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Add count of neighboring cells #56

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Add count of neighboring cells #56

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15 changes: 10 additions & 5 deletions tobac/themes/tint/objects.py
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Original file line number Diff line number Diff line change
Expand Up @@ -31,17 +31,20 @@ def check_isolation(raw, filtered, grid_size, params):
params['ISO_THRESH'])
nobj_iso = np.max(iso_filtered)
iso = np.empty(nobj, dtype='bool')
neighbors = np.ones(nobj)*(-9999)
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Why is this set to -9999? I'm not that familiar with the tint code yet, so if there's something obvious, let me know. Trying to figure out missing data vs. 0 neighbors; is this better as 0?


for iso_id in np.arange(nobj_iso) + 1:
obj_ind = np.where(iso_filtered == iso_id)
objects = np.unique(filtered[obj_ind])
objects = objects[objects != 0]


obj_count = len(objects)
neighbors[objects-1] = obj_count-1
if len(objects) == 1 and single_max(obj_ind, raw, params):
iso[objects - 1] = True
else:
iso[objects - 1] = False
return iso
return iso, neighbors


def get_obj_extent(labeled_image, obj_label):
Expand Down Expand Up @@ -211,7 +214,7 @@ def get_object_prop(image1, grid1, field, record, params):
volume.append(np.nan)
field_max.append(np.max(obj_slices))
# cell isolation
isolation = check_isolation(raw3D, image1, record.grid_size, params)
isolation, neighborhood = check_isolation(raw3D, image1, record.grid_size, params)

objprop = {'id1': id1,
'center': center,
Expand All @@ -223,7 +226,8 @@ def get_object_prop(image1, grid1, field, record, params):
'volume': volume,
'lon': longitude,
'lat': latitude,
'isolated': isolation}
'isolated': isolation,
'neighborhood': neighborhood}
return objprop


Expand All @@ -247,7 +251,8 @@ def write_tracks(old_tracks, record, current_objects, obj_props):
'vol': obj_props['volume'],
'max': obj_props['field_max'],
'max_alt': obj_props['max_height'],
'isolated': obj_props['isolated']
'isolated': obj_props['isolated'],
'neighborhood': obj_props['neighborhood']
})
new_tracks.set_index(['scan'], inplace=True)
tracks = old_tracks.append(new_tracks)
Expand Down