pymodaq 3.6.13__py3-none-any.whl → 4.0.1__py3-none-any.whl

pymodaq/daq_utils/plotting/data_viewers/viewerND.py

@@ -1,894 +0,0 @@
-from pymodaq.daq_utils.gui_utils.dock import DockArea, Dock
-from pymodaq.daq_utils.managers.action_manager import addaction
-from qtpy import QtWidgets
-from qtpy.QtCore import QObject, Slot, Signal, QRectF, \
-    QPointF
-import sys
-from pymodaq.daq_utils.plotting.data_viewers.viewer1D import Viewer1D
-from pymodaq.daq_utils.plotting.data_viewers.viewer1Dbasic import Viewer1DBasic
-from pymodaq.daq_utils.plotting.data_viewers.viewer2D import Viewer2D
-from pymodaq.daq_utils.daq_utils import Axis
-from collections import OrderedDict
-import numpy as np
-from pyqtgraph.parametertree import Parameter, ParameterTree
-import pymodaq.daq_utils.daq_utils as utils
-
-from pyqtgraph import LinearRegionItem
-from pymodaq.daq_utils import gui_utils as gutils
-import copy
-from pymodaq.daq_utils.plotting.utils.signalND import Signal as SignalND
-import datetime
-
-logger = utils.set_logger(utils.get_module_name(__file__))
-
-
-class ViewerND(QtWidgets.QWidget, QObject):
-    """
-
-        ======================== =========================================
-        **Attributes**            **Type**
-
-        *DockArea*                instance of gutils.DockArea
-        *mainwindow*              instance of gutils.DockArea
-        *title*                   string
-        *waitime*                 int
-        *x_axis*                  float array
-        *y_axis*                  float array
-        *data_buffer*             list of data
-        *ui*                      QObject
-        ======================== =========================================
-
-        Raises
-        ------
-        parent Exception
-            If parent argument is None in constructor abort
-
-        See Also
-        --------
-        set_GUI
-
-
-        References
-        ----------
-        qtpy, pyqtgraph, QtWidgets, QObject
-
-    """
-    command_DAQ_signal = Signal(list)
-    log_signal = Signal(str)
-    data_to_export_signal = Signal(OrderedDict)  # edict(name=self.DAQ_type,data0D=None,data1D=None,data2D=None)
-
-    def __init__(self, parent=None):
-        
-        super(ViewerND, self).__init__()
-
-
-        if parent is None:
-            area = DockArea()
-            area.show()
-            self.area = area
-        elif isinstance(parent, DockArea):
-            self.area = parent
-        elif isinstance(parent, QtWidgets.QWidget):
-            area = DockArea()
-            self.area = area
-            parent.setLayout(QtWidgets.QVBoxLayout())
-            parent.layout().addWidget(area)
-
-        self.wait_time = 2000
-        self.viewer_type = 'DataND'  # ☺by default but coul dbe used for 3D visualization
-        self.distribution = 'uniform'
-        self.nav_axes_viewers = []
-        self.nav_axes_dicts = []
-
-        self.x_axis = dict(data=None, label='', units='')
-        self.y_axis = dict(data=None, label='', units='')
-
-        self.data_buffer = []  # convenience list to store 0D data to be displayed
-        self.datas = None
-        self.datas_settings = None
-        # set default data shape case
-        self.data_axes = None
-        # self.set_nav_axes(3)
-        self.ui = QObject()  # the user interface
-        self.set_GUI()
-        self.setup_spread_UI()
-        self.title = ""
-        self.data_to_export = OrderedDict(name=self.title, data0D=OrderedDict(), data1D=OrderedDict(),
-                                          data2D=OrderedDict(),
-                                          dataND=OrderedDict())
-
-    @Slot(OrderedDict)
-    def export_data(self, datas):
-        self.data_to_export['acq_time_s'] = datetime.datetime.now().timestamp()
-        for key in datas.keys():
-            if key in self.data_to_export.keys():
-                if isinstance(datas[key], OrderedDict):
-                    if list(datas[key].keys()) != []:
-                        self.data_to_export[key].update(datas[key])
-        self.data_to_export_signal.emit(self.data_to_export)
-
-    def get_data_dimension(self):
-        try:
-            dimension = "("
-            for ind, ax in enumerate(self.datas.axes_manager.navigation_shape):
-                if ind != len(self.datas.axes_manager.navigation_shape) - 1:
-                    dimension += str(ax) + ','
-                else:
-                    dimension += str(ax) + '|'
-            for ind, ax in enumerate(self.datas.axes_manager.signal_shape):
-                if ind != len(self.datas.axes_manager.signal_shape) - 1:
-                    dimension += str(ax) + ','
-                else:
-                    dimension += str(ax) + ')'
-            return dimension
-        except Exception as e:
-            self.update_status(utils.getLineInfo() + str(e), self.wait_time, log='log')
-            logger.exception(str(e))
-            return ""
-
-    def parameter_tree_changed(self, param, changes):
-        """
-            Foreach value changed, update :
-                * Viewer in case of **DAQ_type** parameter name
-                * visibility of button in case of **show_averaging** parameter name
-                * visibility of naverage in case of **live_averaging** parameter name
-                * scale of axis **else** (in 2D pymodaq type)
-
-            Once done emit the update settings signal to link the commit.
-
-            =============== =================================== ================================================================
-            **Parameters**    **Type**                           **Description**
-            *param*           instance of ppyqtgraph parameter   the parameter to be checked
-            *changes*         tuple list                         Contain the (param,changes,info) list listing the changes made
-            =============== =================================== ================================================================
-        """
-        try:
-            for param, change, data in changes:
-                path = self.settings.childPath(param)
-                if path is not None:
-                    childName = '.'.join(path)
-                else:
-                    childName = param.name()
-                if change == 'childAdded':
-                    pass
-
-                elif change == 'value':
-                    pass
-                    # if param.name()=='navigator_axes':
-                    #    self.update_data_signal()
-                    #    self.settings.child('data_shape_settings', 'data_shape').setValue(str(datas_transposed))
-                    #    self.set_data(self.datas)
-
-        except Exception as e:
-            logger.exception(str(e))
-            self.update_status(utils.getLineInfo() + str(e), self.wait_time, 'log')
-
-    def set_axis(self, Npts):
-        """
-            | Set axis values from node and a linspace regular distribution
-
-            ================ ======================= ==========================================
-            **Parameters**     **Type**                **Description**
-
-             *node*           tables Group instance   the root node of the local treated tree
-            ================ ======================= ==========================================
-
-            Returns
-            -------
-            float array
-                the computed values axis.
-
-        """
-        axis = np.linspace(0, Npts, Npts, endpoint=False)
-        return axis
-
-    def restore_nav_axes(self, navigation_axes, nav_axes=None):
-        if nav_axes is None:
-            N_nav_axes = len(self.datas.data.shape)
-        else:
-            N_nav_axes = len([ax for ax in navigation_axes if 'nav' in ax])
-        nav_axes_dicts = []
-        sorted_indexes = []
-        for k in navigation_axes:
-            if 'nav' in k:
-                if navigation_axes[k]['nav_index'] < N_nav_axes:
-                    sorted_indexes.append(navigation_axes[k]['nav_index'])
-                    nav_axes_dicts.append(copy.deepcopy(navigation_axes[k]))
-
-        for ind in range(N_nav_axes):  # in case there was no nav axes in kwargs
-            if ind not in sorted_indexes:
-                sorted_indexes.append(ind)
-                nav_axes_dicts.append(Axis(nav_index=ind, label=f'Nav {ind:02d}'))
-                N = self.datas.data.shape[ind]
-                nav_axes_dicts[-1]['data'] = np.linspace(0, N - 1, N)
-
-        # sort nav axes:
-        sorted_index = np.argsort(sorted_indexes)
-        self.nav_axes_dicts = []
-        for ind in sorted_index:
-            self.nav_axes_dicts.append(nav_axes_dicts[ind])
-
-    def set_data(self, datas_transposed, temp_data=False, restore_nav_axes=True, **kwargs):
-        """
-        """
-        try:
-
-            if restore_nav_axes:
-                nav_axes = dict([])
-                for ind, ax in enumerate(self.nav_axes_dicts):
-                    nav_axes[f'nav_{ind}'] = ax
-                self.restore_nav_axes(nav_axes)
-
-            ##########################################################################
-            # display the correct signal viewer
-            if len(datas_transposed.axes_manager.signal_shape) == 0:  # signal data are 0D
-                self.ui.viewer1D.parent.setVisible(True)
-                self.ui.viewer2D.parent.setVisible(False)
-            elif len(datas_transposed.axes_manager.signal_shape) == 1:  # signal data are 1D
-                self.ui.viewer1D.parent.setVisible(True)
-                self.ui.viewer2D.parent.setVisible(False)
-            elif len(datas_transposed.axes_manager.signal_shape) == 2:  # signal data are 2D
-                self.ui.viewer1D.parent.setVisible(False)
-                self.ui.viewer2D.parent.setVisible(True)
-            self.x_axis = Axis()
-            self.y_axis = Axis()
-            if len(datas_transposed.axes_manager.signal_shape) == 1 or len(
-                    datas_transposed.axes_manager.signal_shape) == 2:  # signal data are 1D
-
-                if 'x_axis' in kwargs:
-                    if not isinstance(kwargs['x_axis'], dict):
-                        self.x_axis['data'] = kwargs['x_axis'][:]
-                        self.x_axis = kwargs['x_axis']
-                    else:
-                        self.x_axis = copy.deepcopy(kwargs['x_axis'])
-                else:
-                    self.x_axis['data'] = self.set_axis(datas_transposed.axes_manager.signal_shape[0])
-                if 'y_axis' in kwargs:
-                    self.ui.viewer1D.set_axis_label(axis_settings=dict(orientation='left',
-                                                                       label=kwargs['y_axis']['label'],
-                                                                       units=kwargs['y_axis']['units']))
-
-            if len(datas_transposed.axes_manager.signal_shape) == 2:  # signal data is 2D
-                if 'y_axis' in kwargs:
-                    if not isinstance(kwargs['y_axis'], dict):
-                        self.y_axis['data'] = kwargs['y_axis'][:]
-                        self.y_axis = kwargs['y_axis']
-                    else:
-                        self.y_axis = copy.deepcopy(kwargs['y_axis'])
-                else:
-                    self.y_axis['data'] = self.set_axis(datas_transposed.axes_manager.signal_shape[1])
-
-            axes_nav = self.get_selected_axes_indexes()
-            if len(axes_nav) == 0 or len(axes_nav) == 1:
-                self.update_viewer_data(*self.ui.navigator1D.ui.crosshair.get_positions())
-            elif len(axes_nav) == 2:
-                self.update_viewer_data(*self.ui.navigator2D.crosshair.get_positions())
-
-            # #get ROI bounds from viewers if any
-            ROI_bounds_1D = []
-            try:
-                self.ROI1D.getRegion()
-                indexes_values = utils.find_index(self.ui.viewer1D.x_axis, self.ROI1D.getRegion())
-                ROI_bounds_1D.append(QPointF(indexes_values[0][0], indexes_values[1][0]))
-            except Exception as e:
-                logger.warning(str(e))
-
-            ROI_bounds_2D = []
-            try:
-                ROI_bounds_2D.append(QRectF(self.ROI2D.pos().x(), self.ROI2D.pos().y(),
-                                            self.ROI2D.size().x(), self.ROI2D.size().y()))
-            except Exception as e:
-                logger.warning(str(e))
-
-            #############################################################
-            # display the correct navigator viewer and set some parameters
-            if len(axes_nav) <= 2:
-                for view in self.nav_axes_viewers:
-                    self.ui.nav_axes_widget.layout().removeWidget(view.parent)
-                    view.parent.close()
-                self.nav_axes_viewers = []
-
-            nav_axes = self.get_selected_axes()
-
-            if len(nav_axes) == 0:  # no Navigator
-                self.ui.navigator1D.parent.setVisible(False)
-                self.ui.navigator2D.parent.setVisible(False)
-                # self.navigator_label.setVisible(False)
-                self.ui.nav_axes_widget.setVisible(False)
-                self.ROI1D.setVisible(False)
-                self.ROI2D.setVisible(False)
-                navigator_data = []
-
-            elif len(nav_axes) == 1:  # 1D Navigator
-                self.ROI1D.setVisible(True)
-                self.ROI2D.setVisible(True)
-                self.ui.navigator1D.parent.setVisible(True)
-                self.ui.navigator2D.parent.setVisible(False)
-                self.ui.nav_axes_widget.setVisible(False)
-                # self.navigator_label.setVisible(True)
-                self.ui.navigator1D.remove_plots()
-                self.ui.navigator1D.x_axis = nav_axes[0]
-
-                labels = []
-                units = []
-                if self.scan_type.lower() == 'tabular' or self.is_spread:
-                    if 'datas' in self.nav_axes_dicts[0]:
-                        navigator_data = self.nav_axes_dicts[0]['datas'][:]
-                        if 'labels' in self.nav_axes_dicts[0]:
-                            labels = self.nav_axes_dicts[0]['labels'][:]
-                        if 'all_units' in self.nav_axes_dicts[0]:
-                            units = self.nav_axes_dicts[0]['all_units'][:]
-                    else:
-                        navigator_data = [self.nav_axes_dicts[0]['data']]
-                    if self.is_spread:
-                        if self.scan_type.lower() == 'tabular':
-                            data_spread = []
-                            for ind_label, lab in enumerate(labels):
-                                if 'curvilinear' in lab.lower():
-                                    data_spread = [self.nav_axes_dicts[0]['datas'][ind]]
-                        else:
-                            data_spread = self.nav_axes_dicts[0]['datas'][:]
-
-                        data_spread.append(self.get_nav_data(datas_transposed, ROI_bounds_1D, ROI_bounds_2D)[0])
-                        data_spread = np.vstack(data_spread).T
-
-                else:
-                    navigator_data = self.get_nav_data(datas_transposed, ROI_bounds_1D, ROI_bounds_2D)
-
-                if self.is_spread:
-                    self.ui.spread_viewer_2D.parent.setVisible(data_spread.shape[1] == 3)
-                    self.ui.spread_viewer_1D.parent.setVisible(data_spread.shape[1] == 2)
-                    if data_spread.shape[1] == 3:
-                        self.ui.spread_viewer_2D.setImage(data_spread=data_spread)
-                        if len(labels) > 1 and len(units) > 1:
-                            self.ui.spread_viewer_2D.set_axis_label(dict(orientation='bottom', label=labels[0],
-                                                                         units=units[0]))
-                            self.ui.spread_viewer_2D.set_axis_label(dict(orientation='left', label=labels[1],
-                                                                         units=units[1]))
-                    else:
-                        ind_sorted = np.argsort(data_spread[:, 0])
-                        self.ui.spread_viewer_1D.show_data([data_spread[:, 1][ind_sorted]], labels=['data'],
-                                                           x_axis=data_spread[:, 0][ind_sorted])
-                        self.ui.spread_viewer_1D.set_axis_label(dict(orientation='bottom',
-                                                                     label='Curvilinear value', units=''))
-
-                if temp_data:
-                    self.ui.navigator1D.show_data_temp(navigator_data)
-                    self.ui.navigator1D.update_labels(labels)
-                else:
-                    self.ui.navigator1D.show_data(navigator_data)
-                    self.ui.navigator1D.update_labels(labels)
-
-            elif len(nav_axes) == 2:  # 2D Navigator:
-                self.ROI1D.setVisible(True)
-                self.ROI2D.setVisible(True)
-
-                self.ui.navigator1D.parent.setVisible(False)
-                self.ui.navigator2D.parent.setVisible(True)
-                self.ui.nav_axes_widget.setVisible(False)
-                # self.navigator_label.setVisible(True)
-
-                self.ui.navigator2D.x_axis = nav_axes[0]
-                self.ui.navigator2D.y_axis = nav_axes[1]
-
-                navigator_data = self.get_nav_data(datas_transposed, ROI_bounds_1D, ROI_bounds_2D)
-
-                if temp_data:
-                    self.ui.navigator2D.setImageTemp(*navigator_data)
-                else:
-                    self.ui.navigator2D.setImage(*navigator_data)
-
-            else:  # more than 2 nv axes, display all nav axes in 1D plots
-
-                self.ui.navigator1D.parent.setVisible(False)
-                self.ui.navigator2D.parent.setVisible(False)
-                self.ui.nav_axes_widget.setVisible(True)
-                if len(self.nav_axes_viewers) != len(axes_nav):
-                    for view in self.nav_axes_viewers:
-                        self.ui.nav_axes_widget.layout().removeWidget(view.parent)
-                        view.parent.close()
-                    widgets = []
-                    self.nav_axes_viewers = []
-                    for ind in range(len(axes_nav)):
-                        widgets.append(QtWidgets.QWidget())
-                        self.ui.nav_axes_widget.layout().addWidget(widgets[-1])
-                        self.nav_axes_viewers.append(Viewer1DBasic(widgets[-1], show_line=True))
-
-                for ind in range(len(axes_nav)):
-                    self.nav_axes_viewers[ind].roi_line_signal.connect(self.update_viewer_data)
-                    self.nav_axes_viewers[ind].show_data([nav_axes[ind]['data']])
-                    self.nav_axes_viewers[ind].set_axis_label(dict(orientation='bottom',
-                                                                   label=nav_axes[ind]['label'],
-                                                                   units=nav_axes[ind]['units']))
-
-            self.update_viewer_data()
-
-        except Exception as e:
-            logger.exception(str(e))
-            self.update_status(utils.getLineInfo() + str(e), self.wait_time, 'log')
-
-    def get_data_from_1Dsignal_roi(self, datas_transposed, ROI_bounds_1D):
-        if ROI_bounds_1D != []:
-            if self.ui.combomath.currentText() == 'Sum':
-                navigator_data = [datas_transposed.isig[pt.x():pt.y() + 1].sum((-1)).data for pt in
-                                  ROI_bounds_1D]
-            elif self.ui.combomath.currentText() == 'Mean':
-                navigator_data = [datas_transposed.isig[pt.x():pt.y() + 1].mean((-1)).data for pt in
-                                  ROI_bounds_1D]
-            elif self.ui.combomath.currentText() == 'Half-life':
-                navigator_data = [datas_transposed.isig[pt.x():pt.y() + 1].halflife((-1)).data for pt in
-                                  ROI_bounds_1D]
-        else:
-            if self.ui.combomath.currentText() == 'Sum':
-                navigator_data = [datas_transposed.isig[:].sum((-1)).data]
-            elif self.ui.combomath.currentText() == 'Mean':
-                navigator_data = [datas_transposed.isig[:].mean((-1)).data]
-            elif self.ui.combomath.currentText() == 'Half-life':
-                navigator_data = [datas_transposed.isig[:].halflife((-1)).data]
-        return navigator_data
-
-    def get_nav_data(self, datas_transposed, ROI_bounds_1D, ROI_bounds_2D):
-
-        if len(datas_transposed.axes_manager.signal_shape) == 0:  # signal data is 0D
-            navigator_data = [datas_transposed.data]
-
-        elif len(datas_transposed.axes_manager.signal_shape) == 1:  # signal data is 1D
-            navigator_data = self.get_data_from_1Dsignal_roi(datas_transposed, ROI_bounds_1D)
-
-        elif len(datas_transposed.axes_manager.signal_shape) == 2:  # signal data is 2D
-            if ROI_bounds_2D != []:
-                navigator_data = [datas_transposed.isig[rect.x():rect.x() + rect.width(),
-                                  rect.y():rect.y() + rect.height()].sum((-1, -2)).data for rect in
-                                  ROI_bounds_2D]
-            else:
-                navigator_data = [datas_transposed.sum((-1, -2)).data]
-        else:
-            navigator_data = None
-        return navigator_data
-
-    def init_ROI(self):
-        nav_axes = self.get_selected_axes()
-        if len(nav_axes) != 0:
-            self.ui.navigator1D.ui.crosshair.set_crosshair_position(np.mean(nav_axes[0]['data']))
-            if len(nav_axes) > 1:
-                x, y = self.ui.navigator2D.unscale_axis(np.mean(nav_axes[0]['data']),
-                                                        np.mean(nav_axes[1]['data']))
-                self.ui.navigator2D.crosshair.set_crosshair_position(x, y)
-
-            if self.x_axis['data'] is not None:
-                self.ROI1D.setRegion((np.min(self.x_axis['data']), np.max(self.x_axis['data'])))
-            if self.x_axis['data'] is not None and self.y_axis['data'] is not None:
-                self.ROI2D.setPos((np.min(self.x_axis['data']), np.min(self.y_axis['data'])))
-                self.ROI2D.setSize((np.max(self.x_axis['data']) - np.min(self.x_axis['data']),
-                                    np.max(self.y_axis['data']) - np.min(self.y_axis['data'])))
-
-            self.update_Navigator()
-
-    def set_data_test(self, data_shape='3D'):
-
-        x = utils.linspace_step(-10, 10, 0.2)
-        y = utils.linspace_step(-30, 30, 2)
-        t = utils.linspace_step(-200, 200, 2)
-        z = utils.linspace_step(-50, 50, 0.5)
-        datas = np.zeros((len(y), len(x), len(t), len(z)))
-        amp = utils.gauss2D(x, 0, 1, y, 0, 2)
-        for indx in range(len(x)):
-            for indy in range(len(y)):
-                datas[indy, indx, :, :] = amp[indy, indx] * (
-                    utils.gauss2D(z, 0 + indx * 2, 20, t, 0 + 3 * indy, 30) + np.random.rand(len(t), len(z)) / 10)
-
-        nav_axis = dict(nav00=Axis(data=y, nav_index=0, label='y_axis', units='yunits'),
-                        nav01=Axis(data=x, nav_index=1, label='x_axis', units='xunits'),
-                        nav02=Axis(data=t, nav_index=2, label='t_axis', units='tunits'),
-                        nav03=Axis(data=z, nav_index=3, label='z_axis', units='zunits'))
-
-        if data_shape == '4D':
-            nav_axes = [2, 3]
-            self.show_data(datas, temp_data=False, nav_axes=nav_axes, **nav_axis)
-        elif data_shape == '3D':
-            self.show_data(np.sum(datas, axis=3), temp_data=False, nav_axes=[0, 1], **nav_axis)
-        elif data_shape == '2D':
-            self.show_data(np.sum(datas, axis=(2, 3)), **nav_axis)
-        elif data_shape == '1D':
-            self.show_data(np.sum(datas, axis=(1, 2, 3)), **nav_axis)
-
-    def set_nav_axes(self, Ndim, nav_axes=None):
-        self.data_axes = [ind for ind in range(Ndim)]
-        if nav_axes is None:
-            if Ndim > 0:
-                nav_axes = self.data_axes[0:2]
-            else:
-                nav_axes = self.data_axes[0]
-
-        self.settings.child('data_shape_settings', 'navigator_axes').setValue(
-            dict(all_items=[ax['label'] for ax in self.nav_axes_dicts],
-                 selected=[self.nav_axes_dicts[ind]['label'] for ind in nav_axes]))
-
-    def set_GUI(self):
-        """
-
-        """
-        # %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
-
-        # main_layout = QtWidgets.QGridLayout()
-        # self.area.setLayout(main_layout)
-
-        # vsplitter = QtWidgets.QSplitter(Qt.Vertical)
-        # Hsplitter=QtWidgets.QSplitter(Qt.Horizontal)
-
-        params = [
-            {'title': 'Set data 4D', 'name': 'set_data_4D', 'type': 'action', 'visible': False},
-            {'title': 'Set data 3D', 'name': 'set_data_3D', 'type': 'action', 'visible': False},
-            {'title': 'Set data 2D', 'name': 'set_data_2D', 'type': 'action', 'visible': False},
-            {'title': 'Set data 1D', 'name': 'set_data_1D', 'type': 'action', 'visible': False},
-            {'title': 'Signal shape', 'name': 'data_shape_settings', 'type': 'group', 'children': [
-                {'title': 'Initial Data shape:', 'name': 'data_shape_init', 'type': 'str', 'value': "",
-                 'readonly': True},
-                {'title': 'Axes shape:', 'name': 'nav_axes_shapes', 'type': 'group', 'children': [],
-                 'readonly': True},
-                {'title': 'Data shape:', 'name': 'data_shape', 'type': 'str', 'value': "", 'readonly': True},
-                {'title': 'Navigator axes:', 'name': 'navigator_axes', 'type': 'itemselect'},
-                {'title': 'Set Nav axes:', 'name': 'set_nav_axes', 'type': 'action', 'visible': True},
-            ]},
-        ]
-
-        self.settings = Parameter.create(name='Param', type='group', children=params)
-        # #self.signal_axes_selection()
-
-        # connecting from tree
-        self.settings.sigTreeStateChanged.connect(self.parameter_tree_changed)  # any changes on the settings
-        self.settings.child(('set_data_1D')).sigActivated.connect(lambda: self.set_data_test('1D'))
-        self.settings.child(('set_data_2D')).sigActivated.connect(lambda: self.set_data_test('2D'))
-        self.settings.child(('set_data_3D')).sigActivated.connect(lambda: self.set_data_test('3D'))
-        self.settings.child(('set_data_4D')).sigActivated.connect(lambda: self.set_data_test('4D'))
-        self.settings.child('data_shape_settings', 'set_nav_axes').sigActivated.connect(self.update_data)
-        # #%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
-        # #% 1D signalviewer
-        viewer1D_widget = QtWidgets.QWidget()
-        self.ui.viewer1D = Viewer1D(viewer1D_widget)
-        self.ROI1D = LinearRegionItem()
-        self.ui.viewer1D.viewer.plotwidget.plotItem.addItem(self.ROI1D)
-        self.ui.combomath = QtWidgets.QComboBox()
-        self.ui.combomath.addItems(['Sum', 'Mean', 'Half-life'])
-        self.ui.viewer1D.ui.button_widget.addWidget(self.ui.combomath)
-        self.ui.combomath.currentIndexChanged.connect(self.update_Navigator)
-
-        self.ROI1D.sigRegionChangeFinished.connect(self.update_Navigator)
-
-        # % 2D viewer Dock
-        viewer2D_widget = QtWidgets.QWidget()
-        self.ui.viewer2D = Viewer2D(viewer2D_widget)
-        self.ui.viewer2D.set_action_visible('flip_ud', False)
-        self.ui.viewer2D.set_action_visible('flip_lr', False)
-        self.ui.viewer2D.set_action_visible('rotate', False)
-        self.ui.viewer2D.get_action('autolevels').trigger()
-        self.ui.viewer2D.get_action('ROIselect').trigger()
-        self.ROI2D = self.ui.viewer2D.ROIselect
-        self.ui.viewer2D.ROI_select_signal.connect(self.update_Navigator)
-
-        Dock_signal = Dock('Signal')
-        Dock_signal.addWidget(viewer1D_widget)
-        Dock_signal.addWidget(viewer2D_widget)
-
-        # #%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
-        # #% Navigator viewer Dock
-        navigator1D_widget = QtWidgets.QWidget()
-        self.ui.navigator1D = Viewer1D(navigator1D_widget)
-        self.ui.navigator1D.ui.crosshair.crosshair_dragged.connect(self.update_viewer_data)
-        self.ui.navigator1D.ui.crosshair_pb.click()
-        self.ui.navigator1D.data_to_export_signal.connect(self.export_data)
-        navigator2D_widget = QtWidgets.QWidget()
-        self.ui.navigator2D = Viewer2D(navigator2D_widget)
-        self.ui.navigator2D.get_action('autolevels').trigger()
-        self.ui.navigator2D.crosshair_dragged.connect(
-            self.update_viewer_data)  # export scaled position in conjonction with 2D scaled axes
-        self.ui.navigator2D.get_action('crosshair').trigger()
-        self.ui.navigator2D.data_to_export_signal.connect(self.export_data)
-
-        self.ui.navigation_widget = QtWidgets.QWidget()
-        # vlayout_navigation = QtWidgets.QVBoxLayout()
-        # self.navigator_label = QtWidgets.QLabel('Navigation View')
-        # self.navigator_label.setMaximumHeight(15)
-        # layout_navigation.addWidget(self.navigator_label)
-        self.ui.nav_axes_widget = QtWidgets.QWidget()
-        self.ui.nav_axes_widget.setLayout(QtWidgets.QVBoxLayout())
-        # vlayout_navigation.addWidget(navigator2D_widget)
-        # vlayout_navigation.addWidget(self.ui.nav_axes_widget)
-        self.ui.nav_axes_widget.setVisible(False)
-        # vlayout_navigation.addWidget(navigator1D_widget)
-        # self.ui.navigation_widget.setLayout(vlayout_navigation)
-        # vsplitter.insertWidget(0, self.ui.navigation_widget)
-
-        Dock_navigation = Dock('Navigation')
-        Dock_navigation.addWidget(navigator1D_widget)
-        Dock_navigation.addWidget(navigator2D_widget)
-
-        self.area.addDock(Dock_navigation)
-        self.area.addDock(Dock_signal, 'right', Dock_navigation)
-
-        # self.ui.signal_widget = QtWidgets.QWidget()
-        # VLayout1 = QtWidgets.QVBoxLayout()
-        # self.viewer_label = QtWidgets.QLabel('Data View')
-        # self.viewer_label.setMaximumHeight(15)
-        # VLayout1.addWidget(self.viewer_label)
-        # VLayout1.addWidget(viewer1D_widget)
-        # VLayout1.addWidget(viewer2D_widget)
-        # self.ui.signal_widget.setLayout(VLayout1)
-        # vsplitter.insertWidget(1, self.ui.signal_widget)
-
-        self.ui.set_signals_pb_1D = addaction('', icon_name='cartesian', checkable=True,
-                                                                                        tip='Change navigation/signal axes')
-
-        self.ui.set_signals_pb_1D_bis = addaction('', icon_name='cartesian', checkable=True,
-                                                                                            tip='Change navigation/signal axes')
-        self.ui.set_signals_pb_2D = addaction('', icon_name='cartesian', checkable=True,
-                                                                                        tip='Change navigation/signal axes')
-        self.ui.set_signals_pb_2D_bis = addaction('', icon_name='cartesian', checkable=True,
-                                                                                            tip='Change navigation/signal axes')
-
-        self.ui.navigator1D.ui.button_widget.addAction(self.ui.set_signals_pb_1D)
-        self.ui.navigator2D.toolbar.addAction(self.ui.set_signals_pb_2D)
-        self.ui.viewer1D.ui.button_widget.addAction(self.ui.set_signals_pb_1D_bis)
-        self.ui.viewer2D.toolbar.addAction(self.ui.set_signals_pb_2D_bis)
-
-        # main_layout.addWidget(vsplitter)
-
-        self.ui.set_signals_pb_1D.clicked.connect(self.signal_axes_selection)
-        self.ui.set_signals_pb_2D.clicked.connect(self.signal_axes_selection)
-        self.ui.set_signals_pb_1D_bis.clicked.connect(self.signal_axes_selection)
-        self.ui.set_signals_pb_2D_bis.clicked.connect(self.signal_axes_selection)
-
-        # to start: display as default a 2D navigator and a 1D viewer
-        self.ui.navigator1D.parent.setVisible(False)
-        self.ui.viewer2D.parent.setVisible(True)
-
-    def setup_spread_UI(self):
-        self.ui.spread_widget = QtWidgets.QWidget()
-        self.ui.spread_widget.setLayout(QtWidgets.QVBoxLayout())
-        widget1D = QtWidgets.QWidget()
-        widget2D = QtWidgets.QWidget()
-        self.ui.spread_viewer_1D = Viewer1D(widget1D)
-        self.ui.spread_viewer_2D = Viewer2D(widget2D)
-        self.ui.spread_widget.layout().addWidget(widget1D)
-        self.ui.spread_widget.layout().addWidget(widget2D)
-        # todo: better connection as discussed
-        self.ui.spread_viewer_1D.ui.crosshair.crosshair_dragged.connect(self.get_nav_position)
-        self.ui.spread_viewer_1D.ui.crosshair_pb.click()
-        self.ui.spread_viewer_2D.get_action('autolevels').click()
-        # todo: better connection as discussed
-        self.ui.spread_viewer_2D.crosshair_dragged.connect(self.get_nav_position)
-        self.ui.spread_viewer_2D.get_action('crosshair').trigger()
-
-        self.ui.spread_widget.show()
-        self.ui.spread_widget.setVisible(False)
-
-    def show_data_temp(self, datas, nav_axes=None, distribution='uniform', **kwargs):
-        """
-        """
-        self.show_data(datas, temp_data=True, nav_axes=nav_axes, distribution=distribution, **kwargs)
-
-    def set_nav_shapes(self):
-        for child in self.settings.child('data_shape_settings', 'nav_axes_shapes').children():
-            child.remove()
-
-        for ind_ax, ax in enumerate(self.nav_axes_dicts):
-            self.settings.child('data_shape_settings', 'nav_axes_shapes').addChild(
-                {'title': ax['label'], 'name': f'nav_{ind_ax:02d}_shape', 'type': 'str', 'value': str(ax['data'].shape),
-                 'readonly': True},
-            )
-
-    def show_data(self, datas, temp_data=False, nav_axes=None, is_spread=False, scan_type='', **kwargs):
-        """Display datas as a hyperspaced dataset
-        only one numpy ndarray should be used
-        """
-        self.is_spread = is_spread
-        self.ui.spread_widget.setVisible(is_spread)
-
-        self.scan_type = scan_type
-        self.data_buffer = []
-        self.data_to_export = OrderedDict(name=self.title, data0D=OrderedDict(), data1D=OrderedDict(),
-                                          data2D=OrderedDict(), dataND=OrderedDict(), )
-        self.data_to_export['dataND']['CH000'] = OrderedDict(data=datas, source='raw', nav_axes=nav_axes)
-        for key in kwargs:
-            self.data_to_export['dataND']['CH000'][key] = kwargs[key]
-        self._datas = datas
-        self.datas = SignalND(datas)
-        self.datas_settings = kwargs
-        self.restore_nav_axes(kwargs, nav_axes=nav_axes)
-        self.set_nav_shapes()
-
-        try:
-            if self.data_axes is not None:
-                if datas.ndim != len(self.data_axes) or self.get_selected_axes_indexes() != nav_axes:
-                    self.set_nav_axes(datas.ndim, nav_axes)  # init the list of axes and set the managers to nav_axes
-            else:
-                self.set_nav_axes(datas.ndim, nav_axes)  # init the list of axes and set the managers to nav_axes
-
-            # self.datas=hs.signals.BaseSignal(datas)
-
-            self.update_data_signal()
-            self.settings.child('data_shape_settings', 'data_shape_init').setValue(str(datas.shape))
-            self.settings.child('data_shape_settings', 'data_shape').setValue(self.get_data_dimension())
-            self.set_data(self.datas, temp_data=temp_data, **kwargs)
-
-        except Exception as e:
-            logger.exception(str(e))
-            self.update_status(utils.getLineInfo() + str(e), self.wait_time, 'log')
-
-    def signal_axes_selection(self):
-        self.ui.settings_tree = ParameterTree()
-        self.ui.settings_tree.setMinimumWidth(300)
-        self.ui.settings_tree.setParameters(self.settings, showTop=False)
-        self.signal_axes_widget = QtWidgets.QWidget()
-        layout = QtWidgets.QVBoxLayout()
-        self.signal_axes_widget.setLayout(layout)
-        layout.addWidget(self.ui.settings_tree)
-        self.signal_axes_widget.adjustSize()
-        self.signal_axes_widget.show()
-
-    def get_selected_axes_indexes(self):
-        if self.settings.child('data_shape_settings', 'navigator_axes').value() is None:
-            return []
-        labels = self.settings.child('data_shape_settings', 'navigator_axes').value()['selected']
-        axes_nav = []
-        for lab in labels:
-            for ax in self.nav_axes_dicts:
-                if ax['label'] == lab:
-                    axes_nav.append(ax['nav_index'])
-        return axes_nav
-
-    def get_selected_axes(self):
-        axes_nav = []
-        if self.settings.child('data_shape_settings', 'navigator_axes').value() is not None:
-            labels = self.settings.child('data_shape_settings', 'navigator_axes').value()['selected']
-            for lab in labels:
-                for ax in self.nav_axes_dicts:
-                    if ax['label'] == lab:
-                        axes_nav.append(ax)
-                        break
-        return axes_nav
-
-    def update_data(self):
-        restore_nav_axes = self.get_selected_axes_indexes() != self.get_selected_axes_indexes()
-
-        self.update_data_signal()
-        self.settings.child('data_shape_settings', 'data_shape').setValue(self.get_data_dimension())
-
-        nav_axes = dict([])
-        for ind, ax in enumerate(self.nav_axes_dicts):
-            nav_axes[f'nav_{ind}'] = ax
-
-        self.set_data(self.datas, restore_nav_axes=restore_nav_axes, **nav_axes)
-
-    def update_data_signal(self):
-        try:
-            axes_nav = [len(self.data_axes) - ind - 1 for ind in self.get_selected_axes_indexes()]
-            axes_signal = [ax for ax in self.data_axes if ax not in axes_nav]
-            self.datas = SignalND(self._datas)
-            self.datas = self.datas.transpose(signal_axes=axes_signal, navigation_axes=axes_nav)
-
-        except Exception as e:
-            logger.exception(str(e))
-            self.update_status(utils.getLineInfo() + str(e), self.wait_time, 'log')
-
-    def update_Navigator(self):
-        # #self.update_data_signal()
-        self.set_data(self.datas, **self.datas_settings)
-
-    def update_status(self, txt, wait_time=1000, log=''):
-        """
-            | Update the statut bar showing a Message with a delay of wait_time ms (1s by default)
-
-            ================ ======== ===========================
-            **Parameters**   **Type**     **Description**
-
-             *txt*            string   the text message to show
-
-             *wait_time*      int      the delay time of showing
-            ================ ======== ===========================
-
-        """
-        if log != '':
-            self.log_signal.emit(txt)
-
-    def get_axis_from_label(self):
-        pass
-
-    def get_nav_position(self, posx=0, posy=None):
-        """
-        crosshair position from the "spread" data viewer. Should return scan index where the scan was closest to posx,
-        posy coordinates
-        Parameters
-        ----------
-        posx
-        posy
-
-        See Also
-        --------
-        update_viewer_data
-        """
-        nav_axes = self.get_selected_axes()
-        if len(nav_axes) != 0:
-            if 'datas' in nav_axes[0]:
-                datas = nav_axes[0]['datas']
-                xaxis = datas[0]
-                if len(datas) > 1:
-                    yaxis = datas[1]
-                    ind_scan = utils.find_common_index(xaxis, yaxis, posx, posy)
-                else:
-                    ind_scan = utils.find_index(xaxis, posx)[0]
-
-                self.ui.navigator1D.ui.crosshair.set_crosshair_position(ind_scan[0])
-
-    def update_viewer_data(self, posx=0, posy=0):
-        """
-            |qtpy slot triggered by the crosshair signal from the 1D or 2D Navigator
-            | Update the viewer informations from an x/y given position and store data.
-        Parameters
-        ----------
-        posx: (float) from the 1D or 2D Navigator crosshair or from one of the navigation axis viewer (in that case
-            nav_axis tells from wich navigation axis the position comes from)
-        posy: (float) from the 2D Navigator crosshair
-        nav_axis: (int) index of the navigation axis from where posx comes from
-
-        """
-        if self.datas is not None:
-            try:
-                nav_axes = self.get_selected_axes()
-                # datas_transposed=self.update_data_signal(self.datas)
-                if len(nav_axes) == 0:
-                    data = self.datas.data
-
-                elif len(nav_axes) == 1:
-                    if posx < nav_axes[0]['data'][0] or posx > nav_axes[0]['data'][-1]:
-                        return
-                    ind_x = utils.find_index(nav_axes[0]['data'], posx)[0][0]
-                    data = self.datas.inav[ind_x].data
-                elif len(nav_axes) == 2:
-                    if posx < nav_axes[0]['data'][0] or posx > nav_axes[0]['data'][-1]:
-                        return
-                    if posy < nav_axes[1]['data'][0] or posy > nav_axes[1]['data'][-1]:
-                        return
-                    ind_x = utils.find_index(nav_axes[0]['data'], posx)[0][0]
-                    ind_y = utils.find_index(nav_axes[1]['data'], posy)[0][0]
-                    data = self.datas.inav[ind_x, ind_y].data
-
-                else:
-                    pos = []
-                    for ind_view, view in enumerate(self.nav_axes_viewers):
-                        p = view.roi_line.getPos()[0]
-                        if p < 0 or p > len(nav_axes[ind_view]['data']):
-                            return
-                        ind = int(np.rint(p))
-                        pos.append(ind)
-                    data = self.datas.inav.__getitem__(pos).data
-
-                if len(self.datas.axes_manager.signal_shape) == 0:  # means 0D data, plot on 1D viewer
-                    self.data_buffer.extend(data)
-                    self.ui.viewer1D.show_data([self.data_buffer])
-
-                elif len(self.datas.axes_manager.signal_shape) == 1:  # means 1D data, plot on 1D viewer
-                    self.ui.viewer1D.remove_plots()
-                    self.ui.viewer1D.x_axis = self.x_axis
-                    self.ui.viewer1D.show_data([data])
-
-                elif len(self.datas.axes_manager.signal_shape) == 2:  # means 2D data, plot on 2D viewer
-                    self.ui.viewer2D.x_axis = self.x_axis
-                    self.ui.viewer2D.y_axis = self.y_axis
-                    self.ui.viewer2D.setImage(data)
-            except Exception as e:
-                logger.exception(str(e))
-                self.update_status(utils.getLineInfo() + str(e), wait_time=self.wait_time, log='log')
-
-
-if __name__ == '__main__':
-    app = QtWidgets.QApplication(sys.argv)
-    area = DockArea()
-    prog = ViewerND(area)
-    prog.settings.child(('set_data_4D')).show(True)
-    prog.settings.child(('set_data_3D')).show(True)
-    prog.settings.child(('set_data_2D')).show(True)
-    prog.settings.child(('set_data_1D')).show(True)
-    prog.signal_axes_selection()
-    area.show()
-    sys.exit(app.exec_())