From bd7274a04532d36cccc7000d07b0f6d8814ba986 Mon Sep 17 00:00:00 2001
From: uermel <uermel@czii.org>
Date: Thu, 16 Oct 2025 17:09:35 -0700
Subject: [PATCH 1/2] remove old batch functions.

---
 src/copick_utils/converters/__init__.py       | 30 +++----
 .../converters/ellipsoid_from_picks.py        | 15 ----
 .../converters/mesh_from_picks.py             | 15 ----
 .../converters/mesh_from_segmentation.py      | 15 ----
 .../converters/picks_from_mesh.py             | 80 +------------------
 .../converters/picks_from_segmentation.py     | 17 ----
 .../converters/plane_from_picks.py            | 14 ----
 .../converters/segmentation_from_mesh.py      | 17 ----
 .../converters/segmentation_from_picks.py     | 17 ----
 .../converters/sphere_from_picks.py           | 14 ----
 .../converters/surface_from_picks.py          | 14 ----
 .../logical/distance_operations.py            | 37 ---------
 src/copick_utils/logical/mesh_operations.py   | 55 -------------
 src/copick_utils/logical/point_operations.py  | 25 ------
 .../logical/segmentation_operations.py        | 62 --------------
 15 files changed, 12 insertions(+), 415 deletions(-)

diff --git a/src/copick_utils/converters/__init__.py b/src/copick_utils/converters/__init__.py
index d206bca..a1fc53a 100644
--- a/src/copick_utils/converters/__init__.py
+++ b/src/copick_utils/converters/__init__.py
@@ -1,35 +1,25 @@
 """Converters for different copick data types."""
 
-from copick_utils.converters.ellipsoid_from_picks import ellipsoid_from_picks, ellipsoid_from_picks_batch
-from copick_utils.converters.mesh_from_picks import mesh_from_picks, mesh_from_picks_batch
-from copick_utils.converters.mesh_from_segmentation import mesh_from_segmentation, mesh_from_segmentation_batch
-from copick_utils.converters.picks_from_mesh import picks_from_mesh, picks_from_mesh_batch
-from copick_utils.converters.picks_from_segmentation import picks_from_segmentation, picks_from_segmentation_batch
-from copick_utils.converters.plane_from_picks import plane_from_picks, plane_from_picks_batch
-from copick_utils.converters.segmentation_from_mesh import segmentation_from_mesh, segmentation_from_mesh_batch
-from copick_utils.converters.segmentation_from_picks import segmentation_from_picks, segmentation_from_picks_batch
-from copick_utils.converters.sphere_from_picks import sphere_from_picks, sphere_from_picks_batch
-from copick_utils.converters.surface_from_picks import surface_from_picks, surface_from_picks_batch
+from copick_utils.converters.ellipsoid_from_picks import ellipsoid_from_picks
+from copick_utils.converters.mesh_from_picks import mesh_from_picks
+from copick_utils.converters.mesh_from_segmentation import mesh_from_segmentation
+from copick_utils.converters.picks_from_mesh import picks_from_mesh
+from copick_utils.converters.picks_from_segmentation import picks_from_segmentation
+from copick_utils.converters.plane_from_picks import plane_from_picks
+from copick_utils.converters.segmentation_from_mesh import segmentation_from_mesh
+from copick_utils.converters.segmentation_from_picks import segmentation_from_picks
+from copick_utils.converters.sphere_from_picks import sphere_from_picks
+from copick_utils.converters.surface_from_picks import surface_from_picks
 
 __all__ = [
     "mesh_from_segmentation",
-    "mesh_from_segmentation_batch",
     "picks_from_segmentation",
-    "picks_from_segmentation_batch",
     "picks_from_mesh",
-    "picks_from_mesh_batch",
     "segmentation_from_mesh",
-    "segmentation_from_mesh_batch",
     "segmentation_from_picks",
-    "segmentation_from_picks_batch",
     "mesh_from_picks",
-    "mesh_from_picks_batch",
     "sphere_from_picks",
-    "sphere_from_picks_batch",
     "ellipsoid_from_picks",
-    "ellipsoid_from_picks_batch",
     "plane_from_picks",
-    "plane_from_picks_batch",
     "surface_from_picks",
-    "surface_from_picks_batch",
 ]
diff --git a/src/copick_utils/converters/ellipsoid_from_picks.py b/src/copick_utils/converters/ellipsoid_from_picks.py
index 7ace798..a0485bf 100644
--- a/src/copick_utils/converters/ellipsoid_from_picks.py
+++ b/src/copick_utils/converters/ellipsoid_from_picks.py
@@ -7,8 +7,6 @@
 
 from copick_utils.converters.converter_common import (
     cluster,
-    create_batch_converter,
-    create_batch_worker,
     store_mesh_with_stats,
     validate_points,
 )
@@ -315,20 +313,7 @@ def create_ellipsoid_from_points(cluster_points):
         return None
 
 
-# Create worker function using common infrastructure
-_ellipsoid_from_picks_worker = create_batch_worker(ellipsoid_from_picks, "ellipsoid", min_points=6)
-
-
-# Create batch converter using common infrastructure
-ellipsoid_from_picks_batch = create_batch_converter(
-    ellipsoid_from_picks,
-    "Converting picks to ellipsoid meshes",
-    "ellipsoid",
-    min_points=6,
-)
-
 # Lazy batch converter for new architecture
-
 ellipsoid_from_picks_lazy_batch = create_lazy_batch_converter(
     converter_func=ellipsoid_from_picks,
     task_description="Converting picks to ellipsoid meshes",
diff --git a/src/copick_utils/converters/mesh_from_picks.py b/src/copick_utils/converters/mesh_from_picks.py
index 99fdd66..0f7275e 100644
--- a/src/copick_utils/converters/mesh_from_picks.py
+++ b/src/copick_utils/converters/mesh_from_picks.py
@@ -6,8 +6,6 @@
 
 from copick_utils.converters.converter_common import (
     cluster,
-    create_batch_converter,
-    create_batch_worker,
     store_mesh_with_stats,
     validate_points,
 )
@@ -189,19 +187,6 @@ def create_mesh_from_points(cluster_points):
         return None
 
 
-# Create worker function using common infrastructure
-_mesh_from_picks_worker = create_batch_worker(mesh_from_picks, "mesh", "picks", min_points=4)
-
-
-# Create batch converter using common infrastructure
-mesh_from_picks_batch = create_batch_converter(
-    mesh_from_picks,
-    "Converting picks to meshes",
-    "mesh",
-    "picks",
-    min_points=4,
-)
-
 # Lazy batch converter for new architecture
 mesh_from_picks_lazy_batch = create_lazy_batch_converter(
     converter_func=mesh_from_picks,
diff --git a/src/copick_utils/converters/mesh_from_segmentation.py b/src/copick_utils/converters/mesh_from_segmentation.py
index edf4036..71ab08c 100644
--- a/src/copick_utils/converters/mesh_from_segmentation.py
+++ b/src/copick_utils/converters/mesh_from_segmentation.py
@@ -7,8 +7,6 @@
 from copick.util.log import get_logger
 
 from copick_utils.converters.converter_common import (
-    create_batch_converter,
-    create_batch_worker,
     store_mesh_with_stats,
 )
 from copick_utils.converters.lazy_converter import create_lazy_batch_converter
@@ -99,19 +97,6 @@ def mesh_from_segmentation(
         return None
 
 
-# Create worker function using common infrastructure
-_mesh_from_segmentation_worker = create_batch_worker(mesh_from_segmentation, "mesh", "segmentation", min_points=0)
-
-
-# Create batch converter using common infrastructure
-mesh_from_segmentation_batch = create_batch_converter(
-    mesh_from_segmentation,
-    "Converting segmentations to meshes",
-    "mesh",
-    "segmentation",
-    min_points=0,
-)
-
 # Lazy batch converter for new architecture
 mesh_from_segmentation_lazy_batch = create_lazy_batch_converter(
     converter_func=mesh_from_segmentation,
diff --git a/src/copick_utils/converters/picks_from_mesh.py b/src/copick_utils/converters/picks_from_mesh.py
index d172aa6..a30795b 100644
--- a/src/copick_utils/converters/picks_from_mesh.py
+++ b/src/copick_utils/converters/picks_from_mesh.py
@@ -1,4 +1,4 @@
-from typing import TYPE_CHECKING, Any, Dict, List, Optional, Sequence, Tuple
+from typing import TYPE_CHECKING, Any, Dict, Optional, Sequence, Tuple
 
 import numpy as np
 import trimesh as tm
@@ -8,7 +8,7 @@
 from copick_utils.converters.lazy_converter import create_lazy_batch_converter
 
 if TYPE_CHECKING:
-    from copick.models import CopickMesh, CopickPicks, CopickRoot, CopickRun
+    from copick.models import CopickMesh, CopickPicks, CopickRun
 
 logger = get_logger(__name__)
 
@@ -459,82 +459,6 @@ def picks_from_mesh_standard(
         return None
 
 
-def picks_from_mesh_batch(
-    root: "CopickRoot",
-    mesh_object_name: str,
-    mesh_user_id: str,
-    mesh_session_id: str,
-    sampling_type: str,
-    n_points: int,
-    pick_object_name: str,
-    pick_session_id: str,
-    pick_user_id: str,
-    voxel_spacing: float,
-    tomo_type: str = "wbp",
-    min_dist: Optional[float] = None,
-    edge_dist: float = 32.0,
-    include_normals: bool = False,
-    random_orientations: bool = False,
-    seed: Optional[int] = None,
-    run_names: Optional[List[str]] = None,
-    workers: int = 8,
-) -> Dict[str, Any]:
-    """
-    Batch convert meshes to picks across multiple runs.
-
-    Args:
-        root: The copick root containing runs to process.
-        mesh_object_name: Name of the mesh object to sample from.
-        mesh_user_id: User ID of the mesh to convert.
-        mesh_session_id: Session ID of the mesh to convert.
-        sampling_type: Type of sampling ('inside', 'surface', 'outside', 'vertices').
-        n_points: Number of points to sample (ignored for 'vertices' type).
-        pick_object_name: Name of the object for created picks.
-        pick_session_id: Session ID for created picks.
-        pick_user_id: User ID for created picks.
-        voxel_spacing: Voxel spacing for coordinate scaling.
-        tomo_type: Tomogram type for getting volume dimensions. Default is 'wbp'.
-        min_dist: Minimum distance between points. If None, uses 2 * voxel_spacing.
-        edge_dist: Distance from volume edges in voxels. Default is 32.0.
-        include_normals: Include surface normals as orientations (surface sampling only). Default is False.
-        random_orientations: Generate random orientations for points. Default is False.
-        seed: Random seed for reproducible results.
-        run_names: List of run names to process. If None, processes all runs.
-        workers: Number of worker processes. Default is 8.
-
-    Returns:
-        Dictionary with processing results and statistics.
-    """
-    from copick.ops.run import map_runs
-
-    runs_to_process = [run.name for run in root.runs] if run_names is None else run_names
-
-    results = map_runs(
-        callback=_picks_from_mesh_worker,
-        root=root,
-        runs=runs_to_process,
-        workers=workers,
-        task_desc="Converting meshes to picks",
-        mesh_object_name=mesh_object_name,
-        mesh_user_id=mesh_user_id,
-        mesh_session_id=mesh_session_id,
-        sampling_type=sampling_type,
-        n_points=n_points,
-        pick_object_name=pick_object_name,
-        pick_session_id=pick_session_id,
-        pick_user_id=pick_user_id,
-        voxel_spacing=voxel_spacing,
-        tomo_type=tomo_type,
-        min_dist=min_dist,
-        edge_dist=edge_dist,
-        include_normals=include_normals,
-        random_orientations=random_orientations,
-        seed=seed,
-    )
-
-    return results
-
-
 # Lazy batch converter for new architecture
 picks_from_mesh_lazy_batch = create_lazy_batch_converter(
     converter_func=picks_from_mesh_standard,
diff --git a/src/copick_utils/converters/picks_from_segmentation.py b/src/copick_utils/converters/picks_from_segmentation.py
index 586efe8..52e60de 100644
--- a/src/copick_utils/converters/picks_from_segmentation.py
+++ b/src/copick_utils/converters/picks_from_segmentation.py
@@ -7,10 +7,6 @@
 from skimage.morphology import ball, binary_dilation, binary_erosion
 from skimage.segmentation import watershed
 
-from copick_utils.converters.converter_common import (
-    create_batch_converter,
-    create_batch_worker,
-)
 from copick_utils.converters.lazy_converter import create_lazy_batch_converter
 
 if TYPE_CHECKING:
@@ -148,19 +144,6 @@ def picks_from_segmentation(
         return None
 
 
-# Create worker function using common infrastructure
-_picks_from_segmentation_worker = create_batch_worker(picks_from_segmentation, "picks", "segmentation", min_points=0)
-
-
-# Create batch converter using common infrastructure
-picks_from_segmentation_batch = create_batch_converter(
-    picks_from_segmentation,
-    "Converting segmentations to picks",
-    "picks",
-    "segmentation",
-    min_points=0,
-)
-
 # Lazy batch converter for new architecture
 picks_from_segmentation_lazy_batch = create_lazy_batch_converter(
     converter_func=picks_from_segmentation,
diff --git a/src/copick_utils/converters/plane_from_picks.py b/src/copick_utils/converters/plane_from_picks.py
index dd1681c..beffed2 100644
--- a/src/copick_utils/converters/plane_from_picks.py
+++ b/src/copick_utils/converters/plane_from_picks.py
@@ -7,8 +7,6 @@
 
 from copick_utils.converters.converter_common import (
     cluster,
-    create_batch_converter,
-    create_batch_worker,
     store_mesh_with_stats,
     validate_points,
 )
@@ -232,18 +230,6 @@ def create_plane_from_points(cluster_points):
         return None
 
 
-# Create worker function using common infrastructure
-_plane_from_picks_worker = create_batch_worker(plane_from_picks, "plane", min_points=3)
-
-
-# Create batch converter using common infrastructure
-plane_from_picks_batch = create_batch_converter(
-    plane_from_picks,
-    "Converting picks to plane meshes",
-    "plane",
-    min_points=3,
-)
-
 # Lazy batch converter for new architecture
 plane_from_picks_lazy_batch = create_lazy_batch_converter(
     converter_func=plane_from_picks,
diff --git a/src/copick_utils/converters/segmentation_from_mesh.py b/src/copick_utils/converters/segmentation_from_mesh.py
index d276391..1ddda10 100644
--- a/src/copick_utils/converters/segmentation_from_mesh.py
+++ b/src/copick_utils/converters/segmentation_from_mesh.py
@@ -8,10 +8,6 @@
 from copick.util.log import get_logger
 from trimesh.ray.ray_triangle import RayMeshIntersector
 
-from copick_utils.converters.converter_common import (
-    create_batch_converter,
-    create_batch_worker,
-)
 from copick_utils.converters.lazy_converter import create_lazy_batch_converter
 
 if TYPE_CHECKING:
@@ -271,19 +267,6 @@ def segmentation_from_mesh(
         return None
 
 
-# Create worker function using common infrastructure
-_segmentation_from_mesh_worker = create_batch_worker(segmentation_from_mesh, "segmentation", "mesh", min_points=0)
-
-
-# Create batch converter using common infrastructure
-segmentation_from_mesh_batch = create_batch_converter(
-    segmentation_from_mesh,
-    "Converting meshes to segmentations",
-    "segmentation",
-    "mesh",
-    min_points=0,
-)
-
 # Lazy batch converter for new architecture
 segmentation_from_mesh_lazy_batch = create_lazy_batch_converter(
     converter_func=segmentation_from_mesh,
diff --git a/src/copick_utils/converters/segmentation_from_picks.py b/src/copick_utils/converters/segmentation_from_picks.py
index 6b3fd9c..ff6905f 100644
--- a/src/copick_utils/converters/segmentation_from_picks.py
+++ b/src/copick_utils/converters/segmentation_from_picks.py
@@ -5,10 +5,6 @@
 from copick.util.log import get_logger
 from scipy.ndimage import zoom
 
-from copick_utils.converters.converter_common import (
-    create_batch_converter,
-    create_batch_worker,
-)
 from copick_utils.converters.lazy_converter import create_lazy_batch_converter
 
 if TYPE_CHECKING:
@@ -277,19 +273,6 @@ def segmentation_from_picks(
         return None
 
 
-# Create worker function using common infrastructure
-_segmentation_from_picks_worker = create_batch_worker(segmentation_from_picks, "segmentation", "picks", min_points=1)
-
-
-# Create batch converter using common infrastructure
-segmentation_from_picks_batch = create_batch_converter(
-    segmentation_from_picks,
-    "Converting picks to segmentations",
-    "segmentation",
-    "picks",
-    min_points=1,
-)
-
 # Lazy batch converter for new architecture
 segmentation_from_picks_lazy_batch = create_lazy_batch_converter(
     converter_func=segmentation_from_picks,
diff --git a/src/copick_utils/converters/sphere_from_picks.py b/src/copick_utils/converters/sphere_from_picks.py
index 527f52b..b1ab13a 100644
--- a/src/copick_utils/converters/sphere_from_picks.py
+++ b/src/copick_utils/converters/sphere_from_picks.py
@@ -7,8 +7,6 @@
 
 from copick_utils.converters.converter_common import (
     cluster,
-    create_batch_converter,
-    create_batch_worker,
     store_mesh_with_stats,
     validate_points,
 )
@@ -287,18 +285,6 @@ def sphere_from_picks(
         return None
 
 
-# Create worker function using common infrastructure
-_sphere_from_picks_worker = create_batch_worker(sphere_from_picks, "sphere", min_points=4)
-
-
-# Create batch converter using common infrastructure
-sphere_from_picks_batch = create_batch_converter(
-    sphere_from_picks,
-    "Converting picks to sphere meshes",
-    "sphere",
-    min_points=4,
-)
-
 # Lazy batch converter for new architecture
 sphere_from_picks_lazy_batch = create_lazy_batch_converter(
     converter_func=sphere_from_picks,
diff --git a/src/copick_utils/converters/surface_from_picks.py b/src/copick_utils/converters/surface_from_picks.py
index c9aaa84..fac20ac 100644
--- a/src/copick_utils/converters/surface_from_picks.py
+++ b/src/copick_utils/converters/surface_from_picks.py
@@ -9,8 +9,6 @@
 
 from copick_utils.converters.converter_common import (
     cluster,
-    create_batch_converter,
-    create_batch_worker,
     store_mesh_with_stats,
     validate_points,
 )
@@ -318,18 +316,6 @@ def create_surface_from_points(cluster_points):
         return None
 
 
-# Create worker function using common infrastructure
-_surface_from_picks_worker = create_batch_worker(surface_from_picks, "surface", min_points=3)
-
-
-# Create batch converter using common infrastructure
-surface_from_picks_batch = create_batch_converter(
-    surface_from_picks,
-    "Converting picks to surface meshes",
-    "surface",
-    min_points=3,
-)
-
 # Lazy batch converter for new architecture
 surface_from_picks_lazy_batch = create_lazy_batch_converter(
     converter_func=surface_from_picks,
diff --git a/src/copick_utils/logical/distance_operations.py b/src/copick_utils/logical/distance_operations.py
index 2c2f5bf..0b7a4e6 100644
--- a/src/copick_utils/logical/distance_operations.py
+++ b/src/copick_utils/logical/distance_operations.py
@@ -7,8 +7,6 @@
 from copick.util.log import get_logger
 
 from copick_utils.converters.converter_common import (
-    create_batch_converter,
-    create_batch_worker,
     store_mesh_with_stats,
 )
 from copick_utils.converters.lazy_converter import create_lazy_batch_converter
@@ -552,41 +550,6 @@ def limit_picks_by_distance(
         return None
 
 
-# Create batch workers
-_limit_mesh_by_distance_worker = create_batch_worker(limit_mesh_by_distance, "mesh", "mesh", min_points=0)
-_limit_segmentation_by_distance_worker = create_batch_worker(
-    limit_segmentation_by_distance,
-    "segmentation",
-    "segmentation",
-    min_points=0,
-)
-_limit_picks_by_distance_worker = create_batch_worker(limit_picks_by_distance, "picks", "picks", min_points=1)
-
-# Create batch converters
-limit_mesh_by_distance_batch = create_batch_converter(
-    limit_mesh_by_distance,
-    "Limiting meshes by distance",
-    "mesh",
-    "mesh",
-    min_points=0,
-)
-
-limit_segmentation_by_distance_batch = create_batch_converter(
-    limit_segmentation_by_distance,
-    "Limiting segmentations by distance",
-    "segmentation",
-    "segmentation",
-    min_points=0,
-)
-
-limit_picks_by_distance_batch = create_batch_converter(
-    limit_picks_by_distance,
-    "Limiting picks by distance",
-    "picks",
-    "picks",
-    min_points=1,
-)
-
 # Lazy batch converters for new architecture
 limit_segmentation_by_distance_lazy_batch = create_lazy_batch_converter(
     converter_func=limit_segmentation_by_distance,
diff --git a/src/copick_utils/logical/mesh_operations.py b/src/copick_utils/logical/mesh_operations.py
index 5ba913e..edce9ac 100644
--- a/src/copick_utils/logical/mesh_operations.py
+++ b/src/copick_utils/logical/mesh_operations.py
@@ -6,8 +6,6 @@
 from copick.util.log import get_logger
 
 from copick_utils.converters.converter_common import (
-    create_batch_converter,
-    create_batch_worker,
     store_mesh_with_stats,
 )
 from copick_utils.converters.lazy_converter import create_lazy_batch_converter
@@ -352,59 +350,6 @@ def mesh_multi_concatenate(
         return None
 
 
-# Create batch workers for each operation
-_mesh_union_worker = create_batch_worker(mesh_union, "mesh", "mesh", min_points=0)
-_mesh_difference_worker = create_batch_worker(mesh_difference, "mesh", "mesh", min_points=0)
-_mesh_intersection_worker = create_batch_worker(mesh_intersection, "mesh", "mesh", min_points=0)
-_mesh_exclusion_worker = create_batch_worker(mesh_exclusion, "mesh", "mesh", min_points=0)
-_mesh_concatenate_worker = create_batch_worker(mesh_concatenate, "mesh", "mesh", min_points=0)
-
-# Create batch converters
-mesh_union_batch = create_batch_converter(
-    mesh_union,
-    "Computing mesh unions",
-    "mesh",
-    "mesh",
-    min_points=0,
-    dual_input=True,
-)
-
-mesh_difference_batch = create_batch_converter(
-    mesh_difference,
-    "Computing mesh differences",
-    "mesh",
-    "mesh",
-    min_points=0,
-    dual_input=True,
-)
-
-mesh_intersection_batch = create_batch_converter(
-    mesh_intersection,
-    "Computing mesh intersections",
-    "mesh",
-    "mesh",
-    min_points=0,
-    dual_input=True,
-)
-
-mesh_exclusion_batch = create_batch_converter(
-    mesh_exclusion,
-    "Computing mesh exclusions",
-    "mesh",
-    "mesh",
-    min_points=0,
-    dual_input=True,
-)
-
-mesh_concatenate_batch = create_batch_converter(
-    mesh_concatenate,
-    "Computing mesh concatenations",
-    "mesh",
-    "mesh",
-    min_points=0,
-    dual_input=True,
-)
-
 # Lazy batch converters for new architecture
 mesh_union_lazy_batch = create_lazy_batch_converter(
     converter_func=mesh_union,
diff --git a/src/copick_utils/logical/point_operations.py b/src/copick_utils/logical/point_operations.py
index 328a69a..dd2af18 100644
--- a/src/copick_utils/logical/point_operations.py
+++ b/src/copick_utils/logical/point_operations.py
@@ -6,10 +6,6 @@
 import trimesh as tm
 from copick.util.log import get_logger
 
-from copick_utils.converters.converter_common import (
-    create_batch_converter,
-    create_batch_worker,
-)
 from copick_utils.converters.lazy_converter import create_lazy_batch_converter
 
 if TYPE_CHECKING:
@@ -270,27 +266,6 @@ def picks_exclusion_by_mesh(
         return None
 
 
-# Create batch workers
-_picks_inclusion_by_mesh_worker = create_batch_worker(picks_inclusion_by_mesh, "picks", "picks", min_points=1)
-_picks_exclusion_by_mesh_worker = create_batch_worker(picks_exclusion_by_mesh, "picks", "picks", min_points=1)
-
-# Create batch converters
-picks_inclusion_by_mesh_batch = create_batch_converter(
-    picks_inclusion_by_mesh,
-    "Filtering picks by inclusion",
-    "picks",
-    "picks",
-    min_points=1,
-)
-
-picks_exclusion_by_mesh_batch = create_batch_converter(
-    picks_exclusion_by_mesh,
-    "Filtering picks by exclusion",
-    "picks",
-    "picks",
-    min_points=1,
-)
-
 # Lazy batch converters for new architecture
 picks_inclusion_by_mesh_lazy_batch = create_lazy_batch_converter(
     converter_func=picks_inclusion_by_mesh,
diff --git a/src/copick_utils/logical/segmentation_operations.py b/src/copick_utils/logical/segmentation_operations.py
index 9c9f903..e9fe0b0 100644
--- a/src/copick_utils/logical/segmentation_operations.py
+++ b/src/copick_utils/logical/segmentation_operations.py
@@ -5,10 +5,6 @@
 import numpy as np
 from copick.util.log import get_logger
 
-from copick_utils.converters.converter_common import (
-    create_batch_converter,
-    create_batch_worker,
-)
 from copick_utils.converters.lazy_converter import create_lazy_batch_converter
 
 if TYPE_CHECKING:
@@ -313,64 +309,6 @@ def segmentation_multi_union(
         return None
 
 
-# Create batch workers for each operation
-_segmentation_union_worker = create_batch_worker(segmentation_union, "segmentation", "segmentation", min_points=0)
-_segmentation_difference_worker = create_batch_worker(
-    segmentation_difference,
-    "segmentation",
-    "segmentation",
-    min_points=0,
-)
-_segmentation_intersection_worker = create_batch_worker(
-    segmentation_intersection,
-    "segmentation",
-    "segmentation",
-    min_points=0,
-)
-_segmentation_exclusion_worker = create_batch_worker(
-    segmentation_exclusion,
-    "segmentation",
-    "segmentation",
-    min_points=0,
-)
-
-# Create batch converters
-segmentation_union_batch = create_batch_converter(
-    segmentation_union,
-    "Computing segmentation unions",
-    "segmentation",
-    "segmentation",
-    min_points=0,
-    dual_input=True,
-)
-
-segmentation_difference_batch = create_batch_converter(
-    segmentation_difference,
-    "Computing segmentation differences",
-    "segmentation",
-    "segmentation",
-    min_points=0,
-    dual_input=True,
-)
-
-segmentation_intersection_batch = create_batch_converter(
-    segmentation_intersection,
-    "Computing segmentation intersections",
-    "segmentation",
-    "segmentation",
-    min_points=0,
-    dual_input=True,
-)
-
-segmentation_exclusion_batch = create_batch_converter(
-    segmentation_exclusion,
-    "Computing segmentation exclusions",
-    "segmentation",
-    "segmentation",
-    min_points=0,
-    dual_input=True,
-)
-
 # Lazy batch converters for new architecture
 segmentation_union_lazy_batch = create_lazy_batch_converter(
     converter_func=segmentation_union,

From 1796c25c7a3b09a106ca11a7dc8678ba81f3f139 Mon Sep 17 00:00:00 2001
From: uermel <uermel@czii.org>
Date: Thu, 16 Oct 2025 18:42:24 -0700
Subject: [PATCH 2/2] remove unnecessary docs

---
 src/copick_utils/cli/segop.py | 6 ------
 1 file changed, 6 deletions(-)

diff --git a/src/copick_utils/cli/segop.py b/src/copick_utils/cli/segop.py
index 89b8d21..3f9ffaf 100644
--- a/src/copick_utils/cli/segop.py
+++ b/src/copick_utils/cli/segop.py
@@ -79,12 +79,6 @@ def segop(
     Note: All segmentations are converted to binary for boolean operations.
     Voxel spacing applies globally to all inputs and output.
 
-    \b
-    Single-Input Pattern Expansion (union only):
-        When providing a single -i flag with a pattern, the union operation will
-        expand the pattern within each run and merge all matching segmentations.
-        This is useful for combining multiple versions/annotations within each run.
-
     \b
     Examples:
         # Single-input union: merge all matching segmentations within each run