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Some STAR pipeline related changes #7

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merged 2 commits into from
Dec 11, 2024
Merged

Some STAR pipeline related changes #7

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4d21e9f
Allow non-uniform area map
mdales Dec 11, 2024
4e35054
Add scientific name to collated data
mdales Dec 11, 2024
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11 changes: 7 additions & 4 deletions aohcalc.py
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Original file line number Diff line number Diff line change
Expand Up @@ -103,12 +103,13 @@ def aohcalc(

area_map = ConstantLayer(1.0)
if area_path:
area_map = UniformAreaLayer.layer_from_file(area_path)

range_total = (range_map * area_map).sum()
try:
area_map = UniformAreaLayer.layer_from_file(area_path)
except ValueError:
area_map = RasterLayer.layer_from_file(area_path)


layers = habitat_maps + [min_elevation_map, max_elevation_map, range_map]
layers = habitat_maps + [min_elevation_map, max_elevation_map, range_map, area_map]
try:
intersection = RasterLayer.find_intersection(layers)
except ValueError:
Expand All @@ -129,6 +130,8 @@ def aohcalc(
for layer in layers:
layer.set_window_for_intersection(intersection)

range_total = (range_map * area_map).sum()

result = RasterLayer.empty_raster_layer_like(
min_elevation_map,
filename=result_filename,
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1 change: 1 addition & 0 deletions validation/collate_data.py
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Expand Up @@ -19,6 +19,7 @@ def collate_data(
"id_no",
"class_name",
"family_name",
"scientific_name",
"season",
"elevation_upper",
"elevation_lower",
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