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
