Increase default ROI size to 2048

Pass roi_size through infer_omero_wsi pipeline and update package
version
to 0.3.2.

Author: barrettMCW

src/shell/__about__.py

@@ -3,4 +3,4 @@
 # SPDX-License-Identifier: MIT
 """Version information for shell."""
 
-__version__ = "0.3.1"
+__version__ = "0.3.2"

src/shell/infer_omero_wsi.py

@@ -1689,6 +1689,7 @@ def infer_omero_wsi(
             save_eho=save_eho,
             output_path=output_path,
             tile_overlap=tile_overlap,
+            roi_size=inference_tile_size,
             sw_overlap=sw_overlap,
             num_fetch_workers=num_fetch_workers,
         )
@@ -1736,6 +1737,7 @@ def _run_pipeline(
     save_eho: str | None,
     output_path: str,
     tile_overlap: int,
+    roi_size: int,
     sw_overlap: float,
     num_fetch_workers: int = 4,
 ) -> np.ndarray:
@@ -1842,6 +1844,7 @@ def _run_pipeline(
                 tile_eho,
                 model,
                 device,
+                roi_size=(roi_size, roi_size),
                 overlap=sw_overlap,
             )
             del tile_eho

src/shell/inference.py

@@ -40,7 +40,7 @@
 # ---------------------------------------------------------------------------
 # Default inference parameters
 # ---------------------------------------------------------------------------
-VAL_ROI_SIZE: tuple[int, int] = (512, 512)
+VAL_ROI_SIZE: tuple[int, int] = (2048, 2048)
 VAL_SW_BATCH: int = 16
 VAL_SW_OVERLAP: float = 0.25