Major rework on DLMUSEV2

CBICA · Sep 14, 2024 · 2df6da1 · 2df6da1
1 parent 940aa1d
commit 2df6da1
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Showing 23 changed files with 40,895 additions and 769 deletions.
diff --git a/.github/workflows/pre-commit.yml b/.github/workflows/pre-commit.yml
@@ -0,0 +1,17 @@
+name: pre-commit
+
+on:
+  pull_request:
+  push:
+    branches: [main]
+
+jobs:
+  pre-commit:
+    runs-on: macos-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+        with:
+          python-version: "3.12"
+      - run: pip3 install pre-commit
+      - run: pre-commit run --files src/*
diff --git a/.gitignore b/.gitignore
@@ -182,4 +182,7 @@ Temporary Items
 *.nii
 *.nii.gz
 temp/
-.vscode
+.vscode
+
+# Prevent nnunet_results from going into production
+nnunet_results/
diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
@@ -0,0 +1,19 @@
+repos:
+  - repo: https://github.com/ambv/black
+    rev: 24.3.0
+    hooks:
+      - id: black
+  - repo: https://github.com/pycqa/isort
+    rev: 5.11.5
+    hooks:
+      - id: isort
+        args: ["--profile", "black"]
+  - repo: https://github.com/pycqa/flake8
+    rev: 5.0.4
+    hooks:
+      - id: flake8
+  - repo: https://github.com/pre-commit/mirrors-mypy
+    rev: v0.991
+    hooks:
+      - id: mypy
+        args: ["--ignore-missing-imports"]
diff --git a/DLMUSE/VERSION b/DLMUSE/VERSION
diff --git a/DLMUSE/__main__.py b/DLMUSE/__main__.py
diff --git a/DLMUSE/compute_muse.py b/DLMUSE/compute_muse.py
diff --git a/DLMUSE/compute_volumes.py b/DLMUSE/compute_volumes.py