Feature/update from template

.claude/README.md

@@ -0,0 +1,63 @@
+# Claude Code Configuration
+
+This directory contains configuration for using this project with Claude Code, particularly in the online environment.
+
+## SessionStart Hook
+
+The `hooks/SessionStart` script automatically runs when a new Claude Code session begins. It:
+
+1. **Installs pixi** (if not already installed) - The package and environment manager
+2. **Installs project dependencies** - All Python packages and tools defined in `pyproject.toml`
+3. **Sets up pre-commit hooks** - For automatic code quality checks
+4. **Configures git** - Sets up merge drivers for lockfiles
+
+## Usage with Claude Code Online
+
+When you start a Claude Code online session, the SessionStart hook will automatically run and set up your environment. You'll see output indicating the setup progress.
+
+### Available Commands
+
+Once setup is complete, Claude can use these pixi tasks:
+
+#### Testing & Quality
+- `pixi run test` - Run pytest tests
+- `pixi run coverage` - Run tests with coverage report
+- `pixi run lint` - Run ruff and pylint linters
+- `pixi run format` - Format code with ruff
+
+#### CI Tasks
+- `pixi run ci` - Run full CI pipeline (format, lint, test, coverage)
+- `pixi run fix` - Auto-fix common issues (update lock, format, lint)
+
+#### Pre-commit
+- `pixi run pre-commit` - Run all pre-commit hooks
+- `pixi run pre-commit-update` - Update pre-commit hook versions
+
+### How It Works
+
+1. **First session**: The hook installs pixi and all dependencies (may take a few minutes)
+2. **Subsequent sessions**: The hook verifies the environment is ready (much faster)
+3. **Environment activated**: All pixi commands are available to Claude
+
+### Troubleshooting
+
+If you encounter issues:
+
+1. **Dependencies not found**: Run `pixi install` manually
+2. **Lockfile conflicts**: Run `pixi run update-lock`
+3. **Pre-commit issues**: Run `pixi run pre-commit-update`
+4. **Full reset**: Delete `.pixi` directory and restart session
+
+### Customization
+
+You can modify `hooks/SessionStart` to:
+- Install additional tools
+- Run custom setup scripts
+- Configure environment variables
+- Set up external services
+
+## Learn More
+
+- [Claude Code Documentation](https://docs.claude.com/claude-code)
+- [Pixi Documentation](https://pixi.sh)
+- [Project README](../README.md)

.claude/activate.sh

@@ -0,0 +1,19 @@
+#!/bin/bash
+# Source this file to activate the pixi environment in your current shell
+# Usage: source .claude/activate.sh
+
+# Add pixi to PATH
+export PATH="$HOME/.pixi/bin:$PATH"
+
+# Optional: Activate pixi shell if available
+if command -v pixi &> /dev/null; then
+    echo "✅ Pixi environment activated"
+    echo "💡 Available commands:"
+    echo "   pixi run test        - Run tests"
+    echo "   pixi run lint        - Run linters"
+    echo "   pixi run format      - Format code"
+    echo "   pixi run ci          - Run full CI"
+    pixi task list --summary 2>/dev/null || true
+else
+    echo "⚠️  Pixi not found. Please run .claude/hooks/SessionStart first."
+fi

.claude/hooks/SessionStart

@@ -0,0 +1,50 @@
+#!/bin/bash
+# SessionStart hook for Claude Code online environment
+# This script sets up the Python development environment using pixi
+
+set -e
+
+echo "🚀 Setting up Python Template environment..."
+
+# Check if pixi is installed
+if ! command -v pixi &> /dev/null; then
+    echo "📦 Installing pixi..."
+    curl -fsSL https://pixi.sh/install.sh | bash
+
+    # Add pixi to PATH for current session
+    export PATH="$HOME/.pixi/bin:$PATH"
+
+    # Source bashrc to get pixi in PATH (if bashrc was updated)
+    [ -f "$HOME/.bashrc" ] && source "$HOME/.bashrc"
+
+    echo "✅ Pixi installed successfully"
+else
+    echo "✅ Pixi already installed"
+fi
+
+# Ensure pixi is in PATH for this session
+export PATH="$HOME/.pixi/bin:$PATH"
+
+# Install project dependencies
+echo "📦 Installing project dependencies..."
+pixi install
+
+# Run pre-commit installation
+echo "🔧 Setting up pre-commit hooks..."
+pixi run pre-commit install || echo "⚠️  Pre-commit installation skipped (optional)"
+
+# Set up git merge driver for lockfiles
+echo "🔧 Configuring git merge driver..."
+pixi run setup-git-merge-driver || true
+
+echo "✅ Environment setup complete!"
+echo ""
+echo "Available pixi tasks:"
+pixi task list
+echo ""
+echo "💡 Common commands:"
+echo "  pixi run test        - Run tests"
+echo "  pixi run lint        - Run linters"
+echo "  pixi run format      - Format code"
+echo "  pixi run ci          - Run full CI pipeline"
+echo ""

.devcontainer/Dockerfile

@@ -1,6 +1,6 @@
 FROM mcr.microsoft.com/devcontainers/base:jammy
 
-ARG PIXI_VERSION=v0.41.4
+ARG PIXI_VERSION=v0.48.2
 
 RUN curl -L -o /usr/local/bin/pixi -fsSL --compressed "https://github.com/prefix-dev/pixi/releases/download/${PIXI_VERSION}/pixi-$(uname -m)-unknown-linux-musl" \
     && chmod +x /usr/local/bin/pixi \

.devcontainer/devcontainer.json

@@ -4,7 +4,7 @@
         "dockerfile": "Dockerfile",
         "context": "..",
         "args": {
-            "PIXI_VERSION": "v0.41.4"
+            "PIXI_VERSION": "v0.48.2"
         }
     },
     "customizations": {

.github/dependabot.yml

@@ -12,13 +12,12 @@ updates:
     groups:
       dev-dependencies:
         #try to group all development dependencies updates into a single pr
-        patterns:          
-          - "black"
+        patterns:
           - "check-manifest"
           - "pre-commit"
           - "pylint"
           - "pytest"
-          - "pytest-cov"          
+          - "pytest-cov"
           - "hypothesis"
           - "ruff"
           - "coverage"

.github/workflows/ci.yml

@@ -17,8 +17,8 @@ jobs:
         environment: [py310, py311, py312, py313]
     steps:
       - name: Checkout
-        uses: actions/checkout@v4
-      - uses: prefix-dev/setup-pixi@v0.8.14
+        uses: actions/checkout@v6
+      - uses: prefix-dev/setup-pixi@v0.9.3
         with:
           cache: true
           frozen: true

.github/workflows/pre-commit.yaml

@@ -6,5 +6,5 @@ jobs:
   pre-commit:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v6
       - uses: pre-commit/action@v3.0.1

.vscode/tasks.json

@@ -23,9 +23,9 @@
 		},
 		{
 			"label": "autoformat",
-			"detail": "Use ruff and black to automatically fix and format the code",
+			"detail": "Use ruff to automatically fix and format the code",
 			"type": "shell",
-			"command": "pixi run fmt"
+			"command": "pixi run format"
 		},		
 		{
 			"label": "lint",
@@ -103,17 +103,7 @@
 			"detail": "Replaces all instances of the template project name with a new name. ",
 			"type": "shell",
 			"command": "scripts/rename_project.sh '${input:new_project_name}' '${input:new_author_name}'  '${input:new_author_email}'  '${input:github_username}'"
-		},		
-		{
-			"label": "flit install",
-			"type": "shell",
-			"command": "flit install --symlink"
 		},
-		{
-			"label": "flit publish",
-			"type": "shell",
-			"command": "flit publish"
-		},				
 		{
 			"label": "setup: host",
 			"detail": "Sets up docker, nvidia docker git-lfs and rocker which are used to clone and setup docker containers",
@@ -140,7 +130,7 @@
             "label": "Install All Recommended Extensions",
             "type": "shell",           
             "linux": {
-                "command": "cat .vscode/extensions.json | jq .recommendations[] | xargs -n 1 code . --install-extension"
+                "command": "if [ -f /.dockerenv ] || grep -q 'docker\\|lxc' /proc/1/cgroup 2>/dev/null; then echo 'Docker container detected, installing extensions...'; cat .vscode/extensions.json | jq .recommendations[] | xargs -n 1 code . --install-extension; else echo 'Not in Docker container, skipping extension installation'; fi"
             },
             "runOptions": {
                 "runOn": "folderOpen"

CHANGELOG.md

@@ -2,4 +2,4 @@
 
 ## dbw
 
-## [0.0.0]
+## [0.2.0]

README.md

@@ -4,8 +4,7 @@ A template repo for python projects that is set up using [pixi](https://pixi.sh)
 This has basic setup for
 
 * pylint
-* ruff
-* black
+* ruff (formatting and linting)
 * pytest
 * git-lfs
 * basic github actions ci
@@ -37,6 +36,27 @@ If you want to use docker you may want to run the `scripts/setup_host.sh` script
 
 If you are using pixi, look at the available tasks in pyproject.toml  If you are new to pixi follow the instructions on the pixi [website](https://prefix.dev/)
 
+# Claude Code Online Support
+
+This template includes built-in support for [Claude Code](https://docs.claude.com/claude-code) online environment! The `.claude/hooks/SessionStart` script automatically:
+
+- Installs pixi package manager
+- Sets up all project dependencies
+- Configures pre-commit hooks
+- Prepares the development environment
+
+**Quick Start with Claude Code:**
+1. Open this repository in Claude Code online
+2. The environment sets up automatically via the SessionStart hook
+3. Claude can immediately run commands like `pixi run test`, `pixi run lint`, etc.
+
+**Manual activation (if needed):**
+```bash
+source .claude/activate.sh
+```
+
+See [.claude/README.md](.claude/README.md) for detailed information about the Claude Code configuration.
+
 # Github setup
 
 There are github workflows for CI, codecov and automated pypi publishing in `ci.yml` and `publish.yml`.
@@ -77,7 +97,7 @@ pixi run ci
 
 ## Legacy
 
-If you don't want to install rocker on your system but want to use vscode, you can run the `scripts/launch_vscode.sh` script to build and connect to a docker container. It will install rocker in a venv.  The docker container is dynamically generated using [rocker](https://github.com/osrf/rocker) and [deps rocker](https://github.com/blooop/deps_rocker).  [deps rocker](https://github.com/blooop/deps_rocker) looks at the dbw.deps.yaml file to install any required apt, pip or shell scripts and launches a container that vscode attaches to. 
+If you don't want to install rocker on your system but want to use vscode, you can run the `scripts/launch_vscode.sh` script to build and connect to a docker container. It will install rocker in a venv.  The docker container is dynamically generated using [rocker](https://github.com/osrf/rocker) and the configuration in `rockerc.yaml`. 
 
 ## Troubleshooting
 

docs/intro.rst

@@ -6,8 +6,7 @@ A template repo for python projects
 This has basic setup for
 
 * pylint
-* ruff
-* black
+* ruff (formatting and linting)
 * pytest
 * codecov
 * git-lfs