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Change v1_types_path to use data_root instead of scratch_root
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src/xenium_analysis_tools/map_xenium/map_dataset_sections.py

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -106,7 +106,7 @@ def map_sections(dataset_name: str, config_path: str=None, select_sections: list
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min_cells = filter_v1_types_config.get('min_cells', 0)
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v1_types_df_name = filter_v1_types_config.get('saved_df_name', 'v1_merfish_cells.csv')
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if v1_types_df_name:
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v1_types_path = Path(paths['scratch_root']) / v1_types_df_name
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v1_types_path = Path(paths['data_root']) / v1_types_df_name
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else:
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v1_types_path = None
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v1_merfish_cells = get_v1_merfish_cells(abc_cache, df_path=v1_types_path)

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