From 1ea9a2d09f7fd2d4489b832dd1f5859e1b07e252 Mon Sep 17 00:00:00 2001
From: Alan Silva <3899850+alanwilter@users.noreply.github.com>
Date: Mon, 30 Sep 2024 18:16:06 +0100
Subject: [PATCH 1/5] fix: :bug: Fix wrong py_dcm_version in metadata.json

---
 .pre-commit-config.yaml |  6 ++---
 .talismanrc             |  8 ++-----
 process_dcm/utils.py    | 25 ++++++++++++---------
 tests/conftest.py       |  5 ++++-
 tests/test_main.py      | 41 ++++++++++++++++++----------------
 tests/test_utils.py     | 49 +++++++++++++++++++++++------------------
 6 files changed, 73 insertions(+), 61 deletions(-)

diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 1a2e1eb..f2e9ace 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -26,18 +26,18 @@ repos:
       - id: check-merge-conflict
       - id: check-docstring-first
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.6.5
+    rev: v0.6.8
     hooks:
       - id: ruff
         args: ["--fix"]
         files: ^hooks
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.6.5
+    rev: v0.6.8
     hooks:
       - id: ruff-format
         files: ^hooks
   - repo: https://github.com/commitizen-tools/commitizen
-    rev: v3.29.0
+    rev: v3.29.1
     hooks:
       - id: commitizen
         stages:
diff --git a/.talismanrc b/.talismanrc
index 0a61fc2..ef70d7c 100644
--- a/.talismanrc
+++ b/.talismanrc
@@ -1,10 +1,6 @@
 fileignoreconfig:
-  - filename: poetry.lock
-    checksum: 1c2b16ed82e9ee932d71256bd8951b7bb6615a0bed7b0aae452ba97e5fcbe769
   - filename: tests/test_utils.py
-    checksum: a674113efa3a5e2dba900599efe3bdbe16ce88dca297ec57752ad20afb399908
+    checksum: 74c626a198d7ef14230e091064273a1b9e29feef195b9f4b4003d5422224c328
   - filename: tests/test_main.py
-    checksum: 59a23ed618d9f4f2b0e357444be748cd00233bcf7428a8afde1b3be89258a103
-  - filename: process_dcm/utils.py
-    checksum: c7e686f07cf036a427a8dcb3719affc72d5de9357b48625c688aab01614f57f3
+    checksum: 0360da8a72108cd22f770d35d3811c2cadc2dfd7ba2eae2a55995b6a2a8b8230
 version: ""
diff --git a/process_dcm/utils.py b/process_dcm/utils.py
index 463d04e..6536ae4 100644
--- a/process_dcm/utils.py
+++ b/process_dcm/utils.py
@@ -21,6 +21,7 @@
 from pydicom.dataset import FileDataset
 from pydicom.filereader import dcmread
 
+from process_dcm import __version__
 from process_dcm.const import RESERVED_CSV, ImageModality
 
 warnings.filterwarnings("ignore", category=UserWarning, message="A value of type *")
@@ -153,7 +154,7 @@ def process_dcm_meta(
     metadata["series"] = {}
     metadata["images"]["images"] = []
     metadata["parser_version"] = [1, 5, 2]
-    metadata["py_dcm_version"] = [0, 1, 0]
+    metadata["py_dcm_version"] = list(map(int, __version__.split(".")))
 
     keep_gender = "g" in keep
     keep_names = "n" in keep
@@ -449,18 +450,22 @@ def find_dicom_folders_with_base(root_folder: str) -> tuple[int, str, list[str]]
     return len_ins, base_dir, natsorted(folders)
 
 
-def get_md5(file_path: Path | str | list[str]) -> str:
-    """Calculate the MD5 checksum of a file or list of files."""
+def get_md5(file_path: Path | str | list[str], minus: int = 0) -> str:
+    """Calculate the MD5 checksum of a file or list of files, optionally suppressing lines from the bottom."""
     md5_hash = hashlib.md5()
-    if isinstance(file_path, str) or isinstance(file_path, Path):
-        with open(file_path, "rb") as f:
-            while chunk := f.read(4096):
-                md5_hash.update(chunk)
+
+    def process_file(file: Path | str) -> None:
+        with open(file, "rb") as f:
+            lines = f.readlines()
+            for line in lines[:-minus] if minus > 0 else lines:
+                md5_hash.update(line)
+
+    if isinstance(file_path, str | Path):
+        process_file(file_path)
     elif isinstance(file_path, list):
         for fname in file_path:
-            with open(fname, "rb") as f:
-                while chunk := f.read(4096):
-                    md5_hash.update(chunk)
+            process_file(fname)
+
     return md5_hash.hexdigest()
 
 
diff --git a/tests/conftest.py b/tests/conftest.py
index c67379a..086d7b6 100644
--- a/tests/conftest.py
+++ b/tests/conftest.py
@@ -13,6 +13,8 @@
 from process_dcm import __version__ as version
 from process_dcm.const import ImageModality
 
+bottom = 11
+
 
 def pytest_report_header():
     return f">>>\tVersion: {version}\n"
@@ -46,7 +48,8 @@ def del_file_paths(file_paths: list[str]) -> None:
             os.rmdir(path)
 
 
-def create_directory_structure(base_path, structure):
+def create_directory_structure(base_path: Path, structure: dict) -> None:
+    """Creates a directory structure recursively."""
     for item, content in structure.items():
         path = base_path / item
         if isinstance(content, dict):
diff --git a/tests/test_main.py b/tests/test_main.py
index d3b3acc..2b8bdce 100644
--- a/tests/test_main.py
+++ b/tests/test_main.py
@@ -8,7 +8,7 @@
 from process_dcm.const import RESERVED_CSV
 from process_dcm.main import app, process_task
 from process_dcm.utils import get_md5
-from tests.conftest import remove_ansi_codes
+from tests.conftest import bottom, remove_ansi_codes
 
 
 def test_main_defaults(runner):
@@ -59,9 +59,9 @@ def test_cli_without_args(runner):
 @pytest.mark.parametrize(
     "md5, meta, keep",
     [
-        (["837808d746aef8e2dd08defbdbc70818"], "0a9a930806f2784aa4e60d47b3bad6ed", "pndg"),
-        (["7a355bb7e0c95155d1541c7fe0941c5e"], "fd6c5a84aca6499b0ea8b99d4e25dc92", "pnDg"),
-        (["2319181ecfc33d35b01dcec65ab2c568"], "35fe295648681e3521da8dddaed63705", ""),
+        (["5ba37cc43233db423394cf98c81d5fbc"], "27e4fa04ad730718b2509af36743c995", "pndg"),
+        (["5ba37cc43233db423394cf98c81d5fbc"], "3a15fdd18a67b3d4ce7be6164f58f073", "pnDg"),
+        (["5ba37cc43233db423394cf98c81d5fbc"], "ba5973bc8dd8e15aa6bef95bcd248fbf", ""),
     ],
 )
 def test_main(md5, meta, keep, janitor, runner):
@@ -83,9 +83,10 @@ def test_main(md5, meta, keep, janitor, runner):
         ]
         result = runner.invoke(app, args)
         assert result.exit_code == 0
-        of = sorted(glob(f"{output_dir}/**/*"))
-        assert len(of) == 51
-        assert get_md5(output_dir / "example-dcms/metadata.json") == meta
+        tof = sorted(glob(f"{output_dir}/**/*"))
+        of = [x for x in tof if "metadata.json" not in x]
+        assert len(tof) == 51
+        assert get_md5(output_dir / "example-dcms/metadata.json", bottom) == meta
         assert get_md5(of) in md5
 
 
@@ -94,10 +95,11 @@ def test_main_dummy(janitor, runner):
     args = ["tests/dummy_ex", "-o", "dummy_dir", "-k", "p"]
     result = runner.invoke(app, args)
     assert result.exit_code == 0
-    of = sorted(glob("dummy_dir/**/*"))
-    assert len(of) == 2
-    assert get_md5("dummy_dir/dummy_ex/metadata.json") == "1cabdb14492a0e62d80cfc0a3fe304e9"
-    assert get_md5(of) in "b19bbfca59584915295f67e9259880d7"
+    tof = sorted(glob("dummy_dir/**/*"))
+    of = [x for x in tof if "metadata.json" not in x]
+    assert len(tof) == 2
+    assert get_md5("dummy_dir/dummy_ex/metadata.json", bottom) == "0fbf0de5556e77447925ff3bfaf8168e"
+    assert get_md5(of) in ["377b5a17c284226518ccef9bddff25af"]
 
 
 def test_main_mapping(janitor, runner):
@@ -121,10 +123,11 @@ def test_main_mapping(janitor, runner):
         result = runner.invoke(app, args)
         assert result.exit_code == 0
         assert "WARN: '--relative' x 'absolute --output_dir'" in result.output
-        of = sorted(glob(f"{output_dir}/**/*"))
-        assert len(of) == 51
-        assert get_md5(output_dir / "example-dcms/metadata.json") == "261826ad2e067e9adb7143bb6c053dbc"
-        assert get_md5(of) in "6ff8e2fe69c5fbe86f81f44f74496cab"
+        tof = sorted(glob(f"{output_dir}/**/*"))
+        of = [x for x in tof if "metadata.json" not in x]
+        assert len(tof) == 51
+        assert get_md5(output_dir / "example-dcms/metadata.json", bottom) == "450e2e40d321a24219c1c9ec15b2c80e"
+        assert get_md5(of) in ["5ba37cc43233db423394cf98c81d5fbc"]
 
 
 def test_main_abort(runner):
@@ -151,8 +154,8 @@ def test_main_mapping_example_dir(janitor, runner):
         assert result.exit_code == 0
         of = sorted(glob(f"{output_dir}/**/**/*"))
         assert len(of) == 262
-        assert get_md5(output_dir / "012345/20180724_L/metadata.json") == "1b46961177c80daf69e7dea7379fcc31"
-        assert get_md5(output_dir / "3517807670/20180926_R/metadata.json") == "bbf5c47f9fb28f46b4cc1bf08c311593"
+        assert get_md5(output_dir / "012345/20180724_L/metadata.json", bottom) == "93fff12758d6c0f9098e7fd5e8c8304e"
+        assert get_md5(output_dir / "3517807670/20180926_R/metadata.json", bottom) == "b9ff35a765db6b1eaeac4253c93a6044"
 
 
 # skip this test for CI
@@ -170,8 +173,8 @@ def test_main_mapping_example_dir_relative(janitor, runner):
     janitor.append(path1)
     janitor.append(path2)
     assert len(of) == 262
-    assert get_md5(path1 / "20180724_L/dummy/metadata.json") == "1b46961177c80daf69e7dea7379fcc31"
-    assert get_md5(path2 / "20180926_R/dummy/metadata.json") == "bbf5c47f9fb28f46b4cc1bf08c311593"
+    assert get_md5(path1 / "20180724_L/dummy/metadata.json", bottom) == "93fff12758d6c0f9098e7fd5e8c8304e"
+    assert get_md5(path2 / "20180926_R/dummy/metadata.json", bottom) == "b9ff35a765db6b1eaeac4253c93a6044"
 
 
 def test_process_task():
diff --git a/tests/test_utils.py b/tests/test_utils.py
index 7536bea..3396df9 100644
--- a/tests/test_utils.py
+++ b/tests/test_utils.py
@@ -6,6 +6,8 @@
 
 import pytest
 import typer
+from pydicom.dataset import FileDataset
+from pytest_mock import MockerFixture
 
 from process_dcm.const import ImageModality
 from process_dcm.utils import (
@@ -22,10 +24,11 @@
     update_modality,
     write_to_csv,
 )
-from tests.conftest import create_directory_structure
+from tests.conftest import bottom, create_directory_structure
 
 
-def test_meta_images_optopol(dicom_opotopol, mocker):
+def test_meta_images_optopol(dicom_opotopol: FileDataset, mocker: MockerFixture) -> None:
+    """Test the meta_images function with an Optopol DICOM dataset."""
     # Mock the typer.secho call for empty photo locations
     mock_secho = mocker.patch("typer.secho")
     update_modality(dicom_opotopol)
@@ -36,7 +39,7 @@ def test_meta_images_optopol(dicom_opotopol, mocker):
     mock_secho.assert_called_with("WARN: empty photo_locations", fg=typer.colors.RED)
 
 
-def test_meta_images_attribute_error(dicom_attribute_error):
+def test_meta_images_attribute_error(dicom_attribute_error: FileDataset) -> None:
     """Test for handling AttributeError."""
     try:
         update_modality(dicom_attribute_error)
@@ -46,7 +49,7 @@ def test_meta_images_attribute_error(dicom_attribute_error):
         pytest.fail("meta_images failed to handle missing attributes gracefully")
 
 
-def test_meta_images_with_photo_locations(dicom_with_photo_locations):
+def test_meta_images_with_photo_locations(dicom_with_photo_locations: FileDataset) -> None:
     """Test for valid photo locations in meta_images result."""
     update_modality(dicom_with_photo_locations)
     meta = meta_images(dicom_with_photo_locations)
@@ -57,28 +60,28 @@ def test_meta_images_with_photo_locations(dicom_with_photo_locations):
     ), "Photo locations not found or incomplete in metadata"
 
 
-def test_absolute_path_symlink():
+def test_absolute_path_symlink() -> None:
     with patch("pathlib.Path.resolve") as mock_resolve:
         mock_resolve.return_value = Path("/resolved/path")
         assert set_output_dir("/home/user", "/symlink") == "/resolved/path"
 
 
-def test_absolute_path_broken_symlink():
+def test_absolute_path_broken_symlink() -> None:
     with patch("pathlib.Path.resolve", side_effect=FileNotFoundError):
         assert set_output_dir("/home/user", "/broken_symlink") == "/home/user/exported_data"
 
 
-def test_relative_path():
+def test_relative_path() -> None:
     assert set_output_dir("/home/user", "relative/path") == "/home/user/relative/path"
 
 
-def test_broken_symlink_as_relative():
+def test_broken_symlink_as_relative() -> None:
     with patch("pathlib.Path.is_absolute", return_value=False):
         with patch("pathlib.Path.resolve", side_effect=FileNotFoundError):
             assert set_output_dir("/home/user", "exported_data") == "/home/user/exported_data"
 
 
-def test_relative_path_with_up():
+def test_relative_path_with_up() -> None:
     assert set_output_dir("/home/user", "../up/relative") == "/home/user/../up/relative"
 
 
@@ -93,14 +96,14 @@ def test_do_date() -> None:
     assert do_date("InvalidDate", "%Y%m%d", "%Y-%m-%d") == ""
 
 
-def test_update_modality_opt(dicom_base):
+def test_update_modality_opt(dicom_base: FileDataset) -> None:
     """Test updating modality when the modality is OPT."""
     dicom_base.Modality = "OPT"
     assert update_modality(dicom_base) is True
-    assert dicom_base.Modality == ImageModality.OCT
+    assert dicom_base.Modality == ImageModality.OCT  # type: ignore
 
 
-def test_update_modality_op_topcon(dicom_base):
+def test_update_modality_op_topcon(dicom_base: FileDataset) -> None:
     """Test updating modality when the modality is OP and manufacturer is TOPCON."""
     dicom_base.Modality = "OP"
     dicom_base.Manufacturer = "TOPCON"
@@ -108,7 +111,7 @@ def test_update_modality_op_topcon(dicom_base):
     assert dicom_base.Modality == ImageModality.COLOUR_PHOTO
 
 
-def test_update_modality_op_ir(dicom_base):
+def test_update_modality_op_ir(dicom_base: FileDataset) -> None:
     """Test updating modality when the modality is OP and SeriesDescription contains IR."""
     dicom_base.Modality = "OP"
     dicom_base.Manufacturer = "Another Manufacturer"
@@ -117,7 +120,7 @@ def test_update_modality_op_ir(dicom_base):
     assert dicom_base.Modality == ImageModality.SLO_INFRARED
 
 
-def test_update_modality_unknown(dicom_base):
+def test_update_modality_unknown(dicom_base: FileDataset) -> None:
     """Test updating modality when it results in unknown."""
     dicom_base.Modality = "OP"
     dicom_base.Manufacturer = "Unknown Manufacturer"
@@ -126,7 +129,7 @@ def test_update_modality_unknown(dicom_base):
     assert dicom_base.Modality == ImageModality.UNKNOWN
 
 
-def test_update_modality_unsupported(dicom_base):
+def test_update_modality_unsupported(dicom_base: FileDataset) -> None:
     """Test update_modality when the modality is unsupported."""
     dicom_base.Modality = "UNSUPPORTED"
     assert update_modality(dicom_base) is False
@@ -145,7 +148,9 @@ def test_update_modality_unsupported(dicom_base):
         (" MColor ", ImageModality.REFLECTANCE_MCOLOR),
     ],
 )
-def test_update_modality_op_various_descriptions(dicom_base, description, expected_modality):
+def test_update_modality_op_various_descriptions(
+    dicom_base: FileDataset, description: str, expected_modality: ImageModality
+) -> None:
     """Test updating modality for various SeriesDescription values."""
     dicom_base.Modality = "OP"
     dicom_base.SeriesDescription = description
@@ -153,7 +158,7 @@ def test_update_modality_op_various_descriptions(dicom_base, description, expect
     assert dicom_base.Modality == expected_modality
 
 
-def test_process_dcm_meta_with_D_in_keep_and_mapping(dicom_base):
+def test_process_dcm_meta_with_D_in_keep_and_mapping(dicom_base: FileDataset) -> None:
     # Call the function with "D" in keep
     with TemporaryDirectory() as tmpdir:
         process_dcm_meta([dicom_base], tmpdir, keep="D", mapping="tests/map.csv")
@@ -162,7 +167,7 @@ def test_process_dcm_meta_with_D_in_keep_and_mapping(dicom_base):
         assert rjson["patient"]["patient_key"] == "00123"
 
 
-def test_process_and_save_csv(csv_data, unique_sorted_results):
+def test_process_and_save_csv(csv_data, unique_sorted_results) -> None:
     with TemporaryDirectory() as temp_dir:
         reserved_csv = Path(temp_dir) / "reserved.csv"
 
@@ -272,7 +277,7 @@ def test_process_dcm_dummy(temp_output_dir):
         input_dir="tests/dummy_ex", output_dir=temp_output_dir, overwrite=True
     )
     assert new_patient_key, original_patient_key == ("2375458543", "123456")
-    assert get_md5(os.path.join(temp_output_dir, "metadata.json")) == "3ec329aacc807f470426d1b3706669fc"
+    assert get_md5(os.path.join(temp_output_dir, "metadata.json")) == "1f2e613b856337aa46a35c641a95a4bd"
 
 
 def test_process_dcm_dummy_group(temp_output_dir):
@@ -280,7 +285,7 @@ def test_process_dcm_dummy_group(temp_output_dir):
         input_dir="tests/dummy_ex", output_dir=temp_output_dir, overwrite=True, group=True
     )
     assert new_patient_key, original_patient_key == ("2375458543", "123456")
-    assert get_md5(os.path.join(temp_output_dir, "group_0", "metadata.json")) == "3ec329aacc807f470426d1b3706669fc"
+    assert get_md5(os.path.join(temp_output_dir, "group_0", "metadata.json")) == "1f2e613b856337aa46a35c641a95a4bd"
 
 
 def test_process_dcm_dummy_mapping(temp_output_dir):
@@ -288,7 +293,7 @@ def test_process_dcm_dummy_mapping(temp_output_dir):
         input_dir="tests/dummy_ex", output_dir=temp_output_dir, overwrite=True, mapping="tests/map.csv"
     )
     assert new_patient_key, original_patient_key == ("2375458543", "123456")
-    assert get_md5(os.path.join(temp_output_dir, "metadata.json")) == "3ec329aacc807f470426d1b3706669fc"
+    assert get_md5(os.path.join(temp_output_dir, "metadata.json"), bottom) == "75a81f29397d3919603a8d55b305fdb1"
 
 
 def test_delete_empty_folder(temp_directory):
@@ -356,7 +361,7 @@ def test_parallel_processing(temp_directory, n_jobs):
 
 
 @pytest.mark.parametrize("n_jobs", [2, 4, 8])
-def test_parallel_processing_mixed_structure(temp_directory, n_jobs):
+def test_parallel_processing_mixed_structure(temp_directory: Path, n_jobs: int) -> None:
     structure = {
         "nested1": {
             "subnested1": {},  # An empty sub-subdirectory

From dc19863756d7f77b934da5a6be29e0854cb322e1 Mon Sep 17 00:00:00 2001
From: Alan Silva <3899850+alanwilter@users.noreply.github.com>
Date: Mon, 30 Sep 2024 21:02:05 +0100
Subject: [PATCH 2/5] fix: :bug: Fix output dir bug

---
 process_dcm/main.py | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/process_dcm/main.py b/process_dcm/main.py
index f1f404e..b19af6c 100644
--- a/process_dcm/main.py
+++ b/process_dcm/main.py
@@ -105,7 +105,7 @@ def main(
             fg=typer.colors.BRIGHT_YELLOW,
         )
 
-    len_sf, base_dir, subfolders = find_dicom_folders_with_base(input_dir)
+    len_sf, base_dir, subfolders = find_dicom_folders_with_base(os.path.abspath(input_dir))
     output_dirs = []
 
     if os.path.isabs(output_dir):
@@ -121,7 +121,7 @@ def main(
             output_dirs = [os.path.join(x, output_dir) for x in subfolders]
         else:
             output_dir = os.path.abspath(output_dir)
-            output_dirs = [x.replace(base_dir, output_dir) for x in subfolders]
+            output_dirs = [x.replace(os.path.abspath(base_dir), output_dir) for x in subfolders]
 
     tasks = list(zip(subfolders, output_dirs))
 

From 1eb3ce4679abbe371c29e2b0aba060581161c670 Mon Sep 17 00:00:00 2001
From: Alan Silva <3899850+alanwilter@users.noreply.github.com>
Date: Mon, 30 Sep 2024 21:14:15 +0100
Subject: [PATCH 3/5] chore(deps): Update to use pydicom 3.0.1

---
 .talismanrc           |   6 +-
 .vscode/settings.json |   3 +-
 poetry.lock           | 199 +++++++++++++++++++++---------------------
 pyproject.toml        |  12 +--
 4 files changed, 110 insertions(+), 110 deletions(-)

diff --git a/.talismanrc b/.talismanrc
index ef70d7c..428c2c1 100644
--- a/.talismanrc
+++ b/.talismanrc
@@ -1,6 +1,4 @@
 fileignoreconfig:
-  - filename: tests/test_utils.py
-    checksum: 74c626a198d7ef14230e091064273a1b9e29feef195b9f4b4003d5422224c328
-  - filename: tests/test_main.py
-    checksum: 0360da8a72108cd22f770d35d3811c2cadc2dfd7ba2eae2a55995b6a2a8b8230
+  - filename: poetry.lock
+    checksum: 0ad40dc799769c4734b1f5791c32eb5657f6a337fd70492d16b4b8878bdcbf9f
 version: ""
diff --git a/.vscode/settings.json b/.vscode/settings.json
index bdf85c6..fdb2a3f 100644
--- a/.vscode/settings.json
+++ b/.vscode/settings.json
@@ -39,5 +39,6 @@
       "source.organizeImports": "explicit"
     },
     "editor.formatOnType": true
-  }
+  },
+  "conventionalCommits.scopes": ["deps"]
 }
diff --git a/poetry.lock b/poetry.lock
index bc8c992..36a8e6c 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -2,13 +2,13 @@
 
 [[package]]
 name = "anyio"
-version = "4.4.0"
+version = "4.6.0"
 description = "High level compatibility layer for multiple asynchronous event loop implementations"
 optional = false
-python-versions = ">=3.8"
+python-versions = ">=3.9"
 files = [
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-    {file = "anyio-4.4.0.tar.gz", hash = "sha256:5aadc6a1bbb7cdb0bede386cac5e2940f5e2ff3aa20277e991cf028e0585ce94"},
+    {file = "anyio-4.6.0-py3-none-any.whl", hash = "sha256:c7d2e9d63e31599eeb636c8c5c03a7e108d73b345f064f1c19fdc87b79036a9a"},
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 ]
 
 [package.dependencies]
@@ -18,9 +18,9 @@ sniffio = ">=1.1"
 typing-extensions = {version = ">=4.1", markers = "python_version < \"3.11\""}
 
 [package.extras]
-doc = ["Sphinx (>=7)", "packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx-rtd-theme"]
-test = ["anyio[trio]", "coverage[toml] (>=7)", "exceptiongroup (>=1.2.0)", "hypothesis (>=4.0)", "psutil (>=5.9)", "pytest (>=7.0)", "pytest-mock (>=3.6.1)", "trustme", "uvloop (>=0.17)"]
-trio = ["trio (>=0.23)"]
+doc = ["Sphinx (>=7.4,<8.0)", "packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx-rtd-theme"]
+test = ["anyio[trio]", "coverage[toml] (>=7)", "exceptiongroup (>=1.2.0)", "hypothesis (>=4.0)", "psutil (>=5.9)", "pytest (>=7.0)", "pytest-mock (>=3.6.1)", "trustme", "uvloop (>=0.21.0b1)"]
+trio = ["trio (>=0.26.1)"]
 
 [[package]]
 name = "appnope"
@@ -215,13 +215,13 @@ css = ["tinycss2 (>=1.1.0,<1.3)"]
 
 [[package]]
 name = "boto3-stubs"
-version = "1.35.19"
-description = "Type annotations for boto3 1.35.19 generated with mypy-boto3-builder 8.0.1"
+version = "1.35.29"
+description = "Type annotations for boto3 1.35.29 generated with mypy-boto3-builder 8.1.2"
 optional = false
 python-versions = ">=3.8"
 files = [
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-    {file = "boto3_stubs-1.35.19.tar.gz", hash = "sha256:c5842cd82d4a1570613f178831c2b6d1b60f511b87f56cc014f2a216c03ecf5a"},
+    {file = "boto3_stubs-1.35.29-py3-none-any.whl", hash = "sha256:048e664389c3fb53e8ab0f810eb280ba02c2f8213a63dc5d3da075ffd54b4504"},
+    {file = "boto3_stubs-1.35.29.tar.gz", hash = "sha256:6e5f082f7cd028bdf3bfc57c9db3b784e0f6ec2232b10482859a919d6cd6bfc9"},
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 [[package]]
@@ -1116,18 +1117,18 @@ devel = ["colorama", "json-spec", "jsonschema", "pylint", "pytest", "pytest-benc
 
 [[package]]
 name = "filelock"
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 python-versions = ">=3.8"
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 typing = ["typing-extensions (>=4.12.2)"]
 
 [[package]]
@@ -1441,13 +1442,13 @@ referencing = ">=0.31.0"
 
 [[package]]
 name = "jupyter-client"
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 python-versions = ">=3.8"
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 [package.dependencies]
@@ -1823,13 +1824,13 @@ reports = ["lxml"]
 
 [[package]]
 name = "mypy-boto3-lambda"
-version = "1.35.3"
-description = "Type annotations for boto3.Lambda 1.35.3 service generated with mypy-boto3-builder 7.26.1"
+version = "1.35.28"
+description = "Type annotations for boto3.Lambda 1.35.28 service generated with mypy-boto3-builder 8.1.2"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "mypy_boto3_lambda-1.35.3-py3-none-any.whl", hash = "sha256:b59e45facfc166eddb1d5c2696aa8127463455f9e439e3438494965bcd97c97d"},
-    {file = "mypy_boto3_lambda-1.35.3.tar.gz", hash = "sha256:2e78c12a7ba4d2d9c99b75fad58804fd99820e954ab557f14f099d6c85a882ab"},
+    {file = "mypy_boto3_lambda-1.35.28-py3-none-any.whl", hash = "sha256:e42d9ce7e6a32841e4a6a2980f5f8634e2b0a35698e71d302a78e4d0de4223c6"},
+    {file = "mypy_boto3_lambda-1.35.28.tar.gz", hash = "sha256:8473d71ee83aca8009d317e57cd2094a355ec90c7c536cf26e52db71b2f7528b"},
 ]
 
 [package.dependencies]
@@ -1837,13 +1838,13 @@ typing-extensions = {version = ">=4.1.0", markers = "python_version < \"3.12\""}
 
 [[package]]
 name = "mypy-boto3-s3"
-version = "1.35.16"
-description = "Type annotations for boto3.S3 1.35.16 service generated with mypy-boto3-builder 8.0.1"
+version = "1.35.22"
+description = "Type annotations for boto3.S3 1.35.22 service generated with mypy-boto3-builder 8.1.1"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "mypy_boto3_s3-1.35.16-py3-none-any.whl", hash = "sha256:d62361c8f36fdbef2995f62c3f62fec820a489696806d4c356de90b107c0e166"},
-    {file = "mypy_boto3_s3-1.35.16.tar.gz", hash = "sha256:599567e327eaabe4cdd0c226c07cac850431d048166aba49c2a162031ec48934"},
+    {file = "mypy_boto3_s3-1.35.22-py3-none-any.whl", hash = "sha256:5b5aec56e16ef48766ae81b1807263127eebc4e6bfbeeef3f2f2cb7c30c06d03"},
+    {file = "mypy_boto3_s3-1.35.22.tar.gz", hash = "sha256:9f64e1196ffecc2c6ab7bee95e848692b5f464a1df14211361ea6bbbc2038387"},
 ]
 
 [package.dependencies]
@@ -2287,13 +2288,13 @@ files = [
 
 [[package]]
 name = "platformdirs"
-version = "4.3.3"
+version = "4.3.6"
 description = "A small Python package for determining appropriate platform-specific dirs, e.g. a `user data dir`."
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "platformdirs-4.3.3-py3-none-any.whl", hash = "sha256:50a5450e2e84f44539718293cbb1da0a0885c9d14adf21b77bae4e66fc99d9b5"},
-    {file = "platformdirs-4.3.3.tar.gz", hash = "sha256:d4e0b7d8ec176b341fb03cb11ca12d0276faa8c485f9cd218f613840463fc2c0"},
+    {file = "platformdirs-4.3.6-py3-none-any.whl", hash = "sha256:73e575e1408ab8103900836b97580d5307456908a03e92031bab39e4554cc3fb"},
+    {file = "platformdirs-4.3.6.tar.gz", hash = "sha256:357fb2acbc885b0419afd3ce3ed34564c13c9b95c89360cd9563f73aa5e2b907"},
 ]
 
 [package.extras]
@@ -2336,13 +2337,13 @@ virtualenv = ">=20.10.0"
 
 [[package]]
 name = "prometheus-client"
-version = "0.20.0"
+version = "0.21.0"
 description = "Python client for the Prometheus monitoring system."
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "prometheus_client-0.20.0-py3-none-any.whl", hash = "sha256:cde524a85bce83ca359cc837f28b8c0db5cac7aa653a588fd7e84ba061c329e7"},
-    {file = "prometheus_client-0.20.0.tar.gz", hash = "sha256:287629d00b147a32dcb2be0b9df905da599b2d82f80377083ec8463309a4bb89"},
+    {file = "prometheus_client-0.21.0-py3-none-any.whl", hash = "sha256:4fa6b4dd0ac16d58bb587c04b1caae65b8c5043e85f778f42f5f632f6af2e166"},
+    {file = "prometheus_client-0.21.0.tar.gz", hash = "sha256:96c83c606b71ff2b0a433c98889d275f51ffec6c5e267de37c7a2b5c9aa9233e"},
 ]
 
 [package.extras]
@@ -2350,13 +2351,13 @@ twisted = ["twisted"]
 
 [[package]]
 name = "prompt-toolkit"
-version = "3.0.47"
+version = "3.0.48"
 description = "Library for building powerful interactive command lines in Python"
 optional = false
 python-versions = ">=3.7.0"
 files = [
-    {file = "prompt_toolkit-3.0.47-py3-none-any.whl", hash = "sha256:0d7bfa67001d5e39d02c224b663abc33687405033a8c422d0d675a5a13361d10"},
-    {file = "prompt_toolkit-3.0.47.tar.gz", hash = "sha256:1e1b29cb58080b1e69f207c893a1a7bf16d127a5c30c9d17a25a5d77792e5360"},
+    {file = "prompt_toolkit-3.0.48-py3-none-any.whl", hash = "sha256:f49a827f90062e411f1ce1f854f2aedb3c23353244f8108b89283587397ac10e"},
+    {file = "prompt_toolkit-3.0.48.tar.gz", hash = "sha256:d6623ab0477a80df74e646bdbc93621143f5caf104206aa29294d53de1a03d90"},
 ]
 
 [package.dependencies]
@@ -2429,13 +2430,13 @@ files = [
 
 [[package]]
 name = "pydicom"
-version = "3.0.0"
+version = "3.0.1"
 description = "A pure Python package for reading and writing DICOM data"
 optional = false
 python-versions = ">=3.10"
 files = [
-    {file = "pydicom-3.0.0-py3-none-any.whl", hash = "sha256:7b1435dc7427a3d172685a9406ff1a75eb2d7651d236d0d99abd4953a1100922"},
-    {file = "pydicom-3.0.0.tar.gz", hash = "sha256:003aeb025bbd20fc029f71eb286cf8772cc924d8de2baaec184c2caa513502df"},
+    {file = "pydicom-3.0.1-py3-none-any.whl", hash = "sha256:db32f78b2641bd7972096b8289111ddab01fb221610de8d7afa835eb938adb41"},
+    {file = "pydicom-3.0.1.tar.gz", hash = "sha256:7b8be344b5b62493c9452ba6f5a299f78f8a6ab79786c729b0613698209603ec"},
 ]
 
 [package.extras]
@@ -2521,21 +2522,21 @@ testing = ["fields", "hunter", "process-tests", "pytest-xdist", "virtualenv"]
 
 [[package]]
 name = "pytest-env"
-version = "1.1.4"
+version = "1.1.5"
 description = "pytest plugin that allows you to add environment variables."
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "pytest_env-1.1.4-py3-none-any.whl", hash = "sha256:a4212056d4d440febef311a98fdca56c31256d58fb453d103cba4e8a532b721d"},
-    {file = "pytest_env-1.1.4.tar.gz", hash = "sha256:86653658da8f11c6844975db955746c458a9c09f1e64957603161e2ff93f5133"},
+    {file = "pytest_env-1.1.5-py3-none-any.whl", hash = "sha256:ce90cf8772878515c24b31cd97c7fa1f4481cd68d588419fd45f10ecaee6bc30"},
+    {file = "pytest_env-1.1.5.tar.gz", hash = "sha256:91209840aa0e43385073ac464a554ad2947cc2fd663a9debf88d03b01e0cc1cf"},
 ]
 
 [package.dependencies]
-pytest = ">=8.3.2"
+pytest = ">=8.3.3"
 tomli = {version = ">=2.0.1", markers = "python_version < \"3.11\""}
 
 [package.extras]
-test = ["covdefaults (>=2.3)", "coverage (>=7.6.1)", "pytest-mock (>=3.14)"]
+testing = ["covdefaults (>=2.3)", "coverage (>=7.6.1)", "pytest-mock (>=3.14)"]
 
 [[package]]
 name = "pytest-mock"
@@ -3064,29 +3065,29 @@ files = [
 
 [[package]]
 name = "ruff"
-version = "0.6.5"
+version = "0.6.8"
 description = "An extremely fast Python linter and code formatter, written in Rust."
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "ruff-0.6.5-py3-none-linux_armv6l.whl", hash = "sha256:7e4e308f16e07c95fc7753fc1aaac690a323b2bb9f4ec5e844a97bb7fbebd748"},
-    {file = "ruff-0.6.5-py3-none-macosx_10_12_x86_64.whl", hash = "sha256:932cd69eefe4daf8c7d92bd6689f7e8182571cb934ea720af218929da7bd7d69"},
-    {file = "ruff-0.6.5-py3-none-macosx_11_0_arm64.whl", hash = "sha256:3a8d42d11fff8d3143ff4da41742a98f8f233bf8890e9fe23077826818f8d680"},
-    {file = "ruff-0.6.5-py3-none-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:a50af6e828ee692fb10ff2dfe53f05caecf077f4210fae9677e06a808275754f"},
-    {file = "ruff-0.6.5-py3-none-manylinux_2_17_armv7l.manylinux2014_armv7l.whl", hash = "sha256:794ada3400a0d0b89e3015f1a7e01f4c97320ac665b7bc3ade24b50b54cb2972"},
-    {file = "ruff-0.6.5-py3-none-manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:381413ec47f71ce1d1c614f7779d88886f406f1fd53d289c77e4e533dc6ea200"},
-    {file = "ruff-0.6.5-py3-none-manylinux_2_17_ppc64.manylinux2014_ppc64.whl", hash = "sha256:52e75a82bbc9b42e63c08d22ad0ac525117e72aee9729a069d7c4f235fc4d276"},
-    {file = "ruff-0.6.5-py3-none-manylinux_2_17_ppc64le.manylinux2014_ppc64le.whl", hash = "sha256:09c72a833fd3551135ceddcba5ebdb68ff89225d30758027280968c9acdc7810"},
-    {file = "ruff-0.6.5-py3-none-manylinux_2_17_s390x.manylinux2014_s390x.whl", hash = "sha256:800c50371bdcb99b3c1551d5691e14d16d6f07063a518770254227f7f6e8c178"},
-    {file = "ruff-0.6.5-py3-none-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:8e25ddd9cd63ba1f3bd51c1f09903904a6adf8429df34f17d728a8fa11174253"},
-    {file = "ruff-0.6.5-py3-none-musllinux_1_2_aarch64.whl", hash = "sha256:7291e64d7129f24d1b0c947ec3ec4c0076e958d1475c61202497c6aced35dd19"},
-    {file = "ruff-0.6.5-py3-none-musllinux_1_2_armv7l.whl", hash = "sha256:9ad7dfbd138d09d9a7e6931e6a7e797651ce29becd688be8a0d4d5f8177b4b0c"},
-    {file = "ruff-0.6.5-py3-none-musllinux_1_2_i686.whl", hash = "sha256:005256d977021790cc52aa23d78f06bb5090dc0bfbd42de46d49c201533982ae"},
-    {file = "ruff-0.6.5-py3-none-musllinux_1_2_x86_64.whl", hash = "sha256:482c1e6bfeb615eafc5899127b805d28e387bd87db38b2c0c41d271f5e58d8cc"},
-    {file = "ruff-0.6.5-py3-none-win32.whl", hash = "sha256:cf4d3fa53644137f6a4a27a2b397381d16454a1566ae5335855c187fbf67e4f5"},
-    {file = "ruff-0.6.5-py3-none-win_amd64.whl", hash = "sha256:3e42a57b58e3612051a636bc1ac4e6b838679530235520e8f095f7c44f706ff9"},
-    {file = "ruff-0.6.5-py3-none-win_arm64.whl", hash = "sha256:51935067740773afdf97493ba9b8231279e9beef0f2a8079188c4776c25688e0"},
-    {file = "ruff-0.6.5.tar.gz", hash = "sha256:4d32d87fab433c0cf285c3683dd4dae63be05fd7a1d65b3f5bf7cdd05a6b96fb"},
+    {file = "ruff-0.6.8-py3-none-linux_armv6l.whl", hash = "sha256:77944bca110ff0a43b768f05a529fecd0706aac7bcce36d7f1eeb4cbfca5f0f2"},
+    {file = "ruff-0.6.8-py3-none-macosx_10_12_x86_64.whl", hash = "sha256:27b87e1801e786cd6ede4ada3faa5e254ce774de835e6723fd94551464c56b8c"},
+    {file = "ruff-0.6.8-py3-none-macosx_11_0_arm64.whl", hash = "sha256:cd48f945da2a6334f1793d7f701725a76ba93bf3d73c36f6b21fb04d5338dcf5"},
+    {file = "ruff-0.6.8-py3-none-manylinux_2_17_aarch64.manylinux2014_aarch64.whl", hash = "sha256:677e03c00f37c66cea033274295a983c7c546edea5043d0c798833adf4cf4c6f"},
+    {file = "ruff-0.6.8-py3-none-manylinux_2_17_armv7l.manylinux2014_armv7l.whl", hash = "sha256:9f1476236b3eacfacfc0f66aa9e6cd39f2a624cb73ea99189556015f27c0bdeb"},
+    {file = "ruff-0.6.8-py3-none-manylinux_2_17_i686.manylinux2014_i686.whl", hash = "sha256:6f5a2f17c7d32991169195d52a04c95b256378bbf0de8cb98478351eb70d526f"},
+    {file = "ruff-0.6.8-py3-none-manylinux_2_17_ppc64.manylinux2014_ppc64.whl", hash = "sha256:5fd0d4b7b1457c49e435ee1e437900ced9b35cb8dc5178921dfb7d98d65a08d0"},
+    {file = "ruff-0.6.8-py3-none-manylinux_2_17_ppc64le.manylinux2014_ppc64le.whl", hash = "sha256:f8034b19b993e9601f2ddf2c517451e17a6ab5cdb1c13fdff50c1442a7171d87"},
+    {file = "ruff-0.6.8-py3-none-manylinux_2_17_s390x.manylinux2014_s390x.whl", hash = "sha256:6cfb227b932ba8ef6e56c9f875d987973cd5e35bc5d05f5abf045af78ad8e098"},
+    {file = "ruff-0.6.8-py3-none-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:6ef0411eccfc3909269fed47c61ffebdcb84a04504bafa6b6df9b85c27e813b0"},
+    {file = "ruff-0.6.8-py3-none-musllinux_1_2_aarch64.whl", hash = "sha256:007dee844738c3d2e6c24ab5bc7d43c99ba3e1943bd2d95d598582e9c1b27750"},
+    {file = "ruff-0.6.8-py3-none-musllinux_1_2_armv7l.whl", hash = "sha256:ce60058d3cdd8490e5e5471ef086b3f1e90ab872b548814e35930e21d848c9ce"},
+    {file = "ruff-0.6.8-py3-none-musllinux_1_2_i686.whl", hash = "sha256:1085c455d1b3fdb8021ad534379c60353b81ba079712bce7a900e834859182fa"},
+    {file = "ruff-0.6.8-py3-none-musllinux_1_2_x86_64.whl", hash = "sha256:70edf6a93b19481affd287d696d9e311388d808671bc209fb8907b46a8c3af44"},
+    {file = "ruff-0.6.8-py3-none-win32.whl", hash = "sha256:792213f7be25316f9b46b854df80a77e0da87ec66691e8f012f887b4a671ab5a"},
+    {file = "ruff-0.6.8-py3-none-win_amd64.whl", hash = "sha256:ec0517dc0f37cad14a5319ba7bba6e7e339d03fbf967a6d69b0907d61be7a263"},
+    {file = "ruff-0.6.8-py3-none-win_arm64.whl", hash = "sha256:8d3bb2e3fbb9875172119021a13eed38849e762499e3cfde9588e4b4d70968dc"},
+    {file = "ruff-0.6.8.tar.gz", hash = "sha256:a5bf44b1aa0adaf6d9d20f86162b34f7c593bfedabc51239953e446aefc8ce18"},
 ]
 
 [[package]]
@@ -3107,13 +3108,13 @@ win32 = ["pywin32"]
 
 [[package]]
 name = "setuptools"
-version = "75.0.0"
+version = "75.1.0"
 description = "Easily download, build, install, upgrade, and uninstall Python packages"
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "setuptools-75.0.0-py3-none-any.whl", hash = "sha256:791ae94f04f78c880b5e614e560dd32d4b4af5d151bd9e7483e3377846caf90a"},
-    {file = "setuptools-75.0.0.tar.gz", hash = "sha256:25af69c809d9334cd8e653d385277abeb5a102dca255954005a7092d282575ea"},
+    {file = "setuptools-75.1.0-py3-none-any.whl", hash = "sha256:35ab7fd3bcd95e6b7fd704e4a1539513edad446c097797f2985e0e4b960772f2"},
+    {file = "setuptools-75.1.0.tar.gz", hash = "sha256:d59a21b17a275fb872a9c3dae73963160ae079f1049ed956880cd7c09b120538"},
 ]
 
 [package.extras]
@@ -3413,13 +3414,13 @@ zstd = ["zstandard (>=0.18.0)"]
 
 [[package]]
 name = "virtualenv"
-version = "20.26.4"
+version = "20.26.6"
 description = "Virtual Python Environment builder"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "virtualenv-20.26.4-py3-none-any.whl", hash = "sha256:48f2695d9809277003f30776d155615ffc11328e6a0a8c1f0ec80188d7874a55"},
-    {file = "virtualenv-20.26.4.tar.gz", hash = "sha256:c17f4e0f3e6036e9f26700446f85c76ab11df65ff6d8a9cbfad9f71aabfcf23c"},
+    {file = "virtualenv-20.26.6-py3-none-any.whl", hash = "sha256:7345cc5b25405607a624d8418154577459c3e0277f5466dd79c49d5e492995f2"},
+    {file = "virtualenv-20.26.6.tar.gz", hash = "sha256:280aede09a2a5c317e409a00102e7077c6432c5a38f0ef938e643805a7ad2c48"},
 ]
 
 [package.dependencies]
@@ -3518,4 +3519,4 @@ test = ["pytest"]
 [metadata]
 lock-version = "2.0"
 python-versions = "^3.10"
-content-hash = "a5a01ee3352d3272425e463bcda49470bf6cdf76a761c1d7bda5b30c169039e8"
+content-hash = "9ae2af2d4443c9eb6223b304a25a165fbfb181f8e303b6104220d255fcadafe1"
diff --git a/pyproject.toml b/pyproject.toml
index 7b38f53..43fca85 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -21,7 +21,7 @@ classifiers = [
 python = "^3.10"
 opencv-python-headless = "^4.10.0.84"
 typer = "^0.12.5"
-pydicom = "^3.0.0"
+pydicom = "^3.0.1"
 natsort = "^8.4.0"
 pillow = "^10.4.0"
 python-gdcm = "^3.0.24.1"
@@ -30,21 +30,21 @@ python-gdcm = "^3.0.24.1"
 process-dcm = "process_dcm.main:cli"
 
 [tool.poetry.group.dev.dependencies]
-boto3-stubs = { extras = ["lambda", "s3"], version = "1.35.19" }
+boto3-stubs = { extras = ["lambda", "s3"], version = "1.35.29" }
 ipdb = "0.13.13"
 ipython = "8.27.0"
 jupyterlab = "4.2.5"
 mypy = "1.11.2"
-mypy-boto3-lambda = "1.35.3"
-mypy-boto3-s3 = "1.35.16"
+mypy-boto3-lambda = "1.35.28"
+mypy-boto3-s3 = "1.35.22"
 pandas-stubs = "2.2.2.240909"
 pdbpp = "0.10.3"
 pip = "24.2"
 pre-commit = "3.8.0"
 pytest-cov = "5.0.0"
-pytest-env = "1.1.4"
+pytest-env = "1.1.5"
 pytest-xdist = "3.6.1"
-ruff = "0.6.5"
+ruff = "0.6.8"
 typed-argument-parser = "1.10.1"
 wheel = "0.44.0"
 pytest-mock = "^3.14.0"

From 11f91fcd3411cb298ee76701b5542d728662da1a Mon Sep 17 00:00:00 2001
From: Alan Silva <3899850+alanwilter@users.noreply.github.com>
Date: Mon, 30 Sep 2024 21:36:34 +0100
Subject: [PATCH 4/5] ci: :construction_worker: Run pytest on PRs

---
 .github/workflows/release.yml | 36 +++++++++++++++++++++++++----------
 1 file changed, 26 insertions(+), 10 deletions(-)

diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml
index 85bd5e2..ed75718 100644
--- a/.github/workflows/release.yml
+++ b/.github/workflows/release.yml
@@ -1,17 +1,39 @@
-name: Test and Release
+name: Test and Release Workflow
 
 on:
+  pull_request:
+    branches:
+      - "*" # Run tests on all branches for PRs
   push:
     branches:
-      - main
+      - main # Run tests and potentially release on pushes to main
     paths:
       - "**/*.py"
       - pyproject.toml
       - poetry.lock
 
 jobs:
-  test-and-release:
-    name: Test and Release
+  run-tests:
+    name: Run Tests
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout code
+        uses: actions/checkout@v4
+      - name: Set up Python
+        uses: actions/setup-python@v5
+        with:
+          python-version: "3.11"
+      - name: Install dependencies
+        run: |
+          pip install poetry
+          poetry install
+      - name: Run tests
+        run: poetry run pytest -k 'not test_main_mapping_example_dir_relative and not test_main_mapping_example_dir and not test_process_dcm'
+
+  release:
+    name: Release
+    needs: run-tests
+    if: github.event_name == 'push' && github.ref == 'refs/heads/main'
     runs-on: ubuntu-latest
     permissions:
       contents: write
@@ -20,20 +42,14 @@ jobs:
         uses: actions/checkout@v4
         with:
           fetch-depth: 0
-
       - name: Set up Python
         uses: actions/setup-python@v5
         with:
           python-version: "3.11"
-
       - name: Install dependencies
         run: |
           pip install poetry commitizen
           poetry install
-
-      - name: Run tests
-        run: poetry run pytest -k 'not test_main_mapping_example_dir_relative and not test_main_mapping_example_dir and not test_process_dcm'
-
       - name: Check if version bump is needed
         id: check
         continue-on-error: true

From c9fda5d2ca918768015ed92c704a8a46ccd48422 Mon Sep 17 00:00:00 2001
From: Alan Silva <3899850+alanwilter@users.noreply.github.com>
Date: Mon, 30 Sep 2024 21:46:45 +0100
Subject: [PATCH 5/5] ci: :construction_worker: Some CI refinement

---
 .github/workflows/release.yml | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml
index ed75718..c10b6fc 100644
--- a/.github/workflows/release.yml
+++ b/.github/workflows/release.yml
@@ -58,6 +58,7 @@ jobs:
           echo "bump=$(cz bump --dry-run 2>&1 | grep -q 'bump:' && echo 'yes' || echo 'no')" >> $GITHUB_OUTPUT
 
       - name: Set up Git user
+        if: steps.check.outputs.bump == 'yes'
         run: |
           git config --global user.email "github-actions[bot]@users.noreply.github.com"
           git config --global user.name "github-actions[bot]"
@@ -70,6 +71,7 @@ jobs:
           echo "version=$(git describe --tags --abbrev=0)" >> $GITHUB_OUTPUT
 
       - name: Build project
+        if: steps.check.outputs.bump == 'yes'
         run: poetry build
 
       - name: Generate Changelog