def glue_gui():
d = data_factories.load_data(DEIMOSTABLE)
dc = DataCollection([])
dc.append(d)
# Creates glue instance
app = GlueApplication(dc)
app.setVisible(True)
# Adds data to the MosVizViewer
app.new_data_viewer(MOSVizViewer)
app.viewers[0][0].add_data_for_testing(app.data_collection[0])
return app
def glue_gui():
d = data_factories.load_data(DEIMOSTABLE)
dc = DataCollection([])
dc.append(d)
# Creates glue instance
app = GlueApplication(dc)
app.setVisible(True)
# Adds data to the MosVizViewer
app.new_data_viewer(MOSVizViewer)
app.viewers[0][0].add_data_for_testing(app.data_collection[0])
return app
def test_save_d3po(tmpdir):
from glue.app.qt.application import GlueApplication
from glue.viewers.scatter.qt import ScatterViewer
from glue.viewers.histogram.qt import HistogramViewer
output = tmpdir.join('output.html').strpath
d = Data(x=[1, 2, 3], y=[2, 3, 4], label='data')
dc = DataCollection([d])
app = GlueApplication(dc)
app.new_data_viewer(ScatterViewer, data=d)
app.new_data_viewer(HistogramViewer, data=d)
save_d3po(app, output, launch=False)
app.close()
def test_save_d3po(tmpdir):
from glue.app.qt.application import GlueApplication
from glue.viewers.scatter.qt import ScatterViewer
from glue.viewers.histogram.qt import HistogramViewer
output = tmpdir.join('output.html').strpath
d = Data(x=[1, 2, 3], y=[2, 3, 4], label='data')
dc = DataCollection([d])
app = GlueApplication(dc)
app.new_data_viewer(ScatterViewer, data=d)
app.new_data_viewer(HistogramViewer, data=d)
save_d3po(app, output, launch=False)
app.close()
def test_categorical_color_size(tmpdir):
# Create fake data
data = make_test_data()
# Add categorical component
data['categorical'] = ['a', 'b'] * 50
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
viewer_state = scatter.state
viewer_state.x_att = data.id['a']
viewer_state.y_att = data.id['b']
viewer_state.z_att = data.id['z']
layer_state = viewer_state.layers[0]
layer_state.size_mode = 'Linear'
layer_state.size_attribute = data.id['categorical']
layer_state.color_mode = 'Linear'
layer_state.cmap_attribute = data.id['categorical']
ga.close()
def glue_focus(xyz, labels):
"""
Launch a glue session with focusing results.
Parameters
----------
xyz : `~numpy.ndarray`
Matrix of (x, y, z) positions of particles
labels : `~numpy.ndarray`
Labels for particles assigned by clustering algorithm
Returns
-------
ga : `~glue.app.qt.application.GlueApplication`
Glue qt GUI application session
"""
from glue.core import DataCollection, Data
from glue.app.qt.application import GlueApplication
from glue_vispy_viewers.scatter.scatter_viewer import VispyScatterViewer
data = Data(x=xyz[:, 0],
y=xyz[:, 1],
z=xyz[:, 2],
clusters=labels,
label='data')
dc = DataCollection([data])
# create a GUI session
ga = GlueApplication(dc)
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
return ga
def test_error_bars(tmpdir):
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
scatter.viewer_size = (400, 500)
viewer_state = scatter.state
viewer_state.x_att = data.id['a']
viewer_state.y_att = data.id['f']
viewer_state.z_att = data.id['z']
layer_state = viewer_state.layers[0]
layer_state.xerr_visible = True
layer_state.xerr_attribute = data.id['b']
layer_state.yerr_visible = False
layer_state.yerr_attribute = data.id['c']
layer_state.zerr_visible = True
layer_state.zerr_attribute = data.id['d']
assert viewer_state.line_width == 1
# Check that writing a session works as expected.
session_file = tmpdir.join('test_error_bars.glu').strpath
ga.save_session(session_file)
ga.close()
# Now we can check that everything is restored correctly
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
scatter_r = ga2.viewers[0][0]
layer_state = scatter_r.state.layers[0]
assert layer_state.xerr_visible
assert layer_state.xerr_attribute.label == 'b'
assert not layer_state.yerr_visible
assert layer_state.yerr_attribute.label == 'c'
assert layer_state.zerr_visible
assert layer_state.zerr_attribute.label == 'd'
assert scatter_r.state.line_width == 1
ga2.close()
def test_n_dimensional_data():
# Create fake data
data = Data(x=np.random.random((2, 3, 4, 5)),
y=np.random.random((2, 3, 4, 5)),
z=np.random.random((2, 3, 4, 5)))
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
layer_artist = scatter.layers[0]
style_widget = scatter._view.layout_style_widgets[layer_artist]
style_widget.size_mode = 'Linear'
style_widget.size_attribute = data.id['x']
style_widget.color_mode = 'Linear'
style_widget.cmap_attribute = data.id['y']
style_widget.cmap = cm.BuGn
def test_session_round_trip(self, tmpdir):
self.init_subset()
ga = GlueApplication(self.data_collection)
ga.show()
viewer = ga.new_data_viewer(self.viewer_cls)
viewer.add_data(self.data)
session_file = tmpdir.join('test_session_round_trip.glu').strpath
ga.save_session(session_file)
ga.close()
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
viewer2 = ga2.viewers[0][0]
data2 = ga2.data_collection[0]
assert viewer2.layers[0].layer is data2
assert viewer2.layers[1].layer is data2.subsets[0]
ga2.close()
def test_session_round_trip(self, tmpdir):
self.init_subset()
ga = GlueApplication(self.data_collection)
ga.show()
viewer = ga.new_data_viewer(self.viewer_cls)
viewer.add_data(self.data)
session_file = tmpdir.join('test_session_round_trip.glu').strpath
ga.save_session(session_file)
ga.close()
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
viewer2 = ga2.viewers[0][0]
data2 = ga2.data_collection[0]
assert viewer2.layers[0].layer is data2
assert viewer2.layers[1].layer is data2.subsets[0]
ga2.close()
def test_n_dimensional_data():
# Create fake data
data = Data(x=np.random.random((2,3,4,5)),
y=np.random.random((2,3,4,5)),
z=np.random.random((2,3,4,5)))
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
layer_artist = scatter.layers[0]
style_widget = scatter._view.layout_style_widgets[layer_artist]
style_widget.size_mode = 'Linear'
style_widget.size_attribute = data.id['x']
style_widget.color_mode = 'Linear'
style_widget.cmap_attribute = data.id['y']
style_widget.cmap = cm.BuGn
def glue_focus(xyz, labels):
"""
Launch a glue session with focusing results.
Parameters
----------
xyz : `~numpy.ndarray`
Matrix of (x, y, z) positions of particles
labels : `~numpy.ndarray`
Labels for particles assigned by clustering algorithm
Returns
-------
ga : `~glue.app.qt.application.GlueApplication`
Glue qt GUI application session
"""
from glue.core import DataCollection, Data
from glue.app.qt.application import GlueApplication
from glue_vispy_viewers.scatter.scatter_viewer import VispyScatterViewer
data = Data(x=xyz[:, 0], y=xyz[:, 1], z=xyz[:, 2],
clusters=labels, label='data')
dc = DataCollection([data])
# create a GUI session
ga = GlueApplication(dc)
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
return ga
def test_layer_visibility_clip():
# Regression test for a bug that meant that updating the clip data setting
# caused a layer to become visible even if it shouldn't be
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
volume = ga.new_data_viewer(VispyVolumeViewer)
volume.add_data(data)
assert volume.layers[0].visible
assert volume.layers[0]._multivol.enabled[0]
volume.layers[0].visible = False
assert not volume.layers[0].visible
assert not volume.layers[0]._multivol.enabled[0]
volume.state.clip_data = True
assert not volume.layers[0].visible
assert not volume.layers[0]._multivol.enabled[0]
ga.close()
class TestExportPython(BaseTestExportPython):
def setup_method(self, method):
with NumpyRNGContext(12345):
self.data = Data(cube=np.random.random((30, 50, 20)))
self.data_collection = DataCollection([self.data])
self.app = GlueApplication(self.data_collection)
self.viewer = self.app.new_data_viewer(ImageViewer)
self.viewer.add_data(self.data)
# FIXME: On some platforms, using an integer label size
# causes some of the labels to be non-deterministically
# shifted by one pixel, so we pick a non-round font size
# to avoid this.
self.viewer.state.x_ticklabel_size = 8.21334111
self.viewer.state.y_ticklabel_size = 8.21334111
def teardown_method(self, method):
self.viewer.close()
self.viewer = None
self.app.close()
self.app = None
def test_simple(self, tmpdir):
self.assert_same(tmpdir)
def test_simple_att(self, tmpdir):
self.viewer.state.x_att = self.data.pixel_component_ids[1]
self.viewer.state.y_att = self.data.pixel_component_ids[0]
self.assert_same(tmpdir)
def test_simple_visual(self, tmpdir):
self.viewer.state.layers[0].cmap = plt.cm.RdBu
self.viewer.state.layers[0].v_min = 0.2
self.viewer.state.layers[0].v_max = 0.8
self.viewer.state.layers[0].stretch = 'sqrt'
self.viewer.state.layers[0].stretch = 'sqrt'
self.viewer.state.layers[0].contrast = 0.9
self.viewer.state.layers[0].bias = 0.6
self.assert_same(tmpdir)
def test_slice(self, tmpdir):
self.viewer.state.x_att = self.data.pixel_component_ids[1]
self.viewer.state.y_att = self.data.pixel_component_ids[0]
self.viewer.state.slices = (2, 3, 4)
self.assert_same(tmpdir)
def test_aspect(self, tmpdir):
self.viewer.state.aspect = 'auto'
self.assert_same(tmpdir)
def test_subset(self, tmpdir):
self.data_collection.new_subset_group('mysubset',
self.data.id['cube'] > 0.5)
self.assert_same(tmpdir)
def test_subset_slice(self, tmpdir):
self.data_collection.new_subset_group('mysubset',
self.data.id['cube'] > 0.5)
self.test_slice(tmpdir)
def setup_method(self, method):
with NumpyRNGContext(12345):
self.data = Data(cube=np.random.random((30, 50, 20)))
self.data_collection = DataCollection([self.data])
ga = GlueApplication(self.data_collection)
self.viewer = ga.new_data_viewer(ImageViewer)
self.viewer.add_data(self.data)
class TestExportPython(BaseTestExportPython):
def setup_method(self, method):
with NumpyRNGContext(12345):
self.data = Data(**dict(
(name, random_with_nan(100, nan_index=idx + 1))
for idx, name in enumerate('abcdefgh')))
self.data_collection = DataCollection([self.data])
self.app = GlueApplication(self.data_collection)
self.viewer = self.app.new_data_viewer(HistogramViewer)
self.viewer.add_data(self.data)
self.viewer.state.x_att = self.data.id['a']
def teardown_method(self, method):
self.viewer.close()
self.viewer = None
self.app.close()
self.app = None
def test_simple(self, tmpdir):
self.assert_same(tmpdir)
def test_simple_visual(self, tmpdir):
self.viewer.state.layers[0].color = 'blue'
self.viewer.state.layers[0].alpha = 0.5
self.assert_same(tmpdir)
def test_simple_visual_legend(self, tmpdir):
self.viewer.state.legend.visible = True
self.viewer.state.layers[0].color = 'blue'
self.viewer.state.layers[0].alpha = 0.5
self.assert_same(tmpdir)
def test_cumulative(self, tmpdir):
self.viewer.state.cumulative = True
self.assert_same(tmpdir)
def test_normalize(self, tmpdir):
self.viewer.state.normalize = True
self.assert_same(tmpdir)
def test_subset(self, tmpdir):
self.data_collection.new_subset_group('mysubset',
self.data.id['a'] > 0.5)
self.assert_same(tmpdir)
def test_subset_legend(self, tmpdir):
self.viewer.state.legend.visible = True
self.data_collection.new_subset_group('mysubset',
self.data.id['a'] > 0.5)
self.assert_same(tmpdir)
def test_empty(self, tmpdir):
self.viewer.state.x_min = 10
self.viewer.state.x_max = 11
self.viewer.state.hist_x_min = 10
self.viewer.state.hist_x_max = 11
self.assert_same(tmpdir)
class TestExportPython(BaseTestExportPython):
def setup_method(self, method):
with NumpyRNGContext(12345):
self.data = Data(cube=np.random.random((30, 50, 20)))
self.data_collection = DataCollection([self.data])
self.app = GlueApplication(self.data_collection)
self.viewer = self.app.new_data_viewer(ImageViewer)
self.viewer.add_data(self.data)
# FIXME: On some platforms, using an integer label size
# causes some of the labels to be non-deterministically
# shifted by one pixel, so we pick a non-round font size
# to avoid this.
self.viewer.state.x_ticklabel_size = 8.21334111
self.viewer.state.y_ticklabel_size = 8.21334111
def teardown_method(self, method):
self.viewer.close()
self.viewer = None
self.app.close()
self.app = None
def test_simple(self, tmpdir):
self.assert_same(tmpdir)
def test_simple_att(self, tmpdir):
self.viewer.state.x_att = self.data.pixel_component_ids[1]
self.viewer.state.y_att = self.data.pixel_component_ids[0]
self.assert_same(tmpdir)
def test_simple_visual(self, tmpdir):
self.viewer.state.layers[0].cmap = plt.cm.RdBu
self.viewer.state.layers[0].v_min = 0.2
self.viewer.state.layers[0].v_max = 0.8
self.viewer.state.layers[0].stretch = 'sqrt'
self.viewer.state.layers[0].stretch = 'sqrt'
self.viewer.state.layers[0].contrast = 0.9
self.viewer.state.layers[0].bias = 0.6
self.assert_same(tmpdir)
def test_slice(self, tmpdir):
self.viewer.state.x_att = self.data.pixel_component_ids[1]
self.viewer.state.y_att = self.data.pixel_component_ids[0]
self.viewer.state.slices = (2, 3, 4)
self.assert_same(tmpdir)
def test_aspect(self, tmpdir):
self.viewer.state.aspect = 'auto'
self.assert_same(tmpdir)
def test_subset(self, tmpdir):
self.data_collection.new_subset_group('mysubset', self.data.id['cube'] > 0.5)
self.assert_same(tmpdir)
def test_subset_slice(self, tmpdir):
self.data_collection.new_subset_group('mysubset', self.data.id['cube'] > 0.5)
self.test_slice(tmpdir)
def setup_method(self, method):
with NumpyRNGContext(12345):
self.data = Data(**dict((name, random_with_nan(100, nan_index=idx + 1)) for idx, name in enumerate('abcdefgh')))
self.data_collection = DataCollection([self.data])
ga = GlueApplication(self.data_collection)
self.viewer = ga.new_data_viewer(HistogramViewer)
self.viewer.add_data(self.data)
self.viewer.state.x_att = self.data.id['a']
def gs9(data, vmin, vmax, percentile, stretch, cmap):
load_plugins()
if cmap is not None:
for cmap_name, cmap_obj in colormaps.members:
if cmap == cmap_name:
cmap = cmap_obj
break
else:
colormaps.add(cmap, cm.get_cmap(cmap))
cmap = cm.get_cmap(cmap)
ga = GlueApplication()
image = ga.new_data_viewer(ImageViewer)
datasets = []
for filename in data:
datasets.append(load_data(filename))
# Add datasets all in one go to do all linking in one pass
ga.add_datasets(datasets)
for d in ga.data_collection:
image.add_data(d)
for layer_state in image.state.layers:
if vmin is not None:
layer_state.v_min = vmin
if vmax is not None:
layer_state.v_min = vmax
if percentile is not None:
choices = ImageLayerState.percentile.get_choices(layer_state)
for choice in choices:
if percentile == choice:
percentile = choice
break
layer_state.percentile = percentile
if stretch is not None:
layer_state.stretch = stretch
if cmap is not None:
layer_state.cmap = cmap
image.viewer_size = (600, 600)
ga.gather_current_tab()
ga.start(maximized=False, size=(1024, 768))
def test_remove_subset_group():
# Regression test for a bug that meant that removing a subset caused an
# error when multiple viewers were present.
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
volume1 = ga.new_data_viewer(VispyVolumeViewer)
volume1.add_data(data)
volume2 = ga.new_data_viewer(VispyVolumeViewer)
volume2.add_data(data)
dc.new_subset_group(subset_state=data.id['a'] > 0, label='Subset 1')
dc.remove_subset_group(dc.subset_groups[0])
ga.close()
def test_add_data_with_incompatible_subsets(tmpdir):
data1 = Data(label="Data 1", x=np.arange(24).reshape((4, 3, 2)))
data2 = Data(label="Data 2", y=np.arange(24).reshape((4, 3, 2)))
dc = DataCollection([data1, data2])
ga = GlueApplication(dc)
ga.show()
# Subset is defined in terms of data2, so it's an incompatible subset
# for data1
dc.new_subset_group(subset_state=data2.id['y'] > 0.5, label='subset 1')
volume = ga.new_data_viewer(VispyVolumeViewer)
volume.add_data(data1)
ga.close()
def test_array_shape(tmpdir):
# Create irregularly shaped data cube
data = make_test_data((3841, 48, 46))
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
volume = ga.new_data_viewer(VispyVolumeViewer)
volume.add_data(data)
viewer_state = volume.state
# Get layer artist style editor
layer_state = viewer_state.layers[0]
layer_state.attribute = data.id['b']
class TestExportPython(BaseTestExportPython):
def setup_method(self, method):
with NumpyRNGContext(12345):
self.data = Data(**dict((name, random_with_nan(100, nan_index=idx + 1)) for idx, name in enumerate('abcdefgh')))
self.data_collection = DataCollection([self.data])
self.app = GlueApplication(self.data_collection)
self.viewer = self.app.new_data_viewer(HistogramViewer)
self.viewer.add_data(self.data)
self.viewer.state.x_att = self.data.id['a']
def teardown_method(self, method):
self.viewer.close()
self.viewer = None
self.app.close()
self.app = None
def test_simple(self, tmpdir):
self.assert_same(tmpdir)
def test_simple_visual(self, tmpdir):
self.viewer.state.layers[0].color = 'blue'
self.viewer.state.layers[0].alpha = 0.5
self.assert_same(tmpdir)
def test_cumulative(self, tmpdir):
self.viewer.state.cumulative = True
self.assert_same(tmpdir)
def test_normalize(self, tmpdir):
self.viewer.state.normalize = True
self.assert_same(tmpdir)
def test_subset(self, tmpdir):
self.data_collection.new_subset_group('mysubset', self.data.id['a'] > 0.5)
self.assert_same(tmpdir)
def test_empty(self, tmpdir):
self.viewer.state.x_min = 10
self.viewer.state.x_max = 11
self.viewer.state.hist_x_min = 10
self.viewer.state.hist_x_max = 11
self.assert_same(tmpdir)
def test_add_data_with_incompatible_subsets(tmpdir):
# Regression test for a bug that an error when adding a dataset with an
# incompatible subset to a 3D scatter viewer.
data1 = Data(label="Data 1", x=[1, 2, 3])
data2 = Data(label="Data 2", y=[4, 5, 6])
dc = DataCollection([data1, data2])
ga = GlueApplication(dc)
ga.show()
# Subset is defined in terms of data2, so it's an incompatible subset
# for data1
dc.new_subset_group(subset_state=data2.id['y'] > 0.5, label='subset 1')
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data1)
ga.close()
def test_scatter_remove_layer_artists(tmpdir):
# Regression test for a bug that caused layer states to not be removed
# when the matching layer artist was removed. This then caused issues when
# loading session files.
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
dc.new_subset_group(subset_state=data.id['x'] > 0.5, label='subset 1')
scatter.add_subset(data.subsets[0])
assert len(scatter.layers) == 2
assert len(scatter.state.layers) == 2
dc.remove_subset_group(dc.subset_groups[0])
assert len(scatter.layers) == 1
assert len(scatter.state.layers) == 1
# Check that writing a session works as expected.
session_file = tmpdir.join('test_scatter_viewer.glu').strpath
ga.save_session(session_file)
ga.close()
# Now we can check that everything is restored correctly
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
ga2.close()
def test_not_all_points_inside_limits(tmpdir):
# Regression test for a bug that occurred when not all points were inside
# the visible limits and the color or size mode is linear.
data1 = Data(label="Data", x=[1, 2, 3])
dc = DataCollection([data1])
ga = GlueApplication(dc)
ga.show()
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data1)
scatter.state.layers[0].color_mode = 'Linear'
scatter.state.layers[0].size_mode = 'Linear'
scatter.state.x_min = -0.1
scatter.state.x_max = 2.1
ga.close()
def test_scatter_remove_layer_artists(tmpdir):
# Regression test for a bug that caused layer states to not be removed
# when the matching layer artist was removed. This then caused issues when
# loading session files.
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
dc.new_subset_group(subset_state=data.id['x'] > 0.5, label='subset 1')
scatter.add_subset(data.subsets[0])
assert len(scatter.layers) == 2
assert len(scatter.state.layers) == 2
dc.remove_subset_group(dc.subset_groups[0])
assert len(scatter.layers) == 1
assert len(scatter.state.layers) == 1
# Check that writing a session works as expected.
session_file = tmpdir.join('test_scatter_viewer.glu').strpath
ga.save_session(session_file)
ga.close()
# Now we can check that everything is restored correctly
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
def test_layer_visibility_after_session(tmpdir):
# Regression test for a bug that caused layers to be incorrectly visible
# after saving and loading a session file.
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
viewer_state = scatter.state
layer_state = viewer_state.layers[0]
layer_state.visible = False
session_file = tmpdir.join('test_layer_visibility.glu').strpath
ga.save_session(session_file)
ga.close()
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
scatter_r = ga2.viewers[0][0]
viewer_state = scatter_r.state
layer_state = viewer_state.layers[0]
assert not layer_state.visible
# Make sure the multiscat layer is also not visible (this was where the bug was)
layer_artist = scatter_r.layers[0]
assert not layer_artist._multiscat.layers[layer_artist.id]['visible']
ga2.close()
def test_scatter_on_volume(tmpdir):
data1 = Data(a=np.arange(60).reshape((3, 4, 5)))
data2 = Data(x=[1, 2, 3], y=[2, 3, 4], z=[3, 4, 5])
data3 = Data(b=np.arange(60).reshape((3, 4, 5)))
dc = DataCollection([data1, data2, data3])
dc.add_link(LinkSame(data1.pixel_component_ids[2], data2.id['x']))
dc.add_link(LinkSame(data1.pixel_component_ids[1], data2.id['y']))
dc.add_link(LinkSame(data1.pixel_component_ids[0], data2.id['z']))
ga = GlueApplication(dc)
ga.show()
volume = ga.new_data_viewer(VispyVolumeViewer)
volume.add_data(data1)
volume.add_data(data2)
volume.add_data(data3)
# Check that writing a session works as expected.
session_file = tmpdir.join('test_scatter_on_volume.glu').strpath
ga.save_session(session_file)
ga.close()
# Now we can check that everything is restored correctly
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
volume_r = ga2.viewers[0][0]
assert len(volume_r.layers) == 3
ga2.close()
class TestExportPython(BaseTestExportPython):
def setup_method(self, method):
with NumpyRNGContext(12345):
self.data = Data(**dict((name, random_with_nan(100, nan_index=idx + 1)) for idx, name in enumerate('abcdefgh')))
self.data['angle'] = np.random.uniform(0, 360, 100)
self.data_collection = DataCollection([self.data])
self.app = GlueApplication(self.data_collection)
self.viewer = self.app.new_data_viewer(ScatterViewer)
self.viewer.add_data(self.data)
self.viewer.state.x_att = self.data.id['a']
self.viewer.state.y_att = self.data.id['b']
def teardown_method(self, method):
self.viewer.close()
self.viewer = None
self.app.close()
self.app = None
def test_simple(self, tmpdir):
self.assert_same(tmpdir)
def test_simple_nofill(self, tmpdir):
self.viewer.state.layers[0].fill = False
self.viewer.state.layers[0].size_scaling = 10
self.assert_same(tmpdir)
def test_simple_visual(self, tmpdir):
self.viewer.state.layers[0].color = 'blue'
self.viewer.state.layers[0].markersize = 30
self.viewer.state.layers[0].alpha = 0.5
self.assert_same(tmpdir)
def test_cmap_mode(self, tmpdir):
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_att = self.data.id['c']
self.viewer.state.layers[0].cmap = plt.cm.BuGn
self.viewer.state.layers[0].cmap_vmin = 0.2
self.viewer.state.layers[0].cmap_vmax = 0.7
self.viewer.state.layers[0].alpha = 0.8
self.assert_same(tmpdir)
def test_cmap_mode_nofill(self, tmpdir):
self.viewer.state.layers[0].fill = False
self.test_cmap_mode(tmpdir)
def test_size_mode(self, tmpdir):
self.viewer.state.layers[0].size_mode = 'Linear'
self.viewer.state.layers[0].size_att = self.data.id['d']
self.viewer.state.layers[0].size_vmin = 0.1
self.viewer.state.layers[0].size_vmax = 0.8
self.viewer.state.layers[0].size_scaling = 0.4
self.viewer.state.layers[0].alpha = 0.7
self.assert_same(tmpdir)
def test_size_mode_nofill(self, tmpdir):
self.viewer.state.layers[0].fill = False
self.test_size_mode(tmpdir)
def test_line(self, tmpdir):
self.viewer.state.layers[0].line_visible = True
self.viewer.state.layers[0].linewidth = 10
self.viewer.state.layers[0].linestype = 'dashed'
self.viewer.state.layers[0].color = 'orange'
self.viewer.state.layers[0].alpha = 0.7
self.viewer.state.layers[0].markersize = 100
self.assert_same(tmpdir, tol=5)
def test_line_cmap(self, tmpdir):
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_vmin = 0.2
self.viewer.state.layers[0].cmap_vmax = 0.7
self.viewer.state.layers[0].cmap = plt.cm.BuGn
self.test_line(tmpdir)
def test_errorbarx(self, tmpdir):
self.viewer.state.layers[0].xerr_visible = True
self.viewer.state.layers[0].xerr_att = self.data.id['e']
self.viewer.state.layers[0].color = 'purple'
self.viewer.state.layers[0].alpha = 0.5
self.assert_same(tmpdir)
def test_errorbary(self, tmpdir):
self.viewer.state.layers[0].yerr_visible = True
self.viewer.state.layers[0].yerr_att = self.data.id['f']
self.viewer.state.layers[0].color = 'purple'
self.viewer.state.layers[0].alpha = 0.5
self.assert_same(tmpdir)
def test_errorbarxy(self, tmpdir):
self.viewer.state.layers[0].xerr_visible = True
self.viewer.state.layers[0].xerr_att = self.data.id['e']
self.viewer.state.layers[0].yerr_visible = True
self.viewer.state.layers[0].yerr_att = self.data.id['f']
self.viewer.state.layers[0].color = 'purple'
self.viewer.state.layers[0].alpha = 0.5
self.assert_same(tmpdir)
def test_errorbarxy_cmap(self, tmpdir):
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_vmin = 0.2
self.viewer.state.layers[0].cmap_vmax = 0.7
self.viewer.state.layers[0].cmap = plt.cm.BuGn
self.test_errorbarxy(tmpdir)
def _vector_common(self, tmpdir):
self.viewer.state.layers[0].vector_visible = True
self.viewer.state.layers[0].vy_att = self.data.id['g']
self.viewer.state.layers[0].vector_arrowhead = True
self.viewer.state.layers[0].vector_origin = 'tail'
self.viewer.state.layers[0].vector_scaling = 1.5
self.viewer.state.layers[0].color = 'teal'
self.viewer.state.layers[0].alpha = 0.9
self.assert_same(tmpdir)
def test_vector_cartesian(self, tmpdir):
self.viewer.state.layers[0].vector_mode = 'Cartesian'
self.viewer.state.layers[0].vx_att = self.data.id['h']
self._vector_common(tmpdir)
def test_vector_polar(self, tmpdir):
self.viewer.state.layers[0].vector_mode = 'Polar'
self.viewer.state.layers[0].vx_att = self.data.id['angle']
self._vector_common(tmpdir)
def test_vector_cartesian_cmap(self, tmpdir):
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_vmin = 0.2
self.viewer.state.layers[0].cmap_vmax = 0.7
self.viewer.state.layers[0].cmap = plt.cm.BuGn
self.test_vector_cartesian(tmpdir)
def test_vector_cartesian_xflip(self, tmpdir):
# Regression test for a bug that caused vectors to not be flipped
self.viewer.state.layers[0].vector_mode = 'Cartesian'
self.viewer.state.layers[0].vx_att = self.data.id['h']
self.viewer.state.flip_x()
self._vector_common(tmpdir)
def test_subset(self, tmpdir):
self.data_collection.new_subset_group('mysubset', self.data.id['a'] > 0.5)
self.assert_same(tmpdir)
def test_density_map_with_subset(self, tmpdir):
self.viewer.state.dpi = 2
self.viewer.state.layers[0].density_map = True
self.data_collection.new_subset_group('mysubset', self.data.id['a'] > 0.5)
self.assert_same(tmpdir)
def test_density_map_cmap_with_subset(self, tmpdir):
self.viewer.state.dpi = 2
self.viewer.state.layers[0].density_map = True
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_vmin = 0.2
self.viewer.state.layers[0].cmap_vmax = 0.7
self.viewer.state.layers[0].cmap = plt.cm.BuGn
self.data_collection.new_subset_group('mysubset', self.data.id['a'] > 0.5)
self.assert_same(tmpdir)
def test_cmap_mode_change(self, tmpdir):
# Regression test for a bug that caused scatter markers to not change
# color when going from Linear to Fixed mode
self.viewer.state.layers[0].size_mode = 'Linear'
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_mode = 'Fixed'
self.assert_same(tmpdir)
def test_scatter_viewer(tmpdir):
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
scatter.viewer_size = (400, 500)
viewer_state = scatter.state
viewer_state.x_att = data.id['a']
viewer_state.y_att = data.id['f']
viewer_state.z_att = data.id['z']
viewer_state.x_stretch = 0.5
viewer_state.y_stretch = 1.0
viewer_state.z_stretch = 2.0
viewer_state.x_min = -0.1
viewer_state.x_max = 1.1
viewer_state.y_min = 0.1
viewer_state.y_max = 0.9
viewer_state.z_min = 0.2
viewer_state.z_max = 0.8
viewer_state.visible_axes = False
# Get layer artist style editor
layer_state = viewer_state.layers[0]
layer_state.size_attribute = data.id['c']
layer_state.size_mode = 'Linear'
layer_state.size_scaling = 2
layer_state.size_vmin = 0.2
layer_state.size_vmax = 0.8
layer_state.cmap_attribute = data.id['y']
layer_state.color_mode = 'Linear'
layer_state.cmap_vmin = 0.1
layer_state.cmap_vmax = 0.9
layer_state.cmap = cm.BuGn
# Check that writing a session works as expected.
session_file = tmpdir.join('test_scatter_viewer.glu').strpath
ga.save_session(session_file)
ga.close()
# Now we can check that everything is restored correctly
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
scatter_r = ga2.viewers[0][0]
assert scatter_r.viewer_size == (400, 500)
viewer_state = scatter_r.state
assert viewer_state.x_att.label == 'a'
assert viewer_state.y_att.label == 'f'
assert viewer_state.z_att.label == 'z'
np.testing.assert_allclose(viewer_state.x_stretch, 0.5, rtol=1e-3)
np.testing.assert_allclose(viewer_state.y_stretch, 1.0, rtol=1e-3)
np.testing.assert_allclose(viewer_state.z_stretch, 2.0, rtol=1e-3)
assert viewer_state.x_min == -0.1
assert viewer_state.x_max == 1.1
assert viewer_state.y_min == 0.1
assert viewer_state.y_max == 0.9
assert viewer_state.z_min == 0.2
assert viewer_state.z_max == 0.8
assert not viewer_state.visible_axes
layer_state = viewer_state.layers[0]
assert layer_state.size_mode == 'Linear'
assert layer_state.size_attribute.label == 'c'
np.testing.assert_allclose(layer_state.size_scaling, 2, rtol=0.01)
assert layer_state.size_vmin == 0.2
assert layer_state.size_vmax == 0.8
assert layer_state.color_mode == 'Linear'
assert layer_state.cmap_attribute.label == 'y'
assert layer_state.cmap_vmin == 0.1
assert layer_state.cmap_vmax == 0.9
assert layer_state.cmap is cm.BuGn
class TestExportPython(BaseTestExportPython):
def setup_method(self, method):
self.data = Data(label='d1')
self.data.coords = SimpleCoordinates()
with NumpyRNGContext(12345):
self.data['x'] = random_with_nan(48, 5).reshape((6, 4, 2))
self.data['y'] = random_with_nan(48, 12).reshape((6, 4, 2))
self.data_collection = DataCollection([self.data])
self.app = GlueApplication(self.data_collection)
self.viewer = self.app.new_data_viewer(ProfileViewer)
self.viewer.add_data(self.data)
def teardown_method(self, method):
self.viewer.close()
self.viewer = None
self.app.close()
self.app = None
def test_simple(self, tmpdir):
self.assert_same(tmpdir)
def test_color(self, tmpdir):
self.viewer.state.layers[0].color = '#ac0567'
self.assert_same(tmpdir)
def test_linewidth(self, tmpdir):
self.viewer.state.layers[0].linewidth = 7.25
self.assert_same(tmpdir)
def test_max(self, tmpdir):
self.viewer.state.function = 'maximum'
self.assert_same(tmpdir)
def test_min(self, tmpdir):
self.viewer.state.function = 'minimum'
self.assert_same(tmpdir)
def test_mean(self, tmpdir):
self.viewer.state.function = 'mean'
self.assert_same(tmpdir)
def test_median(self, tmpdir):
self.viewer.state.function = 'median'
self.assert_same(tmpdir)
def test_sum(self, tmpdir):
self.viewer.state.function = 'sum'
self.assert_same(tmpdir)
def test_normalization(self, tmpdir):
self.viewer.state.normalize = True
self.assert_same(tmpdir)
def test_subset(self, tmpdir):
self.viewer.state.function = 'mean'
self.data_collection.new_subset_group('mysubset',
self.data.id['x'] > 0.25)
self.assert_same(tmpdir)
def test_xatt(self, tmpdir):
self.viewer.x_att = self.data.pixel_component_ids[1]
self.assert_same(tmpdir)
def test_profile_att(self, tmpdir):
self.viewer.layers[0].state.attribute = self.data.id['y']
self.assert_same(tmpdir)
def test_volume_viewer(tmpdir):
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
volume = ga.new_data_viewer(VispyIsosurfaceViewer)
volume.add_data(data)
volume.viewer_size = (400, 500)
viewer_state = volume.state
viewer_state.x_stretch = 0.5
viewer_state.y_stretch = 1.0
viewer_state.z_stretch = 2.0
viewer_state.x_min = -0.1
viewer_state.x_max = 10.1
viewer_state.y_min = 0.1
viewer_state.y_max = 10.9
viewer_state.z_min = 0.2
viewer_state.z_max = 10.8
viewer_state.visible_axes = False
# Get layer artist style editor
layer_state = viewer_state.layers[0]
layer_state.attribute = data.id['b']
layer_state.level_low = 0.1
layer_state.level_high = 0.9
# layer_state.alpha = 0.8
# test set label from slider
layer_state.step = 5
assert layer_state.step == 5.0
# Check that writing a session works as expected.
session_file = tmpdir.join('test_volume_viewer.glu').strpath
ga.save_session(session_file)
ga.close()
# Now we can check that everything is restored correctly
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
volume_r = ga2.viewers[0][0]
assert volume_r.viewer_size == (400, 500)
viewer_state = volume_r.state
np.testing.assert_allclose(viewer_state.x_stretch, 0.5, rtol=1e-3)
np.testing.assert_allclose(viewer_state.y_stretch, 1.0, rtol=1e-3)
np.testing.assert_allclose(viewer_state.z_stretch, 2.0, rtol=1e-3)
assert viewer_state.x_min == -0.1
assert viewer_state.x_max == 10.1
assert viewer_state.y_min == 0.1
assert viewer_state.y_max == 10.9
assert viewer_state.z_min == 0.2
assert viewer_state.z_max == 10.8
assert not viewer_state.visible_axes
layer_artist = viewer_state.layers[0]
assert layer_artist.attribute.label == 'b'
assert layer_artist.level_low == 0.1
assert layer_artist.level_high == 0.9
# assert layer_artist.alpha == 0.8
assert layer_artist.step == 5
ga2.close()
# image_viewer = app.new_data_viewer(ImageViewer)
# image_viewer.add_data(image)
# image_viewer.add_data(catalog)
# image_viewer.viewer_size = (500, 500)
# image_viewer.state.layers[0].percentile = 99
view_names = ('xy', 'xz', 'zy', 'tz')
sizes = ((500, 500), (500, 250), (250, 500), (500, 250))
posns = ((0, 500), (0, 250), (500, 500), (0, 0))
thevars = (('lon', 'lat'), ('lon', 'alt(m)'), ('alt(m)', 'lat'),
('time (UT sec of day)', 'alt(m)'))
views = {}
for view, size, posn, axvars in zip(view_names, sizes, posns, thevars):
new_viewer = app.new_data_viewer(ScatterViewer)
new_viewer.add_data(lma)
new_viewer.viewer_size = size
new_viewer.position = posn
new_viewer.state.x_att = lma.id[axvars[0]]
new_viewer.state.y_att = lma.id[axvars[1]]
views[view] = new_viewer
# Create six-panel viewer manually, then this links limits
# viewer1 = application.viewers[0][0]
# viewer2 = application.viewers[0][1]
# Do this for all pairs, limits
# keep_in_sync(viewer1.state, 'x_min', viewer2.state, 'x_min')
def link_x(view1, view2):
def test_scatter_viewer(tmpdir):
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
scatter.viewer_size = (400, 500)
options = scatter.options_widget()
options.x_att = data.id['a']
options.y_att = data.id['f']
options.z_att = data.id['z']
options.x_stretch = 0.5
options.y_stretch = 1.0
options.z_stretch = 2.0
options.x_min = -0.1
options.x_max = 1.1
options.y_min = 0.1
options.y_max = 0.9
options.z_min = 0.2
options.z_max = 0.8
options.visible_box = False
# Get layer artist style editor
layer_artist = scatter.layers[0]
style_widget = scatter._view.layout_style_widgets[layer_artist]
style_widget.size_mode = 'Linear'
style_widget.size_attribute = data.id['c']
style_widget.size_scaling = 2
style_widget.size_vmin = 0.2
style_widget.size_vmax = 0.8
style_widget.color_mode = 'Linear'
style_widget.cmap_attribute = data.id['y']
style_widget.cmap_vmin = 0.1
style_widget.cmap_vmax = 0.9
style_widget.cmap = cm.BuGn
# Check that writing a session works as expected. However, this only
# works with Glue 0.8 and above, so we skip this test if we are using an
# older version.
if GLUE_LT_08:
return
session_file = tmpdir.join('test_scatter_viewer.glu').strpath
ga.save_session(session_file)
ga.close()
# Now we can check that everything is restored correctly
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
scatter_r = ga2.viewers[0][0]
assert scatter_r.viewer_size == (400, 500)
options = scatter_r.options_widget()
assert options.x_att.label == 'a'
assert options.y_att.label == 'f'
assert options.z_att.label == 'z'
assert options.x_stretch == 0.5
assert options.y_stretch == 1.0
assert options.z_stretch == 2.0
assert options.x_min == -0.1
assert options.x_max == 1.1
assert options.y_min == 0.1
assert options.y_max == 0.9
assert options.z_min == 0.2
assert options.z_max == 0.8
assert not options.visible_box
layer_artist = scatter_r.layers[0]
assert layer_artist.size_mode == 'linear'
assert layer_artist.size_attribute.label == 'c'
np.testing.assert_allclose(layer_artist.size_scaling, 2, rtol=0.01)
assert layer_artist.size_vmin == 0.2
assert layer_artist.size_vmax == 0.8
assert layer_artist.color_mode == 'linear'
assert layer_artist.cmap_attribute.label == 'y'
assert layer_artist.cmap_vmin == 0.1
assert layer_artist.cmap_vmax == 0.9
assert layer_artist.cmap is cm.BuGn
class TestExportPython(BaseTestExportPython):
def setup_method(self, method):
with NumpyRNGContext(12345):
self.data = Data(**dict(
(name, random_with_nan(100, nan_index=idx + 1))
for idx, name in enumerate('abcdefgh')))
self.data['angle'] = np.random.uniform(0, 360, 100)
self.data_collection = DataCollection([self.data])
self.app = GlueApplication(self.data_collection)
self.viewer = self.app.new_data_viewer(ScatterViewer)
self.viewer.add_data(self.data)
self.viewer.state.x_att = self.data.id['a']
self.viewer.state.y_att = self.data.id['b']
def teardown_method(self, method):
self.viewer.close()
self.viewer = None
self.app.close()
self.app = None
def test_simple(self, tmpdir):
self.assert_same(tmpdir)
def test_simple_nofill(self, tmpdir):
self.viewer.state.layers[0].fill = False
self.viewer.state.layers[0].size_scaling = 10
self.assert_same(tmpdir)
def test_simple_visual(self, tmpdir):
self.viewer.state.layers[0].color = 'blue'
self.viewer.state.layers[0].markersize = 30
self.viewer.state.layers[0].alpha = 0.5
self.assert_same(tmpdir)
def test_cmap_mode(self, tmpdir):
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_att = self.data.id['c']
self.viewer.state.layers[0].cmap = plt.cm.BuGn
self.viewer.state.layers[0].cmap_vmin = 0.2
self.viewer.state.layers[0].cmap_vmax = 0.7
self.viewer.state.layers[0].alpha = 0.8
self.assert_same(tmpdir)
def test_cmap_mode_nofill(self, tmpdir):
self.viewer.state.layers[0].fill = False
self.test_cmap_mode(tmpdir)
def test_size_mode(self, tmpdir):
self.viewer.state.layers[0].size_mode = 'Linear'
self.viewer.state.layers[0].size_att = self.data.id['d']
self.viewer.state.layers[0].size_vmin = 0.1
self.viewer.state.layers[0].size_vmax = 0.8
self.viewer.state.layers[0].size_scaling = 0.4
self.viewer.state.layers[0].alpha = 0.7
self.assert_same(tmpdir)
def test_size_mode_nofill(self, tmpdir):
self.viewer.state.layers[0].fill = False
self.test_size_mode(tmpdir)
def test_line(self, tmpdir):
self.viewer.state.layers[0].line_visible = True
self.viewer.state.layers[0].linewidth = 10
self.viewer.state.layers[0].linestype = 'dashed'
self.viewer.state.layers[0].color = 'orange'
self.viewer.state.layers[0].alpha = 0.7
self.viewer.state.layers[0].markersize = 100
self.assert_same(tmpdir, tol=5)
def test_line_cmap(self, tmpdir):
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_vmin = 0.2
self.viewer.state.layers[0].cmap_vmax = 0.7
self.viewer.state.layers[0].cmap = plt.cm.BuGn
self.test_line(tmpdir)
def test_errorbarx(self, tmpdir):
self.viewer.state.layers[0].xerr_visible = True
self.viewer.state.layers[0].xerr_att = self.data.id['e']
self.viewer.state.layers[0].color = 'purple'
self.viewer.state.layers[0].alpha = 0.5
self.assert_same(tmpdir)
def test_errorbary(self, tmpdir):
self.viewer.state.layers[0].yerr_visible = True
self.viewer.state.layers[0].yerr_att = self.data.id['f']
self.viewer.state.layers[0].color = 'purple'
self.viewer.state.layers[0].alpha = 0.5
self.assert_same(tmpdir)
def test_errorbarxy(self, tmpdir):
self.viewer.state.layers[0].xerr_visible = True
self.viewer.state.layers[0].xerr_att = self.data.id['e']
self.viewer.state.layers[0].yerr_visible = True
self.viewer.state.layers[0].yerr_att = self.data.id['f']
self.viewer.state.layers[0].color = 'purple'
self.viewer.state.layers[0].alpha = 0.5
self.assert_same(tmpdir)
def test_errorbarxy_cmap(self, tmpdir):
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_vmin = 0.2
self.viewer.state.layers[0].cmap_vmax = 0.7
self.viewer.state.layers[0].cmap = plt.cm.BuGn
self.test_errorbarxy(tmpdir)
def _vector_common(self, tmpdir):
self.viewer.state.layers[0].vector_visible = True
self.viewer.state.layers[0].vy_att = self.data.id['g']
self.viewer.state.layers[0].vector_arrowhead = True
self.viewer.state.layers[0].vector_origin = 'tail'
self.viewer.state.layers[0].vector_scaling = 1.5
self.viewer.state.layers[0].color = 'teal'
self.viewer.state.layers[0].alpha = 0.9
self.assert_same(tmpdir, tol=1)
def test_vector_cartesian(self, tmpdir):
self.viewer.state.layers[0].vector_mode = 'Cartesian'
self.viewer.state.layers[0].vx_att = self.data.id['h']
self._vector_common(tmpdir)
def test_vector_polar(self, tmpdir):
self.viewer.state.layers[0].vector_mode = 'Polar'
self.viewer.state.layers[0].vx_att = self.data.id['angle']
self._vector_common(tmpdir)
def test_vector_cartesian_cmap(self, tmpdir):
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_vmin = 0.2
self.viewer.state.layers[0].cmap_vmax = 0.7
self.viewer.state.layers[0].cmap = plt.cm.BuGn
self.test_vector_cartesian(tmpdir)
def test_vector_cartesian_xflip(self, tmpdir):
# Regression test for a bug that caused vectors to not be flipped
self.viewer.state.layers[0].vector_mode = 'Cartesian'
self.viewer.state.layers[0].vx_att = self.data.id['h']
self.viewer.state.flip_x()
self._vector_common(tmpdir)
def test_subset(self, tmpdir):
self.data_collection.new_subset_group('mysubset',
self.data.id['a'] > 0.5)
self.assert_same(tmpdir)
def test_density_map_with_subset(self, tmpdir):
self.viewer.state.dpi = 2
self.viewer.state.layers[0].density_map = True
self.data_collection.new_subset_group('mysubset',
self.data.id['a'] > 0.5)
self.assert_same(tmpdir)
def test_density_map_cmap_with_subset(self, tmpdir):
self.viewer.state.dpi = 2
self.viewer.state.layers[0].density_map = True
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_vmin = 0.2
self.viewer.state.layers[0].cmap_vmax = 0.7
self.viewer.state.layers[0].cmap = plt.cm.BuGn
self.data_collection.new_subset_group('mysubset',
self.data.id['a'] > 0.5)
self.assert_same(tmpdir)
def test_cmap_mode_change(self, tmpdir):
# Regression test for a bug that caused scatter markers to not change
# color when going from Linear to Fixed mode
self.viewer.state.layers[0].size_mode = 'Linear'
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap_mode = 'Fixed'
self.assert_same(tmpdir)
def test_density_map_change(self, tmpdir):
# Regression test for a bug that caused the density map to still
# be visible if using color-coding with the density map then
# switching to markers.
self.viewer.state.layers[0].density_map = True
self.viewer.state.layers[0].cmap_mode = 'Linear'
self.viewer.state.layers[0].cmap = plt.cm.BuGn
self.viewer.state.layers[0].density_map = False
self.assert_same(tmpdir)
def test_volume_viewer(tmpdir):
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
volume = ga.new_data_viewer(VispyVolumeViewer)
volume.add_data(data)
volume.viewer_size = (400, 500)
options = volume.options_widget()
options.x_stretch = 0.5
options.y_stretch = 1.0
options.z_stretch = 2.0
options.x_min = -0.1
options.x_max = 10.1
options.y_min = 0.1
options.y_max = 10.9
options.z_min = 0.2
options.z_max = 10.8
options.visible_box = False
# Get layer artist style editor
layer_artist = volume.layers[0]
style_widget = volume._view.layout_style_widgets[layer_artist]
style_widget.attribute = data.id['b']
style_widget.vmin = 0.1
style_widget.vmax = 0.9
style_widget.alpha = 0.8
# Check that writing a session works as expected.
session_file = tmpdir.join('test_volume_viewer.glu').strpath
ga.save_session(session_file)
ga.close()
# Now we can check that everything is restored correctly
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
volume_r = ga2.viewers[0][0]
assert volume_r.viewer_size == (400, 500)
options = volume_r.options_widget()
assert options.x_stretch == 0.5
assert options.y_stretch == 1.0
assert options.z_stretch == 2.0
assert options.x_min == -0.1
assert options.x_max == 10.1
assert options.y_min == 0.1
assert options.y_max == 10.9
assert options.z_min == 0.2
assert options.z_max == 10.8
assert not options.visible_box
layer_artist = volume_r.layers[0]
assert style_widget.attribute.label == 'b'
assert style_widget.vmin == 0.1
assert style_widget.vmax == 0.9
assert style_widget.alpha == 0.8
ga2.close()
# create some data
data_path = Path("/home/stuart/sunpy/data/iris_glue/")
rasters = list(data_path.glob("*raster*"))
sji = list(data_path.glob("*SJI*"))
raster_data = _parse_iris_raster(read_iris_spectrograph_level2_fits(rasters),
'iris')
sji_data = []
for s in sji:
sji_data += load_data(s)
dc = DataCollection(raster_data + sji_data)
ga = GlueApplication(dc)
im1 = ga.new_data_viewer(ImageViewer)
im1.add_data(raster_data[0])
im2 = ga.new_data_viewer(ImageViewer)
im2.add_data(sji_data[0])
class IRISLinker:
def __init__(self, im1, im2):
self.im_raster = im1
self.im_sji = im2
self.im_raster.state.add_callback("slices", self._raster_update)
self.im_sji.state.add_callback("slices", self._sji_update)
def _raster_update(self, *args):
def test_vectors(tmpdir):
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
scatter = ga.new_data_viewer(VispyScatterViewer)
scatter.add_data(data)
scatter.viewer_size = (400, 500)
viewer_state = scatter.state
viewer_state.x_att = data.id['a']
viewer_state.y_att = data.id['f']
viewer_state.z_att = data.id['z']
layer_state = viewer_state.layers[0]
layer_state.vector_visible = True
layer_state.vx_attribute = data.id['x']
layer_state.vy_attribute = data.id['y']
layer_state.vz_attribute = data.id['e']
layer_state.vector_scaling = 0.1
layer_state.vector_origin = 'tail'
layer_state.vector_arrowhead = True
viewer_state.line_width = 3
# Check that writing a session works as expected.
session_file = tmpdir.join('test_vectors.glu').strpath
ga.save_session(session_file)
ga.close()
# Now we can check that everything is restored correctly
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
scatter_r = ga2.viewers[0][0]
layer_state = scatter_r.state.layers[0]
assert layer_state.vector_visible
assert layer_state.vx_attribute.label == 'x'
assert layer_state.vy_attribute.label == 'y'
assert layer_state.vz_attribute.label == 'e'
assert np.isclose(layer_state.vector_scaling, 0.1)
assert layer_state.vector_origin == 'tail'
assert layer_state.vector_arrowhead
assert scatter_r.state.line_width == 3
ga2.close()
def test_isosurface_viewer(tmpdir):
# Create fake data
data = make_test_data()
# Create fake session
dc = DataCollection([data])
ga = GlueApplication(dc)
ga.show()
volume = ga.new_data_viewer(VispyIsosurfaceViewer)
volume.add_data(data)
volume.viewer_size = (400, 500)
viewer_state = volume.state
viewer_state.x_stretch = 0.5
viewer_state.y_stretch = 1.0
viewer_state.z_stretch = 2.0
viewer_state.x_min = -0.1
viewer_state.x_max = 10.1
viewer_state.y_min = 0.1
viewer_state.y_max = 10.9
viewer_state.z_min = 0.2
viewer_state.z_max = 10.8
viewer_state.visible_axes = False
# Get layer artist style editor
layer_state = viewer_state.layers[0]
layer_state.attribute = data.id['b']
layer_state.level_low = 0.1
layer_state.level_high = 0.9
# layer_state.alpha = 0.8
# test set label from slider
layer_state.step = 5
assert layer_state.step == 5.0
# Check that writing a session works as expected.
session_file = tmpdir.join('test_volume_viewer.glu').strpath
ga.save_session(session_file)
ga.close()
# Now we can check that everything is restored correctly
ga2 = GlueApplication.restore_session(session_file)
ga2.show()
volume_r = ga2.viewers[0][0]
assert volume_r.viewer_size == (400, 500)
viewer_state = volume_r.state
np.testing.assert_allclose(viewer_state.x_stretch, 0.5, rtol=1e-3)
np.testing.assert_allclose(viewer_state.y_stretch, 1.0, rtol=1e-3)
np.testing.assert_allclose(viewer_state.z_stretch, 2.0, rtol=1e-3)
assert viewer_state.x_min == -0.1
assert viewer_state.x_max == 10.1
assert viewer_state.y_min == 0.1
assert viewer_state.y_max == 10.9
assert viewer_state.z_min == 0.2
assert viewer_state.z_max == 10.8
assert not viewer_state.visible_axes
layer_artist = viewer_state.layers[0]
assert layer_artist.attribute.label == 'b'
assert layer_artist.level_low == 0.1
assert layer_artist.level_high == 0.9
# assert layer_artist.alpha == 0.8
assert layer_artist.step == 5
ga2.close()
def test_basic():
dc = DataCollection([])
ga = GlueApplication(dc)
mosviz = ga.new_data_viewer(MOSVizViewer)
mosviz.show()