def plot_navigator(self): if self.axes_manager.navigation_dimension == 0: return if self.navigator_data_function is None: navigation_sliders(self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") return if self.navigator_plot is not None: self.navigator_plot.plot() return elif len(self.navigator_data_function().shape) == 1: # Create the figure sf = spectrum.SpectrumFigure( title=self.signal_title + ' Navigator' if self.signal_title else "") axis = self.axes_manager.navigation_axes[0] sf.xlabel = '%s' % str(axis) if axis.units is not Undefined: sf.xlabel += ' (%s)' % axis.units sf.ylabel = r'$\Sigma\mathrm{data\,over\,all\,other\,axes}$' sf.axis = axis.axis sf.axes_manager = self.axes_manager self.navigator_plot = sf # Create a line to the left axis with the default # indices sl = spectrum.SpectrumLine() sl.data_function = self.navigator_data_function sl.set_line_properties(color='blue', type='step') # Add the line to the figure sf.add_line(sl) sf.plot() self.pointer.add_axes(sf.ax) if self.axes_manager.navigation_dimension > 1: navigation_sliders(self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") for axis in self.axes_manager.navigation_axes[:-2]: axis.connect(sf.update) self.navigator_plot = sf elif len(self.navigator_data_function().shape) >= 2: imf = image.ImagePlot() imf.data_function = self.navigator_data_function # Navigator labels if self.axes_manager.navigation_dimension == 1: imf.yaxis = self.axes_manager.navigation_axes[0] imf.xaxis = self.axes_manager.signal_axes[0] elif self.axes_manager.navigation_dimension >= 2: imf.yaxis = self.axes_manager.navigation_axes[1] imf.xaxis = self.axes_manager.navigation_axes[0] if self.axes_manager.navigation_dimension > 2: navigation_sliders(self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") for axis in self.axes_manager.navigation_axes[2:]: axis.connect(imf.update) imf.title = self.signal_title + ' Navigator' imf.plot() self.pointer.add_axes(imf.ax) self.navigator_plot = imf
def plot_navigator(self): if self.navigator_plot is not None: self.navigator_plot.plot() return if self.axes_manager.navigation_dimension >= 2: imf = image.ImagePlot() imf.data_function = self.navigator_data_function imf.title = self.signal_title + ' Navigator' imf.yaxis, imf.xaxis = \ self.axes_manager.navigation_axes[-2:] imf.plot() self.pointer.add_axes(imf.ax) if self.axes_manager.navigation_dimension > 2: navigation_sliders( self.axes_manager.navigation_axes[::-1]) for axis in self.axes_manager.navigation_axes[:-2]: axis.connect(imf.update_image) self.navigator_plot = imf if self.axes_manager.navigation_dimension == 1: # Create the figure sf = spectrum.SpectrumFigure() axis = self.axes_manager.navigation_axes[0] sf.xlabel = '%s (%s)' % (axis.name, axis.units) sf.ylabel = r'$\Sigma\mathrm{Image\,intensity}$' sf.title = self.signal_title + ' Navigator' sf.axis = axis.axis sf.axes_manager = self.axes_manager self.navigator_plot = sf # Create a line to the left axis with the default # indices sl = spectrum.SpectrumLine() sl.data_function = self.navigator_data_function sl.line_properties_helper('blue', 'step') # Add the line to the figure sf.add_line(sl) self.navigator_plot = sf sf.plot() self.pointer.add_axes(sf.ax)
def plot_navigator(self): if self.navigator_plot is not None: self.navigator_plot.plot() return imf = image.ImagePlot() imf.data_function = self.navigator_data_function # Navigator labels if self.axes_manager.navigation_dimension == 1: imf.yaxis = self.axes_manager.navigation_axes[0] imf.xaxis = self.axes_manager.signal_axes[0] elif self.axes_manager.navigation_dimension >= 2: imf.yaxis = self.axes_manager.navigation_axes[-2] imf.xaxis = self.axes_manager.navigation_axes[-1] if self.axes_manager.navigation_dimension > 2: navigation_sliders( self.axes_manager.navigation_axes[::-1]) for axis in self.axes_manager.navigation_axes[:-2]: axis.connect(imf.update_image) imf.title = self.signal_title + ' Navigator' imf.plot() self.pointer.add_axes(imf.ax) self.navigator_plot = imf
def plot_navigator(self): if self.axes_manager.navigation_dimension == 0: return if self.navigator_data_function is None: return if self.navigator_data_function is "slider": navigation_sliders(self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") return if self.navigator_plot is not None: self.navigator_plot.plot() return elif len(self.navigator_data_function().shape) == 1: # Create the figure sf = spectrum.SpectrumFigure(title=self.signal_title + " Navigator" if self.signal_title else "") axis = self.axes_manager.navigation_axes[0] sf.xlabel = "%s" % str(axis) if axis.units is not Undefined: sf.xlabel += " (%s)" % axis.units sf.ylabel = r"$\Sigma\mathrm{data\,over\,all\,other\,axes}$" sf.axis = axis.axis sf.axes_manager = self.axes_manager self.navigator_plot = sf # Create a line to the left axis with the default # indices sl = spectrum.SpectrumLine() sl.data_function = self.navigator_data_function sl.set_line_properties(color="blue", type="step") # Add the line to the figure sf.add_line(sl) sf.plot() self.pointer.add_axes(sf.ax) if self.axes_manager.navigation_dimension > 1: navigation_sliders(self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") for axis in self.axes_manager.navigation_axes[:-2]: axis.connect(sf.update) self.navigator_plot = sf elif len(self.navigator_data_function().shape) >= 2: imf = image.ImagePlot() imf.data_function = self.navigator_data_function # Navigator labels if self.axes_manager.navigation_dimension == 1: imf.yaxis = self.axes_manager.navigation_axes[0] imf.xaxis = self.axes_manager.signal_axes[0] elif self.axes_manager.navigation_dimension >= 2: imf.yaxis = self.axes_manager.navigation_axes[1] imf.xaxis = self.axes_manager.navigation_axes[0] if self.axes_manager.navigation_dimension > 2: navigation_sliders( self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders" ) for axis in self.axes_manager.navigation_axes[2:]: axis.connect(imf.update) imf.title = self.signal_title + " Navigator" imf.plot() self.pointer.add_axes(imf.ax) self.navigator_plot = imf
def plot_navigator(self, colorbar=True, scalebar=True, scalebar_color="white", axes_ticks=None, saturated_pixels=0, vmin=None, vmax=None, no_nans=False, centre_colormap="auto", title=None, **kwds): if self.axes_manager.navigation_dimension == 0: return if self.navigator_data_function is None: return if self.navigator_data_function is "slider": navigation_sliders(self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") return title = title or self.signal_title + " Navigator" if self.signal_title else "" if self.navigator_plot is not None: self.navigator_plot.plot() return elif len(self.navigator_data_function().shape) == 1: # Create the figure sf = signal1d.Signal1DFigure(title=title) axis = self.axes_manager.navigation_axes[0] sf.xlabel = '%s' % str(axis) if axis.units is not Undefined: sf.xlabel += ' (%s)' % axis.units sf.ylabel = r'$\Sigma\mathrm{data\,over\,all\,other\,axes}$' sf.axis = axis sf.axes_manager = self.axes_manager self.navigator_plot = sf # Create a line to the left axis with the default # indices sl = signal1d.Signal1DLine() sl.data_function = self.navigator_data_function sl.set_line_properties(color='blue', type='step') # Add the line to the figure sf.add_line(sl) sf.plot() self.pointer.set_mpl_ax(sf.ax) if self.axes_manager.navigation_dimension > 1: navigation_sliders(self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") for axis in self.axes_manager.navigation_axes[:-2]: axis.events.index_changed.connect(sf.update, []) sf.events.closed.connect( partial(axis.events.index_changed.disconnect, sf.update), []) self.navigator_plot = sf elif len(self.navigator_data_function().shape) >= 2: imf = image.ImagePlot() imf.data_function = self.navigator_data_function imf.colorbar = colorbar imf.scalebar = scalebar imf.scalebar_color = scalebar_color imf.axes_ticks = axes_ticks imf.saturated_pixels = saturated_pixels imf.vmin = vmin imf.vmax = vmax imf.no_nans = no_nans imf.centre_colormap = centre_colormap # Navigator labels if self.axes_manager.navigation_dimension == 1: imf.yaxis = self.axes_manager.navigation_axes[0] imf.xaxis = self.axes_manager.signal_axes[0] elif self.axes_manager.navigation_dimension >= 2: imf.yaxis = self.axes_manager.navigation_axes[1] imf.xaxis = self.axes_manager.navigation_axes[0] if self.axes_manager.navigation_dimension > 2: navigation_sliders(self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") for axis in self.axes_manager.navigation_axes[2:]: axis.events.index_changed.connect(imf.update, []) imf.events.closed.connect( partial(axis.events.index_changed.disconnect, imf.update), []) imf.title = title imf.plot(**kwds) self.pointer.set_mpl_ax(imf.ax) self.navigator_plot = imf
def plot_navigator(self): if self.axes_manager.navigation_dimension == 0: return if self.navigator_data_function is None: return if self.navigator_data_function is "slider": navigation_sliders( self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") return if self.navigator_plot is not None: self.navigator_plot.plot() return elif len(self.navigator_data_function().shape) == 1: # Create the figure sf = signal1d.Signal1DFigure(title=self.signal_title + ' Navigator' if self.signal_title else "") axis = self.axes_manager.navigation_axes[0] sf.xlabel = '%s' % str(axis) if axis.units is not Undefined: sf.xlabel += ' (%s)' % axis.units sf.ylabel = r'$\Sigma\mathrm{data\,over\,all\,other\,axes}$' sf.axis = axis sf.axes_manager = self.axes_manager self.navigator_plot = sf # Create a line to the left axis with the default # indices sl = signal1d.Signal1DLine() sl.data_function = self.navigator_data_function sl.set_line_properties(color='blue', type='step') # Add the line to the figure sf.add_line(sl) sf.plot() self.pointer.set_mpl_ax(sf.ax) if self.axes_manager.navigation_dimension > 1: navigation_sliders( self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") for axis in self.axes_manager.navigation_axes[:-2]: axis.events.index_changed.connect(sf.update, []) sf.events.closed.connect( partial(axis.events.index_changed.disconnect, sf.update), []) self.navigator_plot = sf elif len(self.navigator_data_function().shape) >= 2: imf = image.ImagePlot() imf.data_function = self.navigator_data_function # Navigator labels if self.axes_manager.navigation_dimension == 1: imf.yaxis = self.axes_manager.navigation_axes[0] imf.xaxis = self.axes_manager.signal_axes[0] elif self.axes_manager.navigation_dimension >= 2: imf.yaxis = self.axes_manager.navigation_axes[1] imf.xaxis = self.axes_manager.navigation_axes[0] if self.axes_manager.navigation_dimension > 2: navigation_sliders( self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") for axis in self.axes_manager.navigation_axes[2:]: axis.events.index_changed.connect(imf.update, []) imf.events.closed.connect( partial(axis.events.index_changed.disconnect, imf.update), []) imf.title = self.signal_title + ' Navigator' imf.plot() self.pointer.set_mpl_ax(imf.ax) self.navigator_plot = imf
def plot_navigator(self, colorbar=True, scalebar=True, scalebar_color="white", axes_ticks=None, saturated_pixels=0, vmin=None, vmax=None, no_nans=False, centre_colormap="auto", title=None, **kwds): if self.axes_manager.navigation_dimension == 0: return if self.navigator_data_function is None: return if self.navigator_data_function is "slider": navigation_sliders( self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") return title = title or self.signal_title +" Navigator" if self.signal_title else "" if self.navigator_plot is not None: self.navigator_plot.plot() return elif len(self.navigator_data_function().shape) == 1: # Create the figure sf = signal1d.Signal1DFigure(title=title) axis = self.axes_manager.navigation_axes[0] sf.xlabel = '%s' % str(axis) if axis.units is not Undefined: sf.xlabel += ' (%s)' % axis.units sf.ylabel = r'$\Sigma\mathrm{data\,over\,all\,other\,axes}$' sf.axis = axis sf.axes_manager = self.axes_manager self.navigator_plot = sf # Create a line to the left axis with the default # indices sl = signal1d.Signal1DLine() sl.data_function = self.navigator_data_function sl.set_line_properties(color='blue', type='step') # Add the line to the figure sf.add_line(sl) sf.plot() self.pointer.set_mpl_ax(sf.ax) if self.axes_manager.navigation_dimension > 1: navigation_sliders( self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") for axis in self.axes_manager.navigation_axes[:-2]: axis.events.index_changed.connect(sf.update, []) sf.events.closed.connect( partial(axis.events.index_changed.disconnect, sf.update), []) self.navigator_plot = sf elif len(self.navigator_data_function().shape) >= 2: imf = image.ImagePlot() imf.data_function = self.navigator_data_function imf.colorbar = colorbar imf.scalebar = scalebar imf.scalebar_color = scalebar_color imf.axes_ticks = axes_ticks imf.saturated_pixels = saturated_pixels imf.vmin = vmin imf.vmax = vmax imf.no_nans = no_nans imf.centre_colormap = centre_colormap # Navigator labels if self.axes_manager.navigation_dimension == 1: imf.yaxis = self.axes_manager.navigation_axes[0] imf.xaxis = self.axes_manager.signal_axes[0] elif self.axes_manager.navigation_dimension >= 2: imf.yaxis = self.axes_manager.navigation_axes[1] imf.xaxis = self.axes_manager.navigation_axes[0] if self.axes_manager.navigation_dimension > 2: navigation_sliders( self.axes_manager.navigation_axes, title=self.signal_title + " navigation sliders") for axis in self.axes_manager.navigation_axes[2:]: axis.events.index_changed.connect(imf.update, []) imf.events.closed.connect( partial(axis.events.index_changed.disconnect, imf.update), []) imf.title = title imf.plot(**kwds) self.pointer.set_mpl_ax(imf.ax) self.navigator_plot = imf