def test_column_validation(self):
# Test the validation provied by ColumnTrait
figure = InteractiveTimeSeriesFigure()
with pytest.raises(TraitError) as exc:
figure.add_markers(time_series=self.ts, column='flux2', label='Markers')
assert exc.value.args[0] == 'flux2 is not a valid column name'
def setup_method(self, method):
self.ts = TimeSeries(time_start='2016-03-22T12:30:31', time_delta=3 * u.s, n_samples=5)
self.ts['flux'] = [1, 2, 3, 4, 5]
self.ts['error'] = [1, 2, 3, 4, 5]
self.ts['flux_with_unit'] = [1, 2, 3, 4, 5] * u.Jy
self.ts['error_with_unit'] = [1, 2, 3, 4, 5] * u.mJy
self.figure = InteractiveTimeSeriesFigure()
def test_tooltip(self, tmpdir, deterministic_uuid):
# Check that if a custom tooltip is specified, which uses columns other
# than the ones used for the plotting, these other columns are included
# in the output data file.
self.ts['other1'] = [1, 2, 3, 4, 5]
self.ts['other2'] = [1, 2, 3, 4, 5]
self.ts['other3'] = [1, 2, 3, 4, 5]
self.ts['other4'] = [1, 2, 3, 4, 5]
figure = InteractiveTimeSeriesFigure()
figure.add_markers(time_series=self.ts,
column='flux',
label='Markers',
tooltip=['time', 'flux', 'other1'])
figure.add_markers(time_series=self.ts,
column='flux',
label='Markers',
tooltip={'other3': 'Other'})
json_file = tmpdir.join('figure.json').strpath
figure.save_vega_json(json_file)
ts = TimeSeries.read(tmpdir.join(
'data_daea58ba-4c73-4942-8d87-78e7d340bbcd.csv').strpath,
format='ascii.basic',
delimiter=',')
assert ts.colnames == ['time', 'flux', 'other1', 'other3']
def test_limits(self, tmpdir):
# Test the validation when setting limits
filename = tmpdir.join('figure.json').strpath
figure = InteractiveTimeSeriesFigure()
figure.add_markers(time_series=self.ts, column='flux', label='Markers')
figure.xlim = self.ts.time[0], self.ts.time[-1]
figure.ylim = 0, 10
figure.save_vega_json(filename)
with pytest.raises(TypeError) as exc:
figure.xlim = 0, 1
assert exc.value.args[0] == 'xlim should be a typle of two Time instances'
with pytest.raises(ValueError) as exc:
figure.xlim = self.ts.time[0], self.ts.time[-1], self.ts.time[-4]
assert exc.value.args[0] == 'xlim should be a tuple of two elements'
def test_remove(self):
# Make sure that removing layers works correctly
figure = InteractiveTimeSeriesFigure()
assert len(figure.layers) == 0
markers = figure.add_markers(time_series=self.ts,
column='flux',
label='Markers')
assert len(figure.layers) == 1
line = figure.add_line(time_series=self.ts,
column='flux',
label='Line')
assert len(figure.layers) == 2
view = figure.add_view('Test view')
assert len(view.layers) == 2
range = view.add_vertical_range(self.ts.time[0],
self.ts.time[-1],
label='Vertical Range')
assert len(figure.layers) == 2
assert len(view.layers) == 3
# Removing using the .remove() method on a layer removes it from the
# figure and all views where it is.
line.remove()
assert len(figure.layers) == 1
assert len(view.layers) == 2
# Removing from the .remove() method on a view removes it just from the view
view.remove(markers)
assert len(figure.layers) == 1
assert len(view.layers) == 1
# Check removing a view-specific layer
range.remove()
assert len(figure.layers) == 1
assert len(view.layers) == 0
# Remove last layer from figure
markers.remove()
with pytest.raises(Exception) as exc:
markers.remove()
assert exc.value.args[
0] == "Layer 'Markers' is no longer in a figure/view"
with pytest.raises(Exception) as exc:
figure.remove(markers)
assert exc.value.args[0] == "Layer 'Markers' is not in figure"
with pytest.raises(Exception) as exc:
view.remove(markers)
assert exc.value.args[0] == "Layer 'Markers' is not in view"
def test_save_options_export_bundle(self, tmpdir):
# Test saving the figure to a zip bundle
figure = InteractiveTimeSeriesFigure()
figure.add_markers(time_series=self.ts, column='flux', label='Markers')
figure.export_interactive_bundle(tmpdir.join('figure.zip').strpath)
def test_save_options_embed(self, tmpdir, deterministic_uuid):
# Make sure that the data is correctly embedded inside the JSON file
figure = InteractiveTimeSeriesFigure()
figure.add_markers(time_series=self.ts, column='flux', label='Markers')
figure.save_vega_json(tmpdir.join('figure.json').strpath, embed_data=True)
compare_to_reference_json(tmpdir, 'save_options_embed')
def test_save_options_no_minimize(self, tmpdir, deterministic_uuid):
# Make sure that the data contains all columns, even those not needed
figure = InteractiveTimeSeriesFigure()
figure.add_markers(time_series=self.ts, column='flux', label='Markers')
figure.save_vega_json(tmpdir.join('figure.json').strpath, minimize_data=False)
compare_to_reference_json(tmpdir, 'save_options_no_minimize')
def test_interactive_screenshot(tmpdir):
ts = TimeSeries(time_start='2016-03-22T12:30:31',
time_delta=3 * u.s, n_samples=5)
ts['flux'] = [1, 2, 3, 4, 5]
filename_json = tmpdir.join('figure.json').strpath
filename_png = tmpdir.join('figure').strpath
figure = InteractiveTimeSeriesFigure()
markers = figure.add_markers(time_series=ts, column='flux', label='Markers')
figure.add_line(time_series=ts, column='flux', label='Line')
figure.add_view(title="only markers", include=[markers])
figure.save_vega_json(filename_json, embed_data=True)
interactive_screenshot(filename_json, filename_png)
assert os.path.exists(filename_png + '.png')
assert os.path.exists(filename_png + '_view1.png')
def test_mixed_time_axes(self, tmpdir, deterministic_uuid, image_tests):
# An extensive test that includes different types of time axes in
# different views.
fig = InteractiveTimeSeriesFigure(title='By time of observation')
fig.ylabel = 'Radial Velocity (km/s)'
# Absolute time
fig.add_markers(time_series=self.ts, column='flux', color='orange', error='error', size=50)
fig.add_line(time_series=self.ts, column='flux', color='black')
# Phase
view1 = fig.add_view(title='By phase', empty=True, time_mode='phase')
view1.add_markers(time_series=self.ts, time_column='phase', column='flux', color='orange', error='error', size=50)
# Relative time
view2 = fig.add_view(title='By relative time', empty=True, time_mode='relative')
view2.add_markers(time_series=self.ts, time_column='relative_s', column='flux', color='orange', error='error', size=50)
# Absolute time (with julian date formatting)
view3 = fig.add_view(title='Julian Date formatting')
view3.time_format = 'jd'
# Phase (with degrees formatting)
view4 = fig.add_view(title='By phase', empty=True, time_mode='phase')
view4.add_markers(time_series=self.ts, time_column='phase', column='flux', color='orange', error='error', size=50)
view4.time_format = 'degrees'
# Phase (with radians formatting)
view5 = fig.add_view(title='By phase', empty=True, time_mode='phase')
view5.add_markers(time_series=self.ts, time_column='phase', column='flux', color='orange', error='error', size=50)
view5.time_format = 'radians'
json_file = tmpdir.join('figure.json').strpath
plot_prefix = tmpdir.join('figure').strpath
fig.save_vega_json(json_file)
if image_tests:
interactive_screenshot(json_file, plot_prefix)
fig.save_static(plot_prefix + '_mpl', format='png')
compare_to_reference_json(tmpdir, 'mixed_time_axes', image_tests=image_tests)
class TestUnit:
# Make sure that things work as expected when units are present, and that
# the correct errors are raised when mixing data with and without units.
def setup_method(self, method):
self.ts = TimeSeries(time_start='2016-03-22T12:30:31', time_delta=3 * u.s, n_samples=5)
self.ts['flux'] = [1, 2, 3, 4, 5]
self.ts['error'] = [1, 2, 3, 4, 5]
self.ts['flux_with_unit'] = [1, 2, 3, 4, 5] * u.Jy
self.ts['error_with_unit'] = [1, 2, 3, 4, 5] * u.mJy
self.figure = InteractiveTimeSeriesFigure()
def test_basic(self, tmpdir):
# Make sure things work for a simple example with just one layer
self.figure.add_markers(time_series=self.ts, column='flux_with_unit', label='Markers')
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
def test_all_markers(self, tmpdir):
# A test with all the layer types and convertible units
self.figure.add_markers(time_series=self.ts, column='flux_with_unit', label='Markers')
self.figure.add_line(time_series=self.ts, column='flux_with_unit', label='Line')
self.figure.add_markers(time_series=self.ts, column='flux_with_unit', error='error_with_unit', label='Markers with Errors')
self.figure.add_vertical_line(self.ts.time[3], label='Vertical Line')
self.figure.add_vertical_range(self.ts.time[0], self.ts.time[-1], label='Vertical Range')
self.figure.add_horizontal_line(3 * u.MJy, label='Horizontal Line')
self.figure.add_horizontal_range(5000 * u.mJy, 6 * u.Jy, label='Horizontal Range')
self.figure.add_range(time_series=self.ts, column_lower='flux_with_unit', column_upper='error_with_unit', label='Range')
self.figure.add_text(time=self.ts.time[2], value=self.ts['flux_with_unit'][0], text='My Label', label='Range')
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
def test_compatible_limits(self, tmpdir):
# Set the limits using compatible units
self.figure.add_markers(time_series=self.ts, column='flux_with_unit', label='Markers')
self.figure.ylim = (1e-6 * u.MJy, 6000 * u.mJy)
view = self.figure.add_view('my view')
view.ylim = (2e-6 * u.MJy, 4000 * u.mJy)
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
def test_incompatible_limits(self, tmpdir):
# Set the limits using incompatible units
self.figure.add_markers(time_series=self.ts, column='flux_with_unit', label='Markers')
self.figure.ylim = 1, 6
with pytest.raises(u.UnitsError) as exc:
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
assert exc.value.args[0] == 'Limits for y axis are dimensionless but expected units of Jy'
def test_incompatible_limits_view(self, tmpdir):
# Set the limits using incompatible units (with a view)
self.figure.add_markers(time_series=self.ts, column='flux_with_unit', label='Markers')
view = self.figure.add_view('my view')
view.ylim = 1, 6
with pytest.raises(u.UnitsError) as exc:
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
assert exc.value.args[0] == "Limits for y axis are dimensionless but expected units of Jy"
def test_two_marker_layer_incompatible(self, tmpdir):
self.figure.add_markers(time_series=self.ts, column='flux_with_unit', label='Markers')
self.figure.add_markers(time_series=self.ts, column='flux', label='Markers')
with pytest.raises(u.UnitsError) as exc:
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
assert exc.value.args[0] == "Cannot convert the units '' of column 'flux' to the required units of 'Jy'"
def test_incompatible_overlays(self, tmpdir):
self.figure.add_markers(time_series=self.ts, column='flux_with_unit', label='Markers')
self.figure.add_markers(time_series=self.ts, column='flux', label='Markers')
with pytest.raises(u.UnitsError) as exc:
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
assert exc.value.args[0] == "Cannot convert the units '' of column 'flux' to the required units of 'Jy'"
def test_custom_yunit(self, tmpdir):
self.figure.add_markers(time_series=self.ts, column='flux_with_unit', label='Markers')
self.figure.yunit = u.MJy
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
self.figure.yunit = 'mJy' # with a string
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
def test_custom_incompatible_yunit(self, tmpdir):
self.figure.add_markers(time_series=self.ts, column='flux_with_unit', label='Markers')
self.figure.yunit = u.m
with pytest.raises(u.UnitsError) as exc:
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
assert exc.value.args[0] == "Cannot convert the units 'Jy' of column 'flux_with_unit' to the required units of 'm'"
def test_empty_base_figure(self, tmpdir):
# Check that things work fine if the only layer is in a view
view = self.figure.add_view('my view')
view.add_markers(time_series=self.ts, column='flux_with_unit', label='Markers')
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
def test_no_data_layers(self, tmpdir):
# In the case where there are no layers that depend on data, the default
# assumed unit is u.one so adding a line with a unit will raise an error.
# In future we might want to consider making this work.
self.figure.add_horizontal_line(3 * u.mJy, label='Line')
with pytest.raises(u.UnitsError) as exc:
self.figure.save_vega_json(tmpdir.join('figure.json').strpath)
assert exc.value.args[0] == "'mJy' (spectral flux density) and '' (dimensionless) are not convertible"
def test_basic(self, tmpdir, deterministic_uuid, image_tests):
# A test that uses all the types of layers. This includes an optional
# pixel-by-pixel image test that is enabled when using the --image-tests
# command-line argument.
figure = InteractiveTimeSeriesFigure()
figure.add_markers(time_series=self.ts, column='flux', label='Markers')
figure.add_line(time_series=self.ts, column='flux', label='Line')
figure.add_markers(time_series=self.ts, column='flux', error='error', label='Markers with Errors')
figure.add_vertical_line(self.ts.time[3], label='Vertical Line')
figure.add_vertical_range(self.ts.time[0], self.ts.time[-1], label='Vertical Range')
figure.add_horizontal_line(3, label='Horizontal Line')
figure.add_horizontal_range(5, 6, label='Horizontal Range')
figure.add_range(time_series=self.ts, column_lower='flux', column_upper='error', label='Range')
figure.add_text(time=self.ts.time[2], value=float(self.ts['flux'][0]), text='My Label', label='Range')
figure.ylabel = 'Intensity'
json_file = tmpdir.join('figure.json').strpath
plot_prefix = tmpdir.join('figure').strpath
figure.save_vega_json(json_file)
if image_tests:
interactive_screenshot(json_file, plot_prefix)
figure.save_static(plot_prefix + '_mpl', format='png')
compare_to_reference_json(tmpdir, 'basic', image_tests=image_tests)
def test_views(self, tmpdir):
# Make sure that views contain the right layers
filename = tmpdir.join('figure.json').strpath
figure = InteractiveTimeSeriesFigure()
markers = figure.add_markers(time_series=self.ts, column='flux', label='Markers')
line = figure.add_line(time_series=self.ts, column='flux', label='Line')
# By default views inherit all layers from base figure
view1 = figure.add_view('Test1')
assert figure.layers == [markers, line]
assert view1.layers == [markers, line]
# And we can add view-specific layers to them
vertical = view1.add_vertical_line(self.ts.time[3], label='Vertical Line')
assert figure.layers == [markers, line]
assert view1.layers == [markers, line, vertical]
# But adding layers to the figure after the view is created doesnt' cause
# them to get added to the view
horizontal = figure.add_horizontal_line(3., label='Horizontal Line')
assert figure.layers == [markers, line, horizontal]
assert view1.layers == [markers, line, vertical]
# We can use include to specify which initial layers to include
view2 = figure.add_view('Test1', include=[markers])
assert view2.layers == [markers]
# and exclude to, well, exclude layers
view3 = figure.add_view('Test1', exclude=[markers])
assert view3.layers == [line, horizontal]
# We also provide an 'empty' shortcut that means include=[]
view4 = figure.add_view('Test1', empty=True)
assert view4.layers == []
# We tell the user if the include or exclude list contain invalid values
with pytest.raises(ValueError) as exc:
figure.add_view('Test1', exclude=[vertical])
assert 'does not exist in base figure' in exc.value.args[0]
with pytest.raises(ValueError) as exc:
figure.add_view('Test1', include=[vertical])
assert 'does not exist in base figure' in exc.value.args[0]
figure.save_vega_json(filename)
