Version bumps (#11)

Pull in upstream updates to bump versions of dependencies

Author: ejfine

.copier-answers.yml

@@ -1,12 +1,13 @@
 # Changes here will be overwritten by Copier
-_commit: v0.0.5-57-g045b3f3
+_commit: v0.0.6-6-g2b24a38
 _src_path: gh:LabAutomationAndScreening/copier-base-template.git
 description: Copier template for creating Python libraries and executables
 python_ci_versions:
 - 3.12.7
-- 3.13.1
+- 3.13.2
 python_version: 3.12.7
 repo_name: copier-python-package-template
+repo_org_name: LabAutomationAndScreening
 ssh_port_number: 55874
 template_uses_pulumi: false
 template_uses_python: true

.devcontainer/install-ci-tooling.sh

@@ -2,7 +2,7 @@
 # can pass in the full major.minor.patch version of python as an optional argument
 set -ex
 
-curl -LsSf https://astral.sh/uv/0.5.28/install.sh | sh
+curl -LsSf https://astral.sh/uv/0.6.6/install.sh | sh
 uv --version
 # TODO: add uv autocompletion to the shell https://docs.astral.sh/uv/getting-started/installation/#shell-autocompletion
 
@@ -15,8 +15,8 @@ input="${1:-$default_version}"
 export UV_PYTHON="$input"
 export UV_PYTHON_PREFERENCE=only-system
 
-uv tool install 'copier==9.4.1' --with 'copier-templates-extensions==0.3.0'
+uv tool install 'copier==9.5.0' --with 'copier-templates-extensions==0.3.0'
 
-uv tool install 'pre-commit==4.0.1'
+uv tool install 'pre-commit==4.1.0'
 
 uv tool list

.github/actions/install_deps_uv/action.yml

@@ -27,7 +27,7 @@ runs:
       shell: bash
 
     - name: Setup python
-      uses: actions/setup-python@v5.3.0
+      uses: actions/setup-python@v5.4.0
       with:
         python-version: ${{ env.PYTHON_VERSION }}
 

.github/actions/install_deps_uv/install-ci-tooling.ps1

@@ -3,7 +3,7 @@
 Set-StrictMode -Version Latest
 $ErrorActionPreference = "Stop"
 
-irm https://astral.sh/uv/0.5.28/install.ps1 | iex
+irm https://astral.sh/uv/0.6.6/install.ps1 | iex
 
 # Add uv to path (in github runner)
 $env:Path = "C:\Users\runneradmin\.local\bin;$env:Path"
@@ -24,8 +24,8 @@ if ($args.Count -eq 0) {
 $env:UV_PYTHON = "$input"
 $env:UV_PYTHON_PREFERENCE="only-system"
 
-& uv tool install 'copier==9.4.1' --with 'copier-templates-extensions==0.3.0'
+& uv tool install 'copier==9.5.0' --with 'copier-templates-extensions==0.3.0'
 
-& uv tool install 'pre-commit==4.0.1'
+& uv tool install 'pre-commit==4.1.0'
 
 & uv tool list

.github/workflows/ci.yaml

@@ -36,7 +36,7 @@ jobs:
 
       - name: Set up mutex # Github concurrency management is horrible, things get arbitrarily cancelled if queued up. So using mutex until github fixes itself. When multiple jobs are modifying cache at once, weird things can happen.  possible issue is https://github.com/actions/toolkit/issues/658
         if: ${{ runner.os != 'Windows' }} # we're just gonna have to YOLO on Windows, because this action doesn't support it yet https://github.com/ben-z/gh-action-mutex/issues/14
-        uses: ben-z/gh-action-mutex@d3d5b354d460d4b6a1e3ee5b7951678658327812 # v1.0.0-alpha.9
+        uses: ben-z/gh-action-mutex@1ebad517141198e08d47cf72f3c0975316620a65 # v1.0.0-alpha.10
         with:
           branch: mutex-venv-${{ matrix.os }}-${{ matrix.python-version }}
         timeout-minutes: 30 # this is the amount of time this action will wait to attempt to acquire the mutex lock before failing, e.g. if other jobs are queued up in front of it
@@ -64,7 +64,7 @@ jobs:
 
           - 3.12.7
 
-          - 3.13.1
+          - 3.13.2
 
         copier: [
           '--data-file tests/copier_data/data1.yaml',
@@ -115,7 +115,7 @@ jobs:
 
       - name: Set up mutex # Github concurrency management is horrible, things get arbitrarily cancelled if queued up. So using mutex until github fixes itself. When multiple jobs are modifying cache at once, weird things can happen.  possible issue is https://github.com/actions/toolkit/issues/658
         if: ${{ runner.os != 'Windows' }} # we're just gonna have to YOLO on Windows, because this action doesn't support it yet https://github.com/ben-z/gh-action-mutex/issues/14
-        uses: ben-z/gh-action-mutex@d3d5b354d460d4b6a1e3ee5b7951678658327812 # v1.0.0-alpha.9
+        uses: ben-z/gh-action-mutex@1ebad517141198e08d47cf72f3c0975316620a65 # v1.0.0-alpha.10
         with:
           branch: mutex-venv-${{ matrix.os }}-${{ matrix.python-version }}
         timeout-minutes: 30 # this is the amount of time this action will wait to attempt to acquire the mutex lock before failing, e.g. if other jobs are queued up in front of it

.pre-commit-config.yaml

@@ -43,7 +43,7 @@ repos:
 
 # Reformatting (should generally come before any file format or other checks, because reformatting can change things)
 -   repo: https://github.com/crate-ci/typos
-    rev: e59f226fadcb05a1440bd8b35ee994a9d21bf03b  # frozen: typos-dict-v0.12.4
+    rev: 2300ad1b6b5c37da54bcafb1a06211196503eac9  # frozen: v1
     hooks:
       - id: typos
 -   repo: https://github.com/pre-commit/pre-commit-hooks
@@ -162,7 +162,7 @@ repos:
         description: Runs hadolint to lint Dockerfiles
 
 -   repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: 871f3bcae4fe473cd7109c3a068db975dc035e3b  # frozen: v0.9.4
+    rev: 41d2daf392fbf43341a77f24a9c6481a4b66af98  # frozen: v0.9.10
     hooks:
     -   id: ruff
         name: ruff-src
@@ -175,7 +175,7 @@ repos:
     -   id: ruff-format
 
 -   repo: https://github.com/pylint-dev/pylint
-    rev: c2b01c3d0b6410d4c93eb1f32fb28f2116b1e68f  # frozen: v3.3.4
+    rev: aaab3ccb541532d2bcdf0410ab93ff4fafc266f5  # frozen: v3.3.5
     hooks:
     -   id: pylint
         name: pylint

README.md

@@ -1,11 +1,20 @@
 [![pre-commit](https://img.shields.io/badge/pre--commit-enabled-brightgreen?logo=pre-commit&logoColor=white)](https://github.com/pre-commit/pre-commit)
+[![Copier](https://img.shields.io/endpoint?url=https://raw.githubusercontent.com/copier-org/copier/master/img/badge/badge-black.json)](https://github.com/copier-org/copier)
+[![Actions status](https://www.github.com/LabAutomationAndScreening/copier-python-package-template/actions/workflows/ci.yaml/badge.svg?branch=main)](https://www.github.com/LabAutomationAndScreening/copier-python-package-template/actions)
+[![Open in Dev Containers](https://img.shields.io/static/v1?label=Dev%20Containers&message=Open&color=blue)](https://vscode.dev/redirect?url=vscode://ms-vscode-remote.remote-containers/cloneInVolume?url=https://www.github.com/LabAutomationAndScreening/copier-python-package-template)
 
 
+# Usage
+To create a new repository using this template:
+1. Install `copier` and `copier-templates-extensions`. An easy way to do that is to copy the `.devcontainer/install-ci-tooling.sh` script in this repository into your new repo and then run it.
+2. Run copier to instantiate the template: `copier copy --trust gh:LabAutomationAndScreening/copier-python-package-template.git`
+3. Run `uv lock` to generate the lock file
+4. Commit the changes
+5. Rebuild your new devcontainer
 
 
 
-
-
+# Development
 
 
 ## Updating from the template

copier.yml

@@ -32,7 +32,7 @@ python_ci_versions:
     multiselect: true
     choices:
       - "3.12.7"
-      - "3.13.1"
+      - "3.13.2"
 
 
 
@@ -67,6 +67,11 @@ use_windows_in_exe_ci:
     default: no
     when: is_frozen_executable
 
+use_codecov:
+    type: bool
+    help: Upload code coverage results to CodeCov?
+    default: no
+
 
 # Additional Settings
 _min_copier_version: "9.4"

extensions/context.py

@@ -10,34 +10,35 @@ class ContextUpdater(ContextHook):
 
     @override
     def hook(self, context: dict[Any, Any]) -> dict[Any, Any]:
-        context["uv_version"] = "0.5.28"
-        context["pre_commit_version"] = "4.0.1"
-        context["pyright_version"] = "1.1.394"
+        context["uv_version"] = "0.6.6"
+        context["pre_commit_version"] = "4.1.0"
+        context["pyright_version"] = "1.1.396"
         context["pytest_version"] = "8.3.4"
         context["pytest_randomly_version"] = "3.16.0"
         context["pytest_cov_version"] = "6.0.0"
-        context["copier_version"] = "9.4.1"
+        context["copier_version"] = "9.5.0"
         context["copier_templates_extension_version"] = "0.3.0"
         context["sphinx_version"] = "8.1.3"
-        context["pulumi_version"] = "3.149.0"
+        context["pulumi_version"] = "3.155.0"
         context["pulumi_aws_version"] = "6.67.0"
         context["pulumi_aws_native_version"] = "1.25.0"
         context["pulumi_command_version"] = "1.0.1"
-        context["boto3_version"] = "1.36.3"
+        context["pulumi_github"] = ""
+        context["boto3_version"] = "1.37.11"
         context["ephemeral_pulumi_deploy_version"] = "0.0.2"
         context["pydantic_version"] = "2.10.6"
         context["pyinstaller_version"] = "6.12.0"
 
         context["gha_checkout"] = "v4.2.2"
-        context["gha_setup_python"] = "v5.3.0"
+        context["gha_setup_python"] = "v5.4.0"
         context["gha_cache"] = "v4.2.0"
         context["gha_upload_artifact"] = "v4.4.3"
         context["gha_configure_aws_credentials"] = "v4.0.2"
-        context["gha_mutex"] = "d3d5b354d460d4b6a1e3ee5b7951678658327812 # v1.0.0-alpha.9"
+        context["gha_mutex"] = "1ebad517141198e08d47cf72f3c0975316620a65 # v1.0.0-alpha.10"
         context["gha_linux_runner"] = "ubuntu-24.04"
         context["gha_windows_runner"] = "windows-2022"
 
         context["py311_version"] = ""
         context["py312_version"] = "3.12.7"
-        context["py313_version"] = "3.13.1"
+        context["py313_version"] = "3.13.2"
         return context

pyproject.toml

@@ -9,8 +9,8 @@ dependencies = [
     "pytest>=8.3.4",
     "pytest-cov>=6.0.0",
     "pytest-randomly>=3.16.0",
-    "pyright[nodejs]>=1.1.394",
-    "copier>=9.4.1",
+    "pyright[nodejs]>=1.1.396",
+    "copier>=9.5.0",
     "copier-templates-extensions>=0.3.0"
 
     # Specific to this template