Add grid_shape parameter.

fmi-basel · Jul 16, 2024 · b6ed60d · b6ed60d
1 parent 1082ed6
commit b6ed60d
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Showing 2 changed files with 4 additions and 0 deletions.
diff --git a/source/s01_parsing_sbem_acquisition/parameter_config.py b/source/s01_parsing_sbem_acquisition/parameter_config.py
@@ -5,6 +5,7 @@ class AcquisitionConfig(BaseModel):
     sbem_root_dir: str = ""
     acquisition: str = "run_0"
     tile_grid: str = "g0001"
+    grid_shape: tuple[int, int] = (32, 42)
     thickness: float = 25
     resolution_xy: float = 11
 

diff --git a/source/s01_parsing_sbem_acquisition/s01_parse_data.py b/source/s01_parsing_sbem_acquisition/s01_parse_data.py
@@ -20,6 +20,7 @@ def parse_data(
     sbem_root_dir: str,
     acquisition: str,
     tile_grid: str,
+    grid_shape: tuple[int, int],
     thickness: float,
     resolution_xy: float,
     start_section: int,
@@ -50,6 +51,7 @@ def parse_data(
                     acquisition=acquisition,
                     section_num=tile_spec["z"],
                     tile_grid_num=tile_grid_num,
+                    grid_shape=grid_shape,
                     thickness=thickness,
                     tile_height=tile_spec["tile_height"],
                     tile_width=tile_spec["tile_width"],
@@ -100,6 +102,7 @@ def main(
         sbem_root_dir=acquisition_conf.sbem_root_dir,
         acquisition=acquisition_conf.acquisition,
         tile_grid=acquisition_conf.tile_grid,
+        grid_shape=acquisition_conf.grid_shape,
         thickness=acquisition_conf.thickness,
         resolution_xy=acquisition_conf.resolution_xy,
         start_section=start_section,