opt_box) opt_box.setVisible(False) layout.addLayout(hbox) self.opt_boxes[method.name] = opt_box layout.addWidget(RunWidget(self)) layout.addStretch(1) self._method_changed()
def __init__(self, parent): super(NewPoolDialog, self).__init__(parent) self.setWindowTitle("New Pool") vbox = QtGui.QVBoxLayout() self.optbox = OptionBox() vbox.addWidget(self.optbox) self.optbox.add("Name", TextOption(), key="name") self.optbox.add("PPM", NumericOption(minval=0, maxval=20, default=0, decimals=3, slider=False), key="ppm") self.optbox.add("Exchange rate", NumericOption(minval=0, maxval=1000, default=0, decimals=1, slider=False), key="exch") self.optbox.add("T1 (s)", NumericOption(minval=0, maxval=10, default=1.0, decimals=2, slider=False), key="t1") self.optbox.add("T2 (s)", NumericOption(minval=0, maxval=1.0, default=0.07, decimals=6, slider=False), key="t2") self.optbox.option("name").sig_changed.connect(self._validate) self.button_box = QtGui.QDialogButtonBox( QtGui.QDialogButtonBox.Ok | QtGui.QDialogButtonBox.Cancel) self.button_box.accepted.connect(self.accept) self.button_box.rejected.connect(self.reject) vbox.addWidget(self.button_box) self.setLayout(vbox) self._validate()
def init_ui(self): vbox = QtGui.QVBoxLayout() self.setLayout(vbox) title = TitleWidget( self, title="PCA reduction", subtitle="Principal Component Analysis for 4D data") vbox.addWidget(title) self._options = OptionBox("Options") self._options.add("Data", DataOption(self.ivm, include_3d=False), key="data") self._options.add("ROI", DataOption(self.ivm, data=False, rois=True), key="roi") self._options.add("Number of components", NumericOption(minval=1, intonly=True, default=4), key="n-components") self._options.add("Output name", OutputNameOption( src_data=self._options.option("data"), suffix="_pca"), key="output-name") self._options.option("data").sig_changed.connect(self._data_changed) vbox.addWidget(self._options) self._run = RunWidget(self) self._run.sig_postrun.connect(self._postrun) vbox.addWidget(self._run) self.plot = Plot(qpo=None, parent=self, title="PCA modes") self.variance_model = QtGui.QStandardItemModel() variance_table = QtGui.QTableView() variance_table.verticalHeader().hide() variance_table.setModel(self.variance_model) tabs = QtGui.QTabWidget() tabs.addTab(self.plot, "PCA modes") tabs.addTab(variance_table, "Explained variance") tabs.setCurrentWidget(self.plot) vbox.addWidget(tabs) vbox.addStretch(1) self._data_changed()