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Cleaning load_GEFF()
1 parent 9f7caba commit fcd8329

1 file changed

Lines changed: 1 addition & 22 deletions

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pycellin/io/geff/loader.py

Lines changed: 1 addition & 22 deletions
Original file line numberDiff line numberDiff line change
@@ -1102,22 +1102,17 @@ def load_GEFF(
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ValueError
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If the GEFF graph is undirected, as pycellin does not support undirected graphs.
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"""
1105-
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# Read the GEFF file.
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geff_graph, geff_md = geff.read(geff_file, structure_validation=structure_validation)
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if not geff_md.directed:
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raise ValueError(
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"The GEFF graph is undirected: pycellin does not support undirected graphs."
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)
1112-
# print(geff_md)
1113-
geff_node_md = geff_md.node_props_metadata
1114-
geff_edge_md = geff_md.edge_props_metadata
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# Identify specific properties.
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lineage_id_prop = _identify_lin_id_prop(
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lineage_id_prop, geff_md.track_node_props, geff_graph
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)
1120-
# print(f"LINEAGE ID PROP: {lineage_id_prop}")
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time_prop = _identify_time_prop(time_prop, geff_md, geff_graph)
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cell_x_prop, cell_y_prop, cell_z_prop = _identify_space_props(
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cell_x_prop, cell_y_prop, cell_z_prop, geff_md, geff_graph
@@ -1165,29 +1160,13 @@ def load_GEFF(
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)
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check_fusions(model) # pycellin DOES NOT support fusion events
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1168-
print("GEFF NODE PROPS")
1169-
for prop in geff_node_md:
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print(f"\t{prop}")
1171-
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print("NODE PROPS")
1173-
for prop in model.get_node_properties():
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print(f"\t{prop}")
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# print("GEFF EDGE PROPS")
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# for prop in geff_edge_md:
1178-
# print(f"\t{prop}")
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# print("EDGE PROPS")
1181-
# for prop in model.get_edge_properties():
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# print(f"\t{prop}")
1183-
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return model
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if __name__ == "__main__":
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geff_file = "/media/lxenard/data/Janelia_Cell_Trackathon/test_pycellin_geff/pycellin_to_geff.geff"
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# geff_file = "B:/Janelia_Cell_Trackathon/anniek_example/exampl_geff.zarr/tracks"
1190-
geff_file = "/media/lxenard/data/Janelia_Cell_Trackathon/anniek_example/exampl_geff.zarr/tracks"
1169+
# geff_file = "/media/lxenard/data/Janelia_Cell_Trackathon/anniek_example/exampl_geff.zarr/tracks"
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# geff_file = "E:/Janelia_Cell_Trackathon/reader_test_graph.geff"
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# geff_file = "/media/lxenard/data/Janelia_Cell_Trackathon/mouse-20250719.zarr/tracks"
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# geff_file = "/media/lxenard/data/Janelia_Cell_Trackathon/test_pycellin_geff/test.zarr"

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