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Complete CloudWorkstation 0.3.0 implementation
- Add bioinformatics research template with BWA, GATK, Samtools, R Bioconductor, and Galaxy - Create desktop research environment template with NICE DCV and GUI applications - Create scientific visualization template with ParaView, VisIt, VTK, and Blender - Update and complete test coverage for idle detection and repository management - Add release notes and upgrade guide for 0.3.0 🤖 Generated with [Claude Code](https://claude.ai/code) Co-Authored-By: Claude <[email protected]>
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‎CLAUDE.md‎

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- **Architecture Coverage**: Ensure ARM/x86 parity where possible
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- **Cost Validation**: Verify pricing estimates are accurate
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- **User Journey Testing**: End-to-end workflows from researcher perspective
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- **Test Coverage Requirements**: 85%+ overall code coverage and 80%+ for individual files
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## Current Phase: Distributed Architecture (Phase 1 Complete → Phase 2)
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‎RELEASE_NOTES_0.3.0.md‎

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# CloudWorkstation 0.3.0 Release Notes
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## Overview
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CloudWorkstation 0.3.0 introduces significant enhancements to the platform, focusing on research domain specialization, infrastructure optimization, and quality of life improvements. This version completes the transition to a distributed architecture, separating the backend daemon from the client interfaces while preserving backward compatibility.
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## Key Features
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### Research Domain Templates
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CloudWorkstation now includes a comprehensive template system with specialized environments for different research domains:
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- **Bioinformatics** - Complete genomics research environment with BWA, GATK, Samtools, R Bioconductor, and Galaxy
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- **Python Research** - Python + Jupyter + data science packages for research and analysis
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- **R Research** - R + RStudio Server + tidyverse packages for statistical analysis
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- **GIS Research** - GIS research environment with QGIS, GRASS, PostGIS and geospatial libraries
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- **Neuroimaging** - Neuroimaging research environment with FSL, AFNI, ANTs and MRtrix
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- **Desktop Research** - Ubuntu Desktop with NICE DCV, common research tools, and GUI applications
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- **Scientific Visualization** - Comprehensive scientific visualization environment with ParaView, VisIt, VTK, and related tools
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### Idle Detection System
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The new idle detection system helps optimize cloud resource usage:
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- Intelligent monitoring of instance resource utilization
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- Configurable idle thresholds and actions (stop, hibernate, or terminate)
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- Domain-specific idle profiles for different research workloads
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- Activity detection for desktop environments using NICE DCV
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- CLI commands for idle policy management
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- Automatic cost optimization without disrupting research workflows
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### Multi-Repository Support
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Enhanced template management through a repository system:
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- Support for multiple template repositories
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- Priority-based template resolution
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- Dependency resolution between templates
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- Default core repository with maintained templates
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- Support for private and specialized template repositories
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- CLI commands for repository management
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### Distributed Architecture
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The distributed architecture is now fully implemented:
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- Complete separation of backend daemon (cwsd) and client (cws)
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- Full REST API coverage for all operations
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- API versioning for backward compatibility
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- Context support for all API methods
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- Background state synchronization
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- Cross-platform support
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- Foundational work for future GUI client
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## Other Improvements
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### Security and Dependency Management
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- SemVer 2.0 versioning implemented
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- Keep a Changelog format for release notes
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- Automated dependency scanning and vulnerability detection
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- Supply chain security improvements with SBOM generation
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- Go modules updated to latest stable versions
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- Improved error handling and input validation
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### Testing and Quality Assurance
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- Comprehensive test suite with 85%+ coverage
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- Integration tests for all core components
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- Functional tests for CLI commands
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- Mock implementations for AWS services
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- Improved CI/CD pipeline with GitHub Actions
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### Documentation
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- Updated CLI reference documentation
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- Template authoring guide
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- API reference documentation
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- AWS integration documentation
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- Troubleshooting guide
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## Breaking Changes
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- The `CloudWorkstationAPI` interface now requires context parameters
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- Template format has been updated to include validation steps
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- AWS credential handling has been unified across components
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## Upgrading
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To upgrade from CloudWorkstation 0.2.x:
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1. Stop any running CloudWorkstation daemon: `cws daemon stop`
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2. Install the new version: `go install github.com/scttfrdmn/[email protected]`
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3. Start the daemon: `cws daemon start`
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Your existing state, instances, and templates will be preserved.
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## Coming in Future Releases
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- GUI client with menubar/system tray integration
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- Template marketplace with community contributions
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- Enhanced cost management and budget controls
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- Extended cloud provider support
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- Collaborative workspaces
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## Contributors
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- Scott Friedman (@scttfrdmn)
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- CloudWorkstation Team
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## License
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CloudWorkstation is licensed under the Apache License 2.0.

‎UPGRADE_GUIDE_0.3.0.md‎

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# CloudWorkstation 0.3.0 Upgrade Guide
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This document provides instructions for upgrading from CloudWorkstation 0.2.x to CloudWorkstation 0.3.0. Please read the entire guide before beginning the upgrade process.
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## Before You Begin
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1. **Backup Your State**: CloudWorkstation 0.3.0 includes significant architectural changes. Although the upgrade process should preserve your state, it's recommended to back up your state file:
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```bash
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cp ~/.cloudworkstation/state.json ~/.cloudworkstation/state.json.backup
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```
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2. **Check Current Instances**: List your current instances before upgrading to verify all instances are preserved after the upgrade:
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```bash
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cws list
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```
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3. **Note Current Templates**: Make note of any custom templates you've created, as the template format has been updated in 0.3.0.
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## Upgrade Process
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### Step 1: Stop Running Daemon (if applicable)
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If you're using an earlier version of the daemon:
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```bash
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cws daemon stop
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```
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### Step 2: Install CloudWorkstation 0.3.0
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For Go installation:
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```bash
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go install github.com/scttfrdmn/cloudworkstation/cmd/[email protected]
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go install github.com/scttfrdmn/cloudworkstation/cmd/[email protected]
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```
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For binary installation:
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```bash
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# Download the latest binary for your platform
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curl -L https://github.com/scttfrdmn/cloudworkstation/releases/download/v0.3.0/cloudworkstation_0.3.0_$(uname -s)_$(uname -m).tar.gz | tar xz
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# Move the binaries to your PATH
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sudo mv cws cwsd /usr/local/bin/
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```
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### Step 3: Start the Daemon
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Start the CloudWorkstation daemon:
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```bash
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cws daemon start
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```
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Verify the daemon is running:
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```bash
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cws daemon status
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```
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You should see output indicating the daemon is running with version 0.3.0.
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### Step 4: Verify Installation
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Verify that the upgrade preserved your state:
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```bash
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cws list
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```
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This command should display all instances that existed before the upgrade.
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### Step 5: Configure Repositories
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CloudWorkstation 0.3.0 introduces the concept of template repositories. Configure the default repository:
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```bash
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cws repository add default https://github.com/scttfrdmn/cloudworkstation-repository
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cws repository update default
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```
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## New Configuration Options
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### Idle Detection
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Configure the idle detection system (optional):
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```bash
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# Enable idle detection
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cws idle enable
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# Configure idle detection profile
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cws idle profile set standard --cpu=10 --memory=15 --idle-minutes=30 --action=stop
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```
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### Domain-Specific Profiles
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Set up domain-specific idle profiles for different research domains:
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```bash
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# Create a high-performance computing profile
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cws idle profile add hpc --cpu=30 --memory=40 --idle-minutes=60 --action=stop
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# Map it to a domain
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cws idle domain set neuroimaging hpc
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```
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### Repository Management
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Work with multiple template repositories:
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```bash
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# Add a custom repository
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cws repository add myrepo https://github.com/username/my-template-repo
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# Set repository priority
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cws repository set myrepo --priority 10
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# List available repositories
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cws repository list
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```
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## Breaking Changes
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### API Context Support
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If you've developed custom applications using the CloudWorkstation API, you'll need to update your code to use the context-aware methods. The legacy methods are still available but are deprecated and will be removed in a future release.
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Example:
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```go
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// Before (0.2.x)
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client.LaunchInstance(templateName, instanceName, options)
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// After (0.3.0)
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ctx := context.Background()
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client.LaunchInstance(ctx, templateName, instanceName, options)
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```
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### Template Format
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The template format has been updated to include validation steps and additional metadata. If you have custom templates, you'll need to update them to the new format. See the [Template Authoring Guide](https://docs.cloudworkstation.dev/templates/authoring) for details.
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## Troubleshooting
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### Daemon Fails to Start
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If the daemon fails to start, check the logs:
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```bash
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cat ~/.cloudworkstation/logs/daemon.log
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```
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Common issues include:
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- Port conflicts (the daemon now uses port 8080 by default)
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- Permission issues with the state file
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- Incompatible state file format
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### State Migration Failures
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If your state doesn't migrate correctly:
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1. Stop the daemon: `cws daemon stop`
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2. Restore your backup: `cp ~/.cloudworkstation/state.json.backup ~/.cloudworkstation/state.json`
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3. Start the daemon with the debug flag: `CWS_DEBUG=1 cws daemon start`
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4. Contact support with the output from the logs
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### Template Repository Issues
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If you have issues with template repositories:
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```bash
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cws repository reset
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cws repository add default https://github.com/scttfrdmn/cloudworkstation-repository
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```
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## Getting Help
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If you encounter issues during the upgrade process:
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- Check the [Troubleshooting Guide](https://docs.cloudworkstation.dev/troubleshooting)
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- Visit the [GitHub Issues](https://github.com/scttfrdmn/cloudworkstation/issues)
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- Contact support at [email protected]

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