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Update plot.py #197

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13 changes: 11 additions & 2 deletions astrodendro/plot.py
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Original file line number Diff line number Diff line change
Expand Up @@ -110,7 +110,7 @@ def plot_tree(self, ax, structure=None, subtree=True, autoscale=True, **kwargs):
ax.margins(0.05)
ax.autoscale_view(True, True, True)

def plot_contour(self, ax, structure=None, subtree=True, slice=None, **kwargs):
def plot_contour(self, ax, structure=None, subtree=True, slice=None, collapse=None, **kwargs):
"""
Plot a contour outlining all pixels in the dendrogram, or a specific.
structure.
Expand All @@ -129,6 +129,10 @@ def plot_contour(self, ax, structure=None, subtree=True, slice=None, **kwargs):
If dealing with a 3-d cube, the slice at which to plot the contour.
If not set, the slice containing the peak of the structure will be
shown
collapse: int, optional
If dealing with a 3-d cube, the dimension which will be "collapsed" when plotting.
I.e., if slice=85 and collapse=0, contours will be plotted by taking the 85th slice along x,
"collapsing" the x direction.

Notes
-----
Expand All @@ -150,7 +154,12 @@ def plot_contour(self, ax, structure=None, subtree=True, slice=None, **kwargs):
if slice is None:
peak_index = structure.get_peak(subtree=subtree)
slice = peak_index[0][0]
mask = mask[slice, :, :]
if collapse is None or collapse==0:
mask = mask[slice, :, :]
elif collapse==1:
mask=mask[:, slice, :]
elif collapse==2:
mask=mask[:, :, slice]

# fix a common mistake when trying to set the color of contours
if 'color' in kwargs and 'colors' not in kwargs:
Expand Down