Reset to last feature

Author: eigenvivek

.gitconfig

@@ -1,3 +1,11 @@
+# Generated by nbdev_install_hooks
+#
+# If you need to disable this instrumentation do:
+#   git config --local --unset include.path
+#
+# To restore:
+#   git config --local include.path ../.gitconfig
+#
 [merge "nbdev-merge"]
 	name = resolve conflicts with nbdev_fix
 	driver = nbdev_merge %O %A %B %P

.gitignore

@@ -98,4 +98,4 @@ target/
 .mypy_cache/
 
 # Jupyter notebooks
-.last_checked
+**/.last_checked

diffdrr/__init__.py

@@ -1 +1 @@
-__version__ = "0.4.3"
+__version__ = "0.4.2"

diffdrr/visualization.py

@@ -181,6 +181,7 @@ def drr_to_mesh(
     subject: Subject,  # torchio.Subject with a `volume` attribute
     method: str,  # Either `surface_nets` or `marching_cubes`
     threshold: float = 150,  # Min value for marching cubes (Hounsfield units)
+    extract_largest: bool = True,  # Extract the largest connected component from the mesh
     verbose: bool = True,  # Display progress bars for mesh processing steps
 ):
     """
@@ -190,7 +191,7 @@ def drr_to_mesh(
 
     The mesh processing steps are:
 
-    1. Keep only largest connected components
+    1. Keep only largest connected components (optional)
     2. Smooth
     3. Decimate (if `method=="marching_cubes"`)
     4. Fill any holes
@@ -229,7 +230,8 @@ def drr_to_mesh(
     mesh = mesh.transform(subject.volume.affine.squeeze())
 
     # Preprocess the mesh
-    mesh.extract_largest(inplace=True, progress_bar=verbose)
+    if extract_largest:
+        mesh.extract_largest(inplace=True, progress_bar=verbose)
     mesh.point_data.clear()
     mesh.cell_data.clear()
     mesh.smooth_taubin(

notebooks/api/04_visualization.ipynb

@@ -286,6 +286,7 @@
     "    subject: Subject,  # torchio.Subject with a `volume` attribute\n",
     "    method: str,  # Either `surface_nets` or `marching_cubes`\n",
     "    threshold: float = 150,  # Min value for marching cubes (Hounsfield units)\n",
+    "    extract_largest: bool = True,  # Extract the largest connected component from the mesh\n",
     "    verbose: bool = True,  # Display progress bars for mesh processing steps\n",
     "):\n",
     "    \"\"\"\n",
@@ -295,7 +296,7 @@
     "\n",
     "    The mesh processing steps are:\n",
     "\n",
-    "    1. Keep only largest connected components\n",
+    "    1. Keep only largest connected components (optional)\n",
     "    2. Smooth\n",
     "    3. Decimate (if `method==\"marching_cubes\"`)\n",
     "    4. Fill any holes\n",
@@ -334,7 +335,8 @@
     "    mesh = mesh.transform(subject.volume.affine.squeeze())\n",
     "\n",
     "    # Preprocess the mesh\n",
-    "    mesh.extract_largest(inplace=True, progress_bar=verbose)\n",
+    "    if extract_largest:\n",
+    "        mesh.extract_largest(inplace=True, progress_bar=verbose)\n",
     "    mesh.point_data.clear()\n",
     "    mesh.cell_data.clear()\n",
     "    mesh.smooth_taubin(\n",

settings.ini

@@ -1,7 +1,7 @@
 [DEFAULT]
 repo = DiffDRR
 lib_name = diffdrr
-version = 0.4.3
+version = 0.4.2
 min_python = 3.8
 license = mit
 black_formatting = True
@@ -36,4 +36,3 @@ allowed_cell_metadata_keys =
 jupyter_hooks = True
 clean_ids = True
 clear_all = False
-