def _setup_graph(self):
self.plot_container = HPlotContainer()
g = self.stream_graph
g.clear()
g.new_plot(padding_left=70, padding_right=10)
g.new_series(plotid=0)
g.set_y_title('Lumens', plotid=0)
g.new_plot(padding_left=70, padding_right=10)
g.new_series(plotid=1)
g.set_y_title('Error', plotid=1)
g.new_plot(padding_left=70, padding_right=10)
g.new_series(plotid=2)
g.set_y_title('Output', plotid=2)
g = self.img_graph
g.clear()
imgplot = g.new_plot(padding_right=10)
imgplot.aspect_ratio = 1.0
imgplot.x_axis.visible = False
imgplot.y_axis.visible = False
imgplot.x_grid.visible = False
imgplot.y_grid.visible = False
imgplot.data.set_data('imagedata', zeros((150, 150, 3), dtype=uint8))
imgplot.img_plot('imagedata', origin='top left')
self.plot_container.add(self.stream_graph.plotcontainer)
self.plot_container.add(self.img_graph.plotcontainer)
def _matrix_plot_container_default(self):
matrix = np.nan_to_num(self.matrix)
width = matrix.shape[0]
# create a plot data object and give it this data
plot_data = ArrayPlotData()
plot_data.set_data("values", matrix)
# create the plot
plot = Plot(plot_data, origin=self.origin)
img_plot = plot.img_plot("values",
interpolation='nearest',
xbounds=(0, width),
ybounds=(0, width),
colormap=self._create_colormap())[0]
#### fix axes
self._remove_grid_and_axes(plot)
axis = self._create_increment_one_axis(plot, 0.5, width, 'bottom')
self._add_value_axis(plot, axis)
axis = self._create_increment_one_axis(
plot,
0.5,
width,
'left',
ticks=[str(i) for i in range(width - 1, -1, -1)])
self._add_index_axis(plot, axis)
#### tweak plot attributes
self._set_title(plot)
plot.aspect_ratio = 1.
# padding [left, right, up, down]
plot.padding = [0, 0, 25, 25]
# create the colorbar, handing in the appropriate range and colormap
colormap = img_plot.color_mapper
colorbar = ColorBar(index_mapper=LinearMapper(range=colormap.range),
color_mapper=colormap,
plot=img_plot,
orientation='v',
resizable='v',
width=20,
padding=[0, 20, 0, 0])
colorbar.padding_top = plot.padding_top
colorbar.padding_bottom = plot.padding_bottom
# create a container to position the plot and the colorbar side-by-side
container = HPlotContainer(use_backbuffer=True)
container.add(plot)
container.add(colorbar)
container.bgcolor = 0xFFFFFF
self.decorate_plot(container, self.matrix)
return container
def _plot_default(self):
distr_len = len(self.data)
# PolygonPlot holding the circles of the Hinton diagram
polyplot = Plot(self.plot_data)
for idx in range(distr_len):
p = polyplot.plot(('x%d' % idx, 'y%d' % idx),
type="polygon",
face_color=get_class_color(idx),
edge_color='black')
self._set_title(polyplot)
self._remove_grid_and_axes(polyplot)
# create x axis for labels
axis = self._create_increment_one_axis(polyplot, 1., distr_len,
'bottom')
self._add_index_axis(polyplot, axis)
# create y axis for probability density
#prob_axis = self._create_probability_axis(polyplot)
#polyplot.value_axis = prob_axis
#polyplot.underlays.append(prob_axis)
# tweak some of the plot properties
range2d = DataRange2D(low=(0.5, 0.), high=(distr_len + 0.5, 1.))
polyplot.range2d = range2d
polyplot.aspect_ratio = ((range2d.x_range.high - range2d.x_range.low) /
(range2d.y_range.high - range2d.y_range.low))
polyplot.border_visible = False
polyplot.padding = [0, 0, 25, 25]
# create a container to position the plot and the colorbar side-by-side
container = HPlotContainer(use_backbuffer=True, valign='center')
container.add(polyplot)
container.bgcolor = 0xFFFFFF # light gray: 0xEEEEEE
self.decorate_plot(container, self.data)
return container
def make_component(self, padding):
cg = ContourGraph()
cg.new_plot(title='Beam Space',
xtitle='X mm',
ytitle='Y mm',
aspect_ratio=1)
g = Graph()
g.new_plot(
title='Motor Space',
xtitle='X mm',
ytitle='Power',
)
g.new_series()
self.graph = g
self.contour_graph = cg
c = HPlotContainer()
c.add(g.plotcontainer)
c.add(cg.plotcontainer)
return c
def _container_factory(self):
pc = HPlotContainer(padding=[5, 5, 5, 20])
return pc
def _container_default(self):
hp = HPlotContainer(padding=0, spacing=0)
return hp
def _plot_container_default(self):
data = self.posterior
nannotations, nclasses = data.shape
# create a plot data object
plot_data = ArrayPlotData()
plot_data.set_data("values", data)
# create the plot
plot = Plot(plot_data, origin=self.origin)
img_plot = plot.img_plot("values",
interpolation='nearest',
xbounds=(0, nclasses),
ybounds=(0, nannotations),
colormap=self._create_colormap())[0]
ndisp = 55
img_plot.y_mapper.range.high = ndisp
img_plot.y_mapper.domain_limits = ((0, nannotations))
self._set_title(plot)
plot.padding_top = 80
# create x axis for labels
label_axis = self._create_increment_one_axis(plot, 0.5, nclasses,
'top')
label_axis.title = 'classes'
self._add_index_axis(plot, label_axis)
plot.y_axis.title = 'items'
# tweak plot aspect
goal_aspect_ratio = 2.0
plot_width = (goal_aspect_ratio * self.plot_height * nclasses / ndisp)
self.plot_width = min(max(plot_width, 200), 400)
plot.aspect_ratio = self.plot_width / self.plot_height
# add colorbar
colormap = img_plot.color_mapper
colorbar = ColorBar(index_mapper=LinearMapper(range=colormap.range),
color_mapper=colormap,
plot=img_plot,
orientation='v',
resizable='',
width=15,
height=250)
colorbar.padding_top = plot.padding_top
colorbar.padding_bottom = int(self.plot_height - colorbar.height -
plot.padding_top)
colorbar.padding_left = 0
colorbar.padding_right = 30
# create a container to position the plot and the colorbar side-by-side
container = HPlotContainer(use_backbuffer=True)
container.add(plot)
container.add(colorbar)
container.bgcolor = 0xFFFFFF # light gray: 0xEEEEEE
# add pan tools
img_plot.tools.append(
PanTool(img_plot,
constrain=True,
constrain_direction="y",
speed=7.))
self.decorate_plot(container, self.posterior)
self.plot_posterior = plot
return container
def setup_graph(self, an):
container = HPlotContainer()
container_dict = {'spacing': 5, 'stack_order': 'top_to_bottom'}
sg = StackedGraph(container_dict=container_dict)
sg.plotcontainer.spacing = 5
sg.plotcontainer.stack_order = 'top_to_bottom'
isos = an.sorted_values(reverse=False)
add_sniff = True
sisos = [iso for iso in isos if iso.sniff.offset_xs.shape[0]]
for i, iso in enumerate(sisos):
sniff = iso.sniff
sg.new_plot(ytitle=iso.name,
xtitle='Time (s)',
title='Equilibration')
sg.new_series(sniff.offset_xs,
sniff.ys,
marker='circle',
type='scatter')
sg.set_y_limits(pad='0.1', plotid=i)
sg.set_x_limits(min_=0, max_=max(sniff.offset_xs) * 1.05, plotid=i)
bg = StackedRegressionGraph(container_dict=container_dict)
add_baseline = True
ig = StackedRegressionGraph(container_dict=container_dict)
iisos = [iso for iso in isos if iso.offset_xs.shape[0]]
baselines = []
for i, iso in enumerate(iisos):
if iso.baseline.offset_xs.shape[0]:
baselines.append(iso.baseline)
ig.new_plot(ytitle='{}({})'.format(iso.name, iso.detector),
xtitle='Time (s)',
title='Isotope')
ig.new_series(iso.offset_xs,
iso.ys,
display_filter_bounds=True,
filter_outliers_dict=iso.filter_outliers_dict,
color='blue',
type='scatter',
fit=iso.efit)
ig.set_regressor(iso.regressor, i)
ig.set_y_limits(pad='0.1', plotid=i)
ig.set_x_limits(min_=0, max_=max(iso.offset_xs) * 1.05, plotid=i)
ig.refresh()
# bisos = [iso for iso in isos if iso.baseline.offset_xs.shape[0]]
# plotted_baselines = []
# for i, iso in enumerate(bisos):
# baseline = iso.baseline
# if baseline.detector in plotted_baselines:
# continue
# plotted_baselines.append(baseline.detector)
# for iso in bisos:
for i, baseline in enumerate(baselines):
bg.new_plot(ytitle=baseline.detector,
xtitle='Time (s)',
title='Baseline')
bg.new_series(baseline.offset_xs,
baseline.ys,
filter_outliers_dict=baseline.filter_outliers_dict,
display_filter_bounds=True,
color='red',
type='scatter',
fit=baseline.efit)
bg.set_regressor(baseline.regressor, i)
bg.set_y_limits(pad='0.1', plotid=i)
bg.set_x_limits(pad='0.025', plotid=i)
bg.refresh()
container.add(sg.plotcontainer)
container.add(ig.plotcontainer)
container.add(bg.plotcontainer)
self.container = container
