Updates to fix failing CI

.bumpversion.toml

@@ -15,8 +15,5 @@ message = "Version updated from {current_version} to {new_version}"
 [[tool.bumpversion.files]]
 filename = "pyproject.toml"
 
-[[tool.bumpversion.files]]
-filename = "README.md"
-
 [[tool.bumpversion.files]]
 filename = "src/imageruler/__init__.py"

.github/workflows/build-ci.yml

@@ -13,7 +13,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout repository
-        uses: actions/checkout@v4
+        uses: actions/checkout@v5
 
       - name: Set up Python
         uses: actions/setup-python@v6
@@ -32,7 +32,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout repository
-        uses: actions/checkout@v4
+        uses: actions/checkout@v5
 
       - name: Set up Python
         uses: actions/setup-python@v6
@@ -60,7 +60,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout repository
-        uses: actions/checkout@v4
+        uses: actions/checkout@v5
 
       - name: Set up Python
         uses: actions/setup-python@v6

.github/workflows/cli_test.yml

@@ -13,7 +13,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout repository
-        uses: actions/checkout@v4
+        uses: actions/checkout@v5
 
       - name: Set up Python
         uses: actions/setup-python@v6
@@ -29,4 +29,4 @@ jobs:
 
       - name: Run program on reference design
         run: |
-          python imageruler reference_designs/Rasmus70nm.csv
+          python imageruler reference_designs/rgb_metalens/ex/Rasmus70nm.csv

.github/workflows/pages.yml

@@ -12,7 +12,7 @@ jobs:
     name: Sphinx docs to gh-pages
     steps:
       - name: Checkout repository
-        uses: actions/checkout@v4
+        uses: actions/checkout@v5
 
       - name: Set up Python
         uses: actions/setup-python@v6
@@ -30,7 +30,7 @@ jobs:
         run: jb build docs
 
       - name: Upload artifact
-        uses: actions/upload-pages-artifact@v3
+        uses: actions/upload-pages-artifact@v4
         with:
           path: "./docs/_build/html/"
 

.github/workflows/release.yml

@@ -9,7 +9,7 @@ jobs:
     if: github.event_name == 'push'
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v5
       - name: Set up Python
         uses: actions/setup-python@v6
         with:

.pre-commit-config.yaml

@@ -1,6 +1,6 @@
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.4.0
+    rev: v6.0.0
     hooks:
       - id: check-added-large-files
       - id: check-case-conflict
@@ -35,7 +35,7 @@ repos:
 
     # Security linter
   - repo: https://github.com/PyCQA/bandit
-    rev: 1.7.5
+    rev: 1.8.6
     hooks:
       - id: bandit
         args: [--exit-zero]

README.md

@@ -1,5 +1,5 @@
 [![Build Status](https://github.com/NanoComp/imageruler/workflows/CI/badge.svg)](https://github.com/NanoComp/imageruler/actions)
-`v0.3.0`
+![PyPI version](https://img.shields.io/pypi/v/imageruler)
 
 Imageruler is a free Python program to compute the minimum length scale of binary images which are typically designs produced by topology optimization. The algorithm is described in Section 2 of [J. Optical Society of America B, Vol. 42, pp. A161-A176 (2024)](https://opg.optica.org/josab/abstract.cfm?uri=josab-41-2-A161) and is based on morphological transformations implemented using [OpenCV](https://github.com/opencv/opencv). Imageruler also supports 1d binary images.
 

src/imageruler/imageruler.py

@@ -652,7 +652,7 @@ def pad_2d(
         border_type_i = cv2.BORDER_REPLICATE
     else:
         border_type_i = cv2.BORDER_CONSTANT
-    x = cv2.copyMakeBorder(  # type: ignore[call-overload]
+    x = cv2.copyMakeBorder(
         src=x.view(onp.uint8),
         top=top,
         bottom=bottom,
@@ -668,7 +668,7 @@ def pad_2d(
         border_type_j = cv2.BORDER_REPLICATE
     else:
         border_type_j = cv2.BORDER_CONSTANT
-    x = cv2.copyMakeBorder(  # type: ignore[call-overload]
+    x = cv2.copyMakeBorder(
         src=x,
         top=0,
         bottom=0,