dcccpy 0.3.0a2__tar.gz → 0.3.0a3__tar.gz

{dcccpy-0.3.0a2/src/dcccpy.egg-info → dcccpy-0.3.0a3}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: dcccpy
-Version: 0.3.0a2
+Version: 0.3.0a3
 Summary: Python wrapper for the DCCCcore PET biomarker command-line tool
 Author: DCCCSlicer contributors
 License-Expression: CC-BY-NC-ND-4.0
@@ -17,17 +17,17 @@ Requires-Python: >=3.9
 Description-Content-Type: text/markdown
 Requires-Dist: nibabel>=5
 Provides-Extra: linux-runtime
-Requires-Dist: dcccpy-linux-runtime==0.2.0a1; (sys_platform == "linux" and platform_machine == "x86_64") and extra == "linux-runtime"
-Requires-Dist: dcccpy-linux-arm64-runtime==0.2.0a1; (sys_platform == "linux" and platform_machine == "aarch64") and extra == "linux-runtime"
+Requires-Dist: dcccpy-linux-runtime==0.2.0a2; (sys_platform == "linux" and platform_machine == "x86_64") and extra == "linux-runtime"
+Requires-Dist: dcccpy-linux-arm64-runtime==0.2.0a2; (sys_platform == "linux" and platform_machine == "aarch64") and extra == "linux-runtime"
 Provides-Extra: windows-runtime
-Requires-Dist: dcccpy-windows-runtime==0.2.0a1; (sys_platform == "win32" and platform_machine == "AMD64") and extra == "windows-runtime"
+Requires-Dist: dcccpy-windows-runtime==0.2.0a2; (sys_platform == "win32" and platform_machine == "AMD64") and extra == "windows-runtime"
 Provides-Extra: macos-runtime
-Requires-Dist: dcccpy-macos-runtime==0.2.0a1; (sys_platform == "darwin" and platform_machine == "arm64") and extra == "macos-runtime"
+Requires-Dist: dcccpy-macos-runtime==0.2.0a2; (sys_platform == "darwin" and platform_machine == "arm64") and extra == "macos-runtime"
 Provides-Extra: runtime
-Requires-Dist: dcccpy-linux-runtime==0.2.0a1; (sys_platform == "linux" and platform_machine == "x86_64") and extra == "runtime"
-Requires-Dist: dcccpy-linux-arm64-runtime==0.2.0a1; (sys_platform == "linux" and platform_machine == "aarch64") and extra == "runtime"
-Requires-Dist: dcccpy-windows-runtime==0.2.0a1; (sys_platform == "win32" and platform_machine == "AMD64") and extra == "runtime"
-Requires-Dist: dcccpy-macos-runtime==0.2.0a1; (sys_platform == "darwin" and platform_machine == "arm64") and extra == "runtime"
+Requires-Dist: dcccpy-linux-runtime==0.2.0a2; (sys_platform == "linux" and platform_machine == "x86_64") and extra == "runtime"
+Requires-Dist: dcccpy-linux-arm64-runtime==0.2.0a2; (sys_platform == "linux" and platform_machine == "aarch64") and extra == "runtime"
+Requires-Dist: dcccpy-windows-runtime==0.2.0a2; (sys_platform == "win32" and platform_machine == "AMD64") and extra == "runtime"
+Requires-Dist: dcccpy-macos-runtime==0.2.0a2; (sys_platform == "darwin" and platform_machine == "arm64") and extra == "runtime"
 
 # dcccpy
 
@@ -147,6 +147,7 @@ dcccpy.adni_pet_core(
     "standardized.nii.gz",
     tracer="fdg",
     level=(1, 3),
+    deface=True,
 )
 ```
 
@@ -155,9 +156,14 @@ Level 3 is the standardized ADNI-style image. The output argument names the
 highest selected level, while selected lower levels receive `_Coreg` or
 `_Coreg_Avg` suffixes.
 
-`adni_pet_core` deliberately has no default tracer. Use `abeta`, `tau`, or
-`fdg`; FDG selects ADNI's iterative masked global-mean normalization, while
-Aβ and tau retain cerebellar gray normalization.
+Set `deface=True` to zero facial voxels in every selected output. Motion and
+spatial transforms are estimated from the original PET before the privacy mask
+is applied, so the flag does not change the estimated alignment.
+
+`adni_pet_core` deliberately has no default tracer. Use `abeta`, `tau`, `fdg`,
+or `dat`; FDG selects ADNI's iterative masked global-mean normalization,
+DAT selects PPMI-style occipital-reference normalization, and Aβ/tau retain
+cerebellar gray normalization.
 
 Downloaded ADNI preprocessed FDG DICOMs can differ slightly from the exact
 published iteration. See the repository's
@@ -206,7 +212,7 @@ the calculation again.
 Release wheels should vendor the matching `DCCCcore` runtime tree before build:
 
 ```bash
-python scripts/vendor_dccccore.py --version 4.5.0-alpha --release-platform ubuntu-latest-x64
+python scripts/vendor_dccccore.py --version 4.5.1-alpha --release-platform ubuntu-latest-x64
 python -m build --wheel
 ```
 
@@ -214,7 +220,7 @@ The Linux ARM64 runtime package uses the corresponding release asset:
 
 ```bash
 cd python/dcccpy-linux-arm64-runtime
-python scripts/vendor_dccccore.py --version 4.5.0-alpha --release-platform ubuntu-latest-arm64
+python scripts/vendor_dccccore.py --version 4.5.1-alpha --release-platform ubuntu-latest-arm64
 python -m build --wheel
 ```
 
@@ -232,7 +238,7 @@ The preferred distribution layout is:
 
 ## Packaging note
 
-The current optional runtime wheels use a PyPI-size profile for DCCCcore version 4.5.0-alpha. They omit the
+The current optional runtime wheels use a PyPI-size profile for DCCCcore version 4.5.1-alpha. They omit the
 `fast_and_acc` registration model/config and the ADAD decoupler ONNX ensemble,
 while keeping the default spatial normalization model and assets needed by
 common Centiloid/CenTauR/CenTauRz workflows.

{dcccpy-0.3.0a2 → dcccpy-0.3.0a3}/README.md

@@ -116,6 +116,7 @@ dcccpy.adni_pet_core(
     "standardized.nii.gz",
     tracer="fdg",
     level=(1, 3),
+    deface=True,
 )
 ```
 
@@ -124,9 +125,14 @@ Level 3 is the standardized ADNI-style image. The output argument names the
 highest selected level, while selected lower levels receive `_Coreg` or
 `_Coreg_Avg` suffixes.
 
-`adni_pet_core` deliberately has no default tracer. Use `abeta`, `tau`, or
-`fdg`; FDG selects ADNI's iterative masked global-mean normalization, while
-Aβ and tau retain cerebellar gray normalization.
+Set `deface=True` to zero facial voxels in every selected output. Motion and
+spatial transforms are estimated from the original PET before the privacy mask
+is applied, so the flag does not change the estimated alignment.
+
+`adni_pet_core` deliberately has no default tracer. Use `abeta`, `tau`, `fdg`,
+or `dat`; FDG selects ADNI's iterative masked global-mean normalization,
+DAT selects PPMI-style occipital-reference normalization, and Aβ/tau retain
+cerebellar gray normalization.
 
 Downloaded ADNI preprocessed FDG DICOMs can differ slightly from the exact
 published iteration. See the repository's
@@ -175,7 +181,7 @@ the calculation again.
 Release wheels should vendor the matching `DCCCcore` runtime tree before build:
 
 ```bash
-python scripts/vendor_dccccore.py --version 4.5.0-alpha --release-platform ubuntu-latest-x64
+python scripts/vendor_dccccore.py --version 4.5.1-alpha --release-platform ubuntu-latest-x64
 python -m build --wheel
 ```
 
@@ -183,7 +189,7 @@ The Linux ARM64 runtime package uses the corresponding release asset:
 
 ```bash
 cd python/dcccpy-linux-arm64-runtime
-python scripts/vendor_dccccore.py --version 4.5.0-alpha --release-platform ubuntu-latest-arm64
+python scripts/vendor_dccccore.py --version 4.5.1-alpha --release-platform ubuntu-latest-arm64
 python -m build --wheel
 ```
 
@@ -201,7 +207,7 @@ The preferred distribution layout is:
 
 ## Packaging note
 
-The current optional runtime wheels use a PyPI-size profile for DCCCcore version 4.5.0-alpha. They omit the
+The current optional runtime wheels use a PyPI-size profile for DCCCcore version 4.5.1-alpha. They omit the
 `fast_and_acc` registration model/config and the ADAD decoupler ONNX ensemble,
 while keeping the default spatial normalization model and assets needed by
 common Centiloid/CenTauR/CenTauRz workflows.

{dcccpy-0.3.0a2 → dcccpy-0.3.0a3}/pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "dcccpy"
-version = "0.3.0a2"
+version = "0.3.0a3"
 description = "Python wrapper for the DCCCcore PET biomarker command-line tool"
 readme = "README.md"
 requires-python = ">=3.9"
@@ -31,16 +31,16 @@ Issues = "https://github.com/tctco/DCCCSlicer/issues"
 
 [project.optional-dependencies]
 linux-runtime = [
-  "dcccpy-linux-runtime==0.2.0a1; sys_platform == 'linux' and platform_machine == 'x86_64'",
-  "dcccpy-linux-arm64-runtime==0.2.0a1; sys_platform == 'linux' and platform_machine == 'aarch64'",
+  "dcccpy-linux-runtime==0.2.0a2; sys_platform == 'linux' and platform_machine == 'x86_64'",
+  "dcccpy-linux-arm64-runtime==0.2.0a2; sys_platform == 'linux' and platform_machine == 'aarch64'",
 ]
-windows-runtime = ["dcccpy-windows-runtime==0.2.0a1; sys_platform == 'win32' and platform_machine == 'AMD64'"]
-macos-runtime = ["dcccpy-macos-runtime==0.2.0a1; sys_platform == 'darwin' and platform_machine == 'arm64'"]
+windows-runtime = ["dcccpy-windows-runtime==0.2.0a2; sys_platform == 'win32' and platform_machine == 'AMD64'"]
+macos-runtime = ["dcccpy-macos-runtime==0.2.0a2; sys_platform == 'darwin' and platform_machine == 'arm64'"]
 runtime = [
-  "dcccpy-linux-runtime==0.2.0a1; sys_platform == 'linux' and platform_machine == 'x86_64'",
-  "dcccpy-linux-arm64-runtime==0.2.0a1; sys_platform == 'linux' and platform_machine == 'aarch64'",
-  "dcccpy-windows-runtime==0.2.0a1; sys_platform == 'win32' and platform_machine == 'AMD64'",
-  "dcccpy-macos-runtime==0.2.0a1; sys_platform == 'darwin' and platform_machine == 'arm64'",
+  "dcccpy-linux-runtime==0.2.0a2; sys_platform == 'linux' and platform_machine == 'x86_64'",
+  "dcccpy-linux-arm64-runtime==0.2.0a2; sys_platform == 'linux' and platform_machine == 'aarch64'",
+  "dcccpy-windows-runtime==0.2.0a2; sys_platform == 'win32' and platform_machine == 'AMD64'",
+  "dcccpy-macos-runtime==0.2.0a2; sys_platform == 'darwin' and platform_machine == 'arm64'",
 ]
 
 [project.scripts]

{dcccpy-0.3.0a2 → dcccpy-0.3.0a3}/src/dcccpy/core.py

@@ -412,6 +412,7 @@ def adni_pet_core(
     *,
     tracer: str,
     level: int | Sequence[int] = 3,
+    deface: bool = False,
     **kwargs: object,
 ) -> DCCCResult:
     """Run tracer-specific ADNI PET Core preprocessing.
@@ -419,6 +420,7 @@ def adni_pet_core(
     ``level`` accepts one level or a sequence: 1 exports Coreg, 2 exports
     Coreg/Avg, and 3 exports the standardized image. Multiple levels produce
     multiple files while ``output`` identifies the deepest requested level.
+    Set ``deface=True`` to zero facial voxels after transform estimation.
     """
 
     extra_args = list(kwargs.pop("extra_args", ()))
@@ -428,6 +430,8 @@ def adni_pet_core(
         raise ValueError("level must contain one or more of: 1, 2, 3")
     if levels != (3,):
         extra_args.extend(["--level", *(str(value) for value in levels)])
+    if deface:
+        extra_args.append("--deface")
     return _spatial_command("adni-pet-core", input, output, extra_args=extra_args, **kwargs)
 
 

{dcccpy-0.3.0a2 → dcccpy-0.3.0a3}/src/dcccpy/runtime.py

@@ -12,7 +12,7 @@ from pathlib import Path
 from typing import Iterable
 
 
-DCCCCORE_VERSION = "4.5.0-alpha"
+DCCCCORE_VERSION = "4.5.1-alpha"
 RELEASE_REPO = "tctco/DCCCSlicer"
 
 

{dcccpy-0.3.0a2 → dcccpy-0.3.0a3/src/dcccpy.egg-info}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: dcccpy
-Version: 0.3.0a2
+Version: 0.3.0a3
 Summary: Python wrapper for the DCCCcore PET biomarker command-line tool
 Author: DCCCSlicer contributors
 License-Expression: CC-BY-NC-ND-4.0
@@ -17,17 +17,17 @@ Requires-Python: >=3.9
 Description-Content-Type: text/markdown
 Requires-Dist: nibabel>=5
 Provides-Extra: linux-runtime
-Requires-Dist: dcccpy-linux-runtime==0.2.0a1; (sys_platform == "linux" and platform_machine == "x86_64") and extra == "linux-runtime"
-Requires-Dist: dcccpy-linux-arm64-runtime==0.2.0a1; (sys_platform == "linux" and platform_machine == "aarch64") and extra == "linux-runtime"
+Requires-Dist: dcccpy-linux-runtime==0.2.0a2; (sys_platform == "linux" and platform_machine == "x86_64") and extra == "linux-runtime"
+Requires-Dist: dcccpy-linux-arm64-runtime==0.2.0a2; (sys_platform == "linux" and platform_machine == "aarch64") and extra == "linux-runtime"
 Provides-Extra: windows-runtime
-Requires-Dist: dcccpy-windows-runtime==0.2.0a1; (sys_platform == "win32" and platform_machine == "AMD64") and extra == "windows-runtime"
+Requires-Dist: dcccpy-windows-runtime==0.2.0a2; (sys_platform == "win32" and platform_machine == "AMD64") and extra == "windows-runtime"
 Provides-Extra: macos-runtime
-Requires-Dist: dcccpy-macos-runtime==0.2.0a1; (sys_platform == "darwin" and platform_machine == "arm64") and extra == "macos-runtime"
+Requires-Dist: dcccpy-macos-runtime==0.2.0a2; (sys_platform == "darwin" and platform_machine == "arm64") and extra == "macos-runtime"
 Provides-Extra: runtime
-Requires-Dist: dcccpy-linux-runtime==0.2.0a1; (sys_platform == "linux" and platform_machine == "x86_64") and extra == "runtime"
-Requires-Dist: dcccpy-linux-arm64-runtime==0.2.0a1; (sys_platform == "linux" and platform_machine == "aarch64") and extra == "runtime"
-Requires-Dist: dcccpy-windows-runtime==0.2.0a1; (sys_platform == "win32" and platform_machine == "AMD64") and extra == "runtime"
-Requires-Dist: dcccpy-macos-runtime==0.2.0a1; (sys_platform == "darwin" and platform_machine == "arm64") and extra == "runtime"
+Requires-Dist: dcccpy-linux-runtime==0.2.0a2; (sys_platform == "linux" and platform_machine == "x86_64") and extra == "runtime"
+Requires-Dist: dcccpy-linux-arm64-runtime==0.2.0a2; (sys_platform == "linux" and platform_machine == "aarch64") and extra == "runtime"
+Requires-Dist: dcccpy-windows-runtime==0.2.0a2; (sys_platform == "win32" and platform_machine == "AMD64") and extra == "runtime"
+Requires-Dist: dcccpy-macos-runtime==0.2.0a2; (sys_platform == "darwin" and platform_machine == "arm64") and extra == "runtime"
 
 # dcccpy
 
@@ -147,6 +147,7 @@ dcccpy.adni_pet_core(
     "standardized.nii.gz",
     tracer="fdg",
     level=(1, 3),
+    deface=True,
 )
 ```
 
@@ -155,9 +156,14 @@ Level 3 is the standardized ADNI-style image. The output argument names the
 highest selected level, while selected lower levels receive `_Coreg` or
 `_Coreg_Avg` suffixes.
 
-`adni_pet_core` deliberately has no default tracer. Use `abeta`, `tau`, or
-`fdg`; FDG selects ADNI's iterative masked global-mean normalization, while
-Aβ and tau retain cerebellar gray normalization.
+Set `deface=True` to zero facial voxels in every selected output. Motion and
+spatial transforms are estimated from the original PET before the privacy mask
+is applied, so the flag does not change the estimated alignment.
+
+`adni_pet_core` deliberately has no default tracer. Use `abeta`, `tau`, `fdg`,
+or `dat`; FDG selects ADNI's iterative masked global-mean normalization,
+DAT selects PPMI-style occipital-reference normalization, and Aβ/tau retain
+cerebellar gray normalization.
 
 Downloaded ADNI preprocessed FDG DICOMs can differ slightly from the exact
 published iteration. See the repository's
@@ -206,7 +212,7 @@ the calculation again.
 Release wheels should vendor the matching `DCCCcore` runtime tree before build:
 
 ```bash
-python scripts/vendor_dccccore.py --version 4.5.0-alpha --release-platform ubuntu-latest-x64
+python scripts/vendor_dccccore.py --version 4.5.1-alpha --release-platform ubuntu-latest-x64
 python -m build --wheel
 ```
 
@@ -214,7 +220,7 @@ The Linux ARM64 runtime package uses the corresponding release asset:
 
 ```bash
 cd python/dcccpy-linux-arm64-runtime
-python scripts/vendor_dccccore.py --version 4.5.0-alpha --release-platform ubuntu-latest-arm64
+python scripts/vendor_dccccore.py --version 4.5.1-alpha --release-platform ubuntu-latest-arm64
 python -m build --wheel
 ```
 
@@ -232,7 +238,7 @@ The preferred distribution layout is:
 
 ## Packaging note
 
-The current optional runtime wheels use a PyPI-size profile for DCCCcore version 4.5.0-alpha. They omit the
+The current optional runtime wheels use a PyPI-size profile for DCCCcore version 4.5.1-alpha. They omit the
 `fast_and_acc` registration model/config and the ADAD decoupler ONNX ensemble,
 while keeping the default spatial normalization model and assets needed by
 common Centiloid/CenTauR/CenTauRz workflows.

{dcccpy-0.3.0a2 → dcccpy-0.3.0a3}/src/dcccpy.egg-info/requires.txt

@@ -3,31 +3,31 @@ nibabel>=5
 [linux-runtime]
 
 [linux-runtime:sys_platform == "linux" and platform_machine == "aarch64"]
-dcccpy-linux-arm64-runtime==0.2.0a1
+dcccpy-linux-arm64-runtime==0.2.0a2
 
 [linux-runtime:sys_platform == "linux" and platform_machine == "x86_64"]
-dcccpy-linux-runtime==0.2.0a1
+dcccpy-linux-runtime==0.2.0a2
 
 [macos-runtime]
 
 [macos-runtime:sys_platform == "darwin" and platform_machine == "arm64"]
-dcccpy-macos-runtime==0.2.0a1
+dcccpy-macos-runtime==0.2.0a2
 
 [runtime]
 
 [runtime:sys_platform == "darwin" and platform_machine == "arm64"]
-dcccpy-macos-runtime==0.2.0a1
+dcccpy-macos-runtime==0.2.0a2
 
 [runtime:sys_platform == "linux" and platform_machine == "aarch64"]
-dcccpy-linux-arm64-runtime==0.2.0a1
+dcccpy-linux-arm64-runtime==0.2.0a2
 
 [runtime:sys_platform == "linux" and platform_machine == "x86_64"]
-dcccpy-linux-runtime==0.2.0a1
+dcccpy-linux-runtime==0.2.0a2
 
 [runtime:sys_platform == "win32" and platform_machine == "AMD64"]
-dcccpy-windows-runtime==0.2.0a1
+dcccpy-windows-runtime==0.2.0a2
 
 [windows-runtime]
 
 [windows-runtime:sys_platform == "win32" and platform_machine == "AMD64"]
-dcccpy-windows-runtime==0.2.0a1
+dcccpy-windows-runtime==0.2.0a2

{dcccpy-0.3.0a2 → dcccpy-0.3.0a3}/tests/test_core.py

@@ -142,7 +142,7 @@ def test_dccccore_path_can_disable_auto_download(tmp_path: Path, monkeypatch: py
 
 
 def test_dccccore_path_auto_downloads_to_cache(tmp_path: Path, monkeypatch: pytest.MonkeyPatch) -> None:
-    asset_root = tmp_path / "asset" / "DCCCcore-4.5.0-alpha-ubuntu-latest-x64"
+    asset_root = tmp_path / "asset" / "DCCCcore-4.5.1-alpha-ubuntu-latest-x64"
     asset_root.mkdir(parents=True)
     exe = asset_root / "DCCCcore"
     exe.write_text("#!/usr/bin/env sh\nprintf 'fake dccccore\\n'\n")
@@ -150,7 +150,7 @@ def test_dccccore_path_auto_downloads_to_cache(tmp_path: Path, monkeypatch: pyte
 
     archive = tmp_path / "DCCCcore.zip"
     with zipfile.ZipFile(archive, "w") as zf:
-        zf.write(exe, "DCCCcore-4.5.0-alpha-ubuntu-latest-x64/DCCCcore")
+        zf.write(exe, "DCCCcore-4.5.1-alpha-ubuntu-latest-x64/DCCCcore")
 
     monkeypatch.delenv("DCCCPY_DCCCCORE", raising=False)
     monkeypatch.setenv("DCCCPY_AUTO_DOWNLOAD", "1")
@@ -175,7 +175,7 @@ def test_find_existing_dccccore_checks_macos_runtime_package(
     exe.write_text("#!/usr/bin/env sh\n")
     exe.chmod(0o755)
 
-    module = types.SimpleNamespace(DCCCCORE_VERSION="4.5.0-alpha", dccccore_root=lambda: root)
+    module = types.SimpleNamespace(DCCCCORE_VERSION="4.5.1-alpha", dccccore_root=lambda: root)
     monkeypatch.setitem(sys.modules, "dcccpy_macos_runtime", module)
     monkeypatch.setenv("PATH", str(tmp_path / "empty-path"))
 
@@ -187,9 +187,9 @@ def test_linux_arm64_release_platform() -> None:
 
 
 def test_default_release_targets_dccccore_450_alpha() -> None:
-    assert DCCCCORE_VERSION == "4.5.0-alpha"
+    assert DCCCCORE_VERSION == "4.5.1-alpha"
     assert release_url(platform_name="ubuntu-latest-x64").endswith(
-        "/releases/download/v4.5.0-alpha/DCCCcore-4.5.0-alpha-ubuntu-latest-x64.zip"
+        "/releases/download/v4.5.1-alpha/DCCCcore-4.5.1-alpha-ubuntu-latest-x64.zip"
     )
 
 
@@ -220,7 +220,7 @@ def test_find_existing_dccccore_checks_linux_arm64_runtime_package(
     exe.write_text("#!/usr/bin/env sh\n")
     exe.chmod(0o755)
 
-    module = types.SimpleNamespace(DCCCCORE_VERSION="4.5.0-alpha", dccccore_root=lambda: root)
+    module = types.SimpleNamespace(DCCCCORE_VERSION="4.5.1-alpha", dccccore_root=lambda: root)
     monkeypatch.setitem(sys.modules, "dcccpy_linux_arm64_runtime", module)
     monkeypatch.setenv("PATH", str(tmp_path / "empty-path"))
 
@@ -347,6 +347,38 @@ def test_adni_pet_core_rejects_invalid_export_levels(level: object) -> None:
         dcccpy.adni_pet_core("pet.nii", tracer="fdg", level=level)  # type: ignore[arg-type]
 
 
+def test_adni_pet_core_forwards_deface(
+    tmp_path: Path,
+    monkeypatch: pytest.MonkeyPatch,
+) -> None:
+    fake_args = tmp_path / "args.txt"
+    fake_exe = make_fake_dccccore(tmp_path)
+    input_path = tmp_path / "pet.nii"
+    output_path = tmp_path / "adni.nii"
+    input_path.write_text("fake PET")
+    monkeypatch.setenv("DCCCPY_DCCCCORE", str(fake_exe))
+    monkeypatch.setenv("DCCCPY_FAKE_ARGS", str(fake_args))
+
+    result = dcccpy.adni_pet_core(
+        input_path, output_path, tracer="fdg", level=(1, 3), deface=True
+    )
+
+    assert result.returncode == 0
+    assert fake_args.read_text().splitlines() == [
+        "adni-pet-core",
+        "--input",
+        str(input_path),
+        "--output",
+        str(output_path),
+        "--tracer",
+        "fdg",
+        "--level",
+        "1",
+        "3",
+        "--deface",
+    ]
+
+
 def test_run_adds_macos_security_hint_for_blocked_runtime(
     tmp_path: Path,
     monkeypatch: pytest.MonkeyPatch,