Remove humanlayer prefix from local skills installation

Local skills don't need the humanlayer: prefix since they're not
from the humanlayer/claude-plugins repo.

.beads/.gitignore

@@ -0,0 +1,39 @@
+# SQLite databases
+*.db
+*.db?*
+*.db-journal
+*.db-wal
+*.db-shm
+
+# Daemon runtime files
+daemon.lock
+daemon.log
+daemon.pid
+bd.sock
+sync-state.json
+last-touched
+
+# Local version tracking (prevents upgrade notification spam after git ops)
+.local_version
+
+# Legacy database files
+db.sqlite
+bd.db
+
+# Worktree redirect file (contains relative path to main repo's .beads/)
+# Must not be committed as paths would be wrong in other clones
+redirect
+
+# Merge artifacts (temporary files from 3-way merge)
+beads.base.jsonl
+beads.base.meta.json
+beads.left.jsonl
+beads.left.meta.json
+beads.right.jsonl
+beads.right.meta.json
+
+# NOTE: Do NOT add negation patterns (e.g., !issues.jsonl) here.
+# They would override fork protection in .git/info/exclude, allowing
+# contributors to accidentally commit upstream issue databases.
+# The JSONL files (issues.jsonl, interactions.jsonl) and config files
+# are tracked by git by default since no pattern above ignores them.

.beads/README.md

@@ -0,0 +1,81 @@
+# Beads - AI-Native Issue Tracking
+
+Welcome to Beads! This repository uses **Beads** for issue tracking - a modern, AI-native tool designed to live directly in your codebase alongside your code.
+
+## What is Beads?
+
+Beads is issue tracking that lives in your repo, making it perfect for AI coding agents and developers who want their issues close to their code. No web UI required - everything works through the CLI and integrates seamlessly with git.
+
+**Learn more:** [github.com/steveyegge/beads](https://github.com/steveyegge/beads)
+
+## Quick Start
+
+### Essential Commands
+
+```bash
+# Create new issues
+bd create "Add user authentication"
+
+# View all issues
+bd list
+
+# View issue details
+bd show <issue-id>
+
+# Update issue status
+bd update <issue-id> --status in_progress
+bd update <issue-id> --status done
+
+# Sync with git remote
+bd sync
+```
+
+### Working with Issues
+
+Issues in Beads are:
+- **Git-native**: Stored in `.beads/issues.jsonl` and synced like code
+- **AI-friendly**: CLI-first design works perfectly with AI coding agents
+- **Branch-aware**: Issues can follow your branch workflow
+- **Always in sync**: Auto-syncs with your commits
+
+## Why Beads?
+
+✨ **AI-Native Design**
+- Built specifically for AI-assisted development workflows
+- CLI-first interface works seamlessly with AI coding agents
+- No context switching to web UIs
+
+🚀 **Developer Focused**
+- Issues live in your repo, right next to your code
+- Works offline, syncs when you push
+- Fast, lightweight, and stays out of your way
+
+🔧 **Git Integration**
+- Automatic sync with git commits
+- Branch-aware issue tracking
+- Intelligent JSONL merge resolution
+
+## Get Started with Beads
+
+Try Beads in your own projects:
+
+```bash
+# Install Beads
+curl -sSL https://raw.githubusercontent.com/steveyegge/beads/main/scripts/install.sh | bash
+
+# Initialize in your repo
+bd init
+
+# Create your first issue
+bd create "Try out Beads"
+```
+
+## Learn More
+
+- **Documentation**: [github.com/steveyegge/beads/docs](https://github.com/steveyegge/beads/tree/main/docs)
+- **Quick Start Guide**: Run `bd quickstart`
+- **Examples**: [github.com/steveyegge/beads/examples](https://github.com/steveyegge/beads/tree/main/examples)
+
+---
+
+*Beads: Issue tracking that moves at the speed of thought* ⚡

.beads/config.yaml

@@ -0,0 +1,62 @@
+# Beads Configuration File
+# This file configures default behavior for all bd commands in this repository
+# All settings can also be set via environment variables (BD_* prefix)
+# or overridden with command-line flags
+
+# Issue prefix for this repository (used by bd init)
+# If not set, bd init will auto-detect from directory name
+# Example: issue-prefix: "myproject" creates issues like "myproject-1", "myproject-2", etc.
+# issue-prefix: ""
+
+# Use no-db mode: load from JSONL, no SQLite, write back after each command
+# When true, bd will use .beads/issues.jsonl as the source of truth
+# instead of SQLite database
+# no-db: false
+
+# Disable daemon for RPC communication (forces direct database access)
+# no-daemon: false
+
+# Disable auto-flush of database to JSONL after mutations
+# no-auto-flush: false
+
+# Disable auto-import from JSONL when it's newer than database
+# no-auto-import: false
+
+# Enable JSON output by default
+# json: false
+
+# Default actor for audit trails (overridden by BD_ACTOR or --actor)
+# actor: ""
+
+# Path to database (overridden by BEADS_DB or --db)
+# db: ""
+
+# Auto-start daemon if not running (can also use BEADS_AUTO_START_DAEMON)
+# auto-start-daemon: true
+
+# Debounce interval for auto-flush (can also use BEADS_FLUSH_DEBOUNCE)
+# flush-debounce: "5s"
+
+# Git branch for beads commits (bd sync will commit to this branch)
+# IMPORTANT: Set this for team projects so all clones use the same sync branch.
+# This setting persists across clones (unlike database config which is gitignored).
+# Can also use BEADS_SYNC_BRANCH env var for local override.
+# If not set, bd sync will require you to run 'bd config set sync.branch <branch>'.
+sync-branch: "beads-sync"
+
+# Multi-repo configuration (experimental - bd-307)
+# Allows hydrating from multiple repositories and routing writes to the correct JSONL
+# repos:
+#   primary: "."  # Primary repo (where this database lives)
+#   additional:   # Additional repos to hydrate from (read-only)
+#     - ~/beads-planning  # Personal planning repo
+#     - ~/work-planning   # Work planning repo
+
+# Integration settings (access with 'bd config get/set')
+# These are stored in the database, not in this file:
+# - jira.url
+# - jira.project
+# - linear.url
+# - linear.api-key
+# - github.org
+# - github.repo

.beads/metadata.json

@@ -1,4 +1,4 @@
 {
   "database": "beads.db",
-  "jsonl_export": "issues.jsonl"
+  "jsonl_export": "sync_base.jsonl"
 }

.gitattributes

@@ -0,0 +1,3 @@
+
+# Use bd merge for beads JSONL files
+.beads/issues.jsonl merge=beads

home/home-server.nix

@@ -0,0 +1,24 @@
+{ pkgs, globalInputs, system, ... }:
+
+{
+  # Home Manager configuration for servers (minimal with development tools)
+  home.username = "johno";
+  home.homeDirectory = "/home/johno";
+  home.stateVersion = "24.05";
+
+  # Minimal roles for server with development capability
+  home.roles = {
+    base.enable = true;
+    development.enable = true;
+    tmux.enable = true;
+  };
+
+  targets.genericLinux.enable = true;
+  home.sessionVariables = {};
+  home.sessionPath = [];
+
+  imports = [
+    ./roles
+    ./roles/base-linux
+  ];
+}

home/roles/development/default.nix

@@ -85,11 +85,20 @@ in
         fi
       done
 
+      # Copy local skills from this repo
+      for file in ${./skills}/*.md; do
+        if [ -f "$file" ]; then
+          filename=$(basename "$file" .md)
+          dest="$HOME/.claude/commands/''${filename}.md"
+          cp "$file" "$dest"
+        fi
+      done
+
       $DRY_RUN_CMD echo "Claude Code humanlayer commands and agents installed successfully${
         if cfg.allowArbitraryClaudeCodeModelSelection
         then " (model specifications preserved)"
         else " (model selection removed)"
-      }"
+      } + local skills"
     '';
 
     # Set up beads Claude Code integration (hooks for SessionStart/PreCompact)

home/roles/development/skills/parallel_beads.md

@@ -0,0 +1,198 @@
+---
+description: Orchestrate parallel bead processing with worktrees, PRs, and reviews
+---
+
+# Parallel Beads Workflow
+
+This skill orchestrates parallel bead processing using subagents. Each bead gets its own worktree, implementation, PR, and review.
+
+## Phase 1: Selection
+
+1. **Get ready beads**: Run `bd ready` to list all beads with no blockers
+2. **Present selection**: Use `AskUserQuestion` with `multiSelect: true` to let the user choose which beads to work on
+   - Include bead ID and title for each option
+   - Allow selection of multiple beads
+
+Example:
+```
+AskUserQuestion with:
+- question: "Which beads do you want to work on in parallel?"
+- multiSelect: true
+- options from bd ready output
+```
+
+## Phase 2: Parallel Implementation
+
+For each selected bead, launch a subagent using the Task tool. All subagents should be launched in parallel (single message with multiple Task tool calls).
+
+### Subagent Instructions Template
+
+Each implementation subagent should receive these instructions:
+
+```
+Work on bead [BEAD_ID]: [BEAD_TITLE]
+
+1. **Create worktree**:
+   - Branch name: `bead/[BEAD_ID]`
+   - Worktree path: `~/wt/[REPO_NAME]/[BEAD_ID]`
+   - Command: `git worktree add -b bead/[BEAD_ID] ~/wt/[REPO_NAME]/[BEAD_ID]`
+
+2. **Review the bead requirements**:
+   - Run `bd show [BEAD_ID]` to understand the acceptance criteria
+   - Note any external issue references (GitHub issues, Linear tickets, etc.)
+
+3. **Implement the changes**:
+   - Work in the worktree directory
+   - Complete all acceptance criteria listed in the bead
+   - Run any relevant tests or checks
+
+4. **Commit and push**:
+   - Stage all changes: `git add -A`
+   - Create a descriptive commit message
+   - Push the branch: `git push -u origin bead/[BEAD_ID]`
+
+5. **Create a PR**:
+   - Detect hosting provider from origin URL: `git remote get-url origin`
+   - If URL contains `github.com`, use `gh`; otherwise use `tea` (Gitea/Forgejo)
+   - PR title: "[BEAD_ID] [BEAD_TITLE]"
+   - PR body must include:
+     - Reference to bead ID: "Implements bead: [BEAD_ID]"
+     - Any external issue references from the bead (e.g., "Closes #123")
+     - Summary of changes
+   - For GitHub (`gh`):
+     ```bash
+     gh pr create --title "[BEAD_ID] [BEAD_TITLE]" --body "$(cat <<'EOF'
+     ## Summary
+     [Brief description of changes]
+
+     ## Bead Reference
+     Implements bead: [BEAD_ID]
+
+     ## External Issues
+     [Any linked issues from the bead]
+
+     ## Changes
+     - [List of changes made]
+     EOF
+     )"
+     ```
+   - For Gitea (`tea`):
+     ```bash
+     tea pr create --head bead/[BEAD_ID] --base main \
+       --title "[BEAD_ID] [BEAD_TITLE]" \
+       --description "## Summary
+     [Brief description of changes]
+
+     ## Bead Reference
+     Implements bead: [BEAD_ID]
+
+     ## External Issues
+     [Any linked issues from the bead]
+
+     ## Changes
+     - [List of changes made]"
+     ```
+
+6. **Report results**:
+   - Return: PR URL, bead ID, success/failure status
+   - If blocked or unable to complete, explain what's blocking progress
+```
+
+### Launching Subagents
+
+Use `subagent_type: "general-purpose"` for implementation subagents. Launch all selected beads' subagents in a single message for parallel execution:
+
+```
+<Task calls for each selected bead - all in one message>
+```
+
+Collect results from all subagents before proceeding.
+
+## Phase 3: Parallel Review
+
+After all implementation subagents complete, launch review subagents for each PR.
+
+### Review Subagent Instructions Template
+
+```
+Review PR for bead [BEAD_ID]
+
+1. **Detect hosting provider**: Run `git remote get-url origin` - if it contains `github.com` use `gh`, otherwise use `tea`
+
+2. **Read the PR**:
+   - For GitHub: `gh pr view [PR_NUMBER] --json title,body,additions,deletions,files`
+   - For Gitea: `tea pr view [PR_NUMBER]`
+   - View the diff: `git diff main...bead/[BEAD_ID]`
+
+3. **Review against acceptance criteria**:
+   - Run `bd show [BEAD_ID]` to get the acceptance criteria
+   - Verify each criterion is addressed
+
+4. **Leave review comments**:
+   - For GitHub: `gh pr review [PR_NUMBER] --comment --body "[COMMENTS]"`
+   - For Gitea: `tea pr review [PR_NUMBER] --comment "[COMMENTS]"`
+   - Include:
+     - Acceptance criteria checklist (which are met, which might be missing)
+     - Code quality observations
+     - Suggestions for improvement
+
+5. **Return summary**:
+   - Overall assessment (ready to merge / needs changes)
+   - Key findings
+```
+
+Launch all review subagents in parallel.
+
+## Phase 4: Cleanup and Summary
+
+After reviews complete:
+
+1. **Clean up worktrees**:
+   ```bash
+   git worktree remove ~/wt/[REPO_NAME]/[BEAD_ID] --force
+   ```
+   Do this for each bead's worktree.
+
+2. **Provide final summary**:
+   Present a table or list with:
+   - Bead ID
+   - PR URL
+   - Status (success / failed / blocked)
+   - Review summary
+   - Any failures or blockers encountered
+
+Example output:
+```
+## Parallel Beads Summary
+
+| Bead | PR | Status | Review |
+|------|-----|--------|--------|
+| beads-abc | #123 | Success | Approved |
+| beads-xyz | #124 | Success | Needs changes |
+| beads-123 | - | Failed | Blocked by missing dependency |
+
+### Failures/Blockers
+- beads-123: Could not complete because [reason]
+
+### Next Steps
+- Review PRs that need changes
+- Address blockers for failed beads
+```
+
+## Error Handling
+
+- **Subagent failures**: If a subagent fails or times out, note it in the summary but continue with other beads
+- **PR creation failures**: Report the error but continue with reviews of successful PRs
+- **Worktree conflicts**: If a worktree already exists, ask the user if they want to remove it or skip that bead
+
+## Resource Limits
+
+- Consider limiting concurrent subagents to 3-5 to avoid overwhelming system resources
+- If user selects more beads than the limit, process them in batches
+
+## Notes
+
+- This workflow integrates with the beads system (`bd` commands)
+- Worktrees are created in `~/wt/[REPO_NAME]/` by convention
+- Each bead gets its own isolated branch and worktree
+- PRs automatically reference the bead ID for traceability

machines/john-endesktop/MIGRATION_PLAN.md

@@ -170,6 +170,7 @@ This document outlines the plan to migrate the john-endesktop server from Arch L
    ```bash
    blkid /dev/nvme0n1p5
    # Note the UUID for updating hardware-configuration.nix
+/dev/nvme0n1p5: LABEL="nixos" UUID="5f4ad025-bfab-4aed-a933-6638348059e5" UUID_SUB="4734d820-7b8a-4b7f-853a-026021c1d204" BLOCK_SIZE="4096" TYPE="btrfs" PARTLABEL="data" PARTUUID="9ea025df-cdb7-48fd-b5d4-37cd5d8588eb"
    ```
 
 8. **Copy your NixOS configuration to the server**
@@ -388,11 +389,11 @@ After successful migration and 24-48 hours of stable operation:
 
 Pre-migration:
 - [x] nvme0n1p5 removal from media pool complete
-- [ ] Recent backup verified (< 24 hours)
-- [ ] Maintenance window scheduled
-- [ ] NixOS ISO downloaded
-- [ ] Bootable USB created
-- [ ] NixOS config builds successfully
+- [x] Recent backup verified (< 24 hours)
+- [x] Maintenance window scheduled
+- [x] NixOS ISO downloaded
+- [x] Bootable USB created
+- [x] NixOS config builds successfully
 
 During migration:
 - [ ] ZFS pools exported

machines/john-endesktop/hardware-configuration.nix

@@ -18,12 +18,29 @@
   # File systems - these will need to be updated after installation
   # The nvme0n1p5 partition will be formatted as btrfs for NixOS root
   fileSystems."/" = {
-    # Update this device path after installation
-    device = "/dev/disk/by-uuid/CHANGE-THIS-TO-YOUR-UUID";
+    device = "/dev/disk/by-uuid/5f4ad025-bfab-4aed-a933-6638348059e5";
     fsType = "btrfs";
     options = [ "subvol=@" "compress=zstd" "noatime" ];
   };
 
+  fileSystems."/home" = {
+    device = "/dev/disk/by-uuid/5f4ad025-bfab-4aed-a933-6638348059e5";
+    fsType = "btrfs";
+    options = [ "subvol=@home" "compress=zstd" "noatime" ];
+  };
+
+  fileSystems."/nix" = {
+    device = "/dev/disk/by-uuid/5f4ad025-bfab-4aed-a933-6638348059e5";
+    fsType = "btrfs";
+    options = [ "subvol=@nix" "compress=zstd" "noatime" ];
+  };
+
+  fileSystems."/var/log" = {
+    device = "/dev/disk/by-uuid/5f4ad025-bfab-4aed-a933-6638348059e5";
+    fsType = "btrfs";
+    options = [ "subvol=@log" "compress=zstd" "noatime" ];
+  };
+
   fileSystems."/boot" = {
     # This should match your current EFI partition
     device = "/dev/disk/by-uuid/F5C6-D570";
@@ -35,10 +52,8 @@
   # The pools should be imported automatically via boot.zfs.extraPools
   # /media and /swarmvols will be mounted by ZFS
 
-  # Swap - using ZFS zvol
-  swapDevices = [
-    { device = "/dev/zvol/media/swap"; }
-  ];
+  # No swap needed - 23GB RAM is sufficient for this NFS/ZFS server
+  swapDevices = [ ];
 
   # CPU microcode
   hardware.cpu.intel.updateMicrocode = lib.mkDefault config.hardware.enableRedistributableFirmware;