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.

flake.lock

@@ -21,45 +21,6 @@
         "type": "github"
       }
     },
-    "doomemacs": {
-      "flake": false,
-      "locked": {
-        "lastModified": 1767773143,
-        "narHash": "sha256-QL/t9v2kFNxBDyNJb/s411o3mxujan+QX5IZglTdpTk=",
-        "owner": "doomemacs",
-        "repo": "doomemacs",
-        "rev": "3e15fb36d7f94f0a218bda977be4d3f5da983a71",
-        "type": "github"
-      },
-      "original": {
-        "owner": "doomemacs",
-        "repo": "doomemacs",
-        "type": "github"
-      }
-    },
-    "emacs-overlay": {
-      "inputs": {
-        "nixpkgs": [
-          "nix-doom-emacs-unstraightened"
-        ],
-        "nixpkgs-stable": [
-          "nix-doom-emacs-unstraightened"
-        ]
-      },
-      "locked": {
-        "lastModified": 1768011937,
-        "narHash": "sha256-SnU2XTo34vwVaijs+4VwcXTNwMWO4nwzzs08N39UagA=",
-        "owner": "nix-community",
-        "repo": "emacs-overlay",
-        "rev": "79abf71d9897cf3b5189f7175cda1b1102abc65c",
-        "type": "github"
-      },
-      "original": {
-        "owner": "nix-community",
-        "repo": "emacs-overlay",
-        "type": "github"
-      }
-    },
     "flake-compat": {
       "flake": false,
       "locked": {
@@ -198,27 +159,6 @@
         "type": "github"
       }
     },
-    "nix-doom-emacs-unstraightened": {
-      "inputs": {
-        "doomemacs": "doomemacs",
-        "emacs-overlay": "emacs-overlay",
-        "nixpkgs": [],
-        "systems": "systems_2"
-      },
-      "locked": {
-        "lastModified": 1768034604,
-        "narHash": "sha256-62pIZMvGHhYJmMiiBsxHqZt/dFyENPcFHlJq5NJF3Sw=",
-        "owner": "marienz",
-        "repo": "nix-doom-emacs-unstraightened",
-        "rev": "9b3b8044fe4ccdcbb2d6f733d7dbe4d5feea18bc",
-        "type": "github"
-      },
-      "original": {
-        "owner": "marienz",
-        "repo": "nix-doom-emacs-unstraightened",
-        "type": "github"
-      }
-    },
     "nix-github-actions": {
       "inputs": {
         "nixpkgs": [
@@ -363,7 +303,6 @@
         "home-manager-unstable": "home-manager-unstable",
         "jovian": "jovian",
         "nix-darwin": "nix-darwin",
-        "nix-doom-emacs-unstraightened": "nix-doom-emacs-unstraightened",
         "nixos-wsl": "nixos-wsl",
         "nixpkgs": "nixpkgs_2",
         "nixpkgs-unstable": "nixpkgs-unstable",
@@ -385,21 +324,6 @@
         "repo": "default",
         "type": "github"
       }
-    },
-    "systems_2": {
-      "locked": {
-        "lastModified": 1681028828,
-        "narHash": "sha256-Vy1rq5AaRuLzOxct8nz4T6wlgyUR7zLU309k9mBC768=",
-        "owner": "nix-systems",
-        "repo": "default",
-        "rev": "da67096a3b9bf56a91d16901293e51ba5b49a27e",
-        "type": "github"
-      },
-      "original": {
-        "owner": "nix-systems",
-        "repo": "default",
-        "type": "github"
-      }
     }
   },
   "root": "root",

flake.nix

@@ -47,12 +47,6 @@
       url = "github:steveyegge/beads";
       inputs.nixpkgs.follows = "nixpkgs-unstable";
     };
-
-    nix-doom-emacs-unstraightened = {
-      url = "github:marienz/nix-doom-emacs-unstraightened";
-      # Don't follow nixpkgs to avoid rebuild issues with emacs-overlay
-      inputs.nixpkgs.follows = "";
-    };
   };
 
   outputs = { self, nixpkgs, nixpkgs-unstable, nixos-wsl, ... } @ inputs: let
@@ -76,7 +70,6 @@
         home-manager.useUserPackages = true;
         home-manager.sharedModules = [
           inputs.plasma-manager.homeModules.plasma-manager
-          inputs.nix-doom-emacs-unstraightened.homeModule
         ];
         home-manager.extraSpecialArgs = {
           globalInputs = inputs;
@@ -105,7 +98,6 @@
         home-manager.useUserPackages = true;
         home-manager.sharedModules = [
           inputs.plasma-manager-unstable.homeModules.plasma-manager
-          inputs.nix-doom-emacs-unstraightened.homeModule
         ];
         home-manager.extraSpecialArgs = {
           globalInputs = inputs;
@@ -137,9 +129,6 @@
         ];
         home-manager.useGlobalPkgs = true;
         home-manager.useUserPackages = true;
-        home-manager.sharedModules = [
-          inputs.nix-doom-emacs-unstraightened.homeModule
-        ];
         home-manager.extraSpecialArgs = {
           globalInputs = inputs;
         };

home/home-live-usb.nix

@@ -14,12 +14,7 @@
     desktop.enable = true;
     tmux.enable = true;
     plasma-manager.enable = true;
-    emacs = {
+    emacs.enable = true;
-      enable = true;
-      # Use pre-built Doom Emacs - all packages built at nix build time
-      # This means no doom sync is needed after booting the live USB
-      prebuiltDoom = true;
-    };
     i3_sway.enable = true;
     # development.enable = false;  # Not needed for live USB
     # communication.enable = false; # Not needed for live USB

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

home/roles/emacs/default.nix

@@ -23,30 +23,13 @@ let
     if pkgs.stdenv.isDarwin
     then pkgs.emacs-macport.pkgs.withPackages emacsPackages
     else pkgs.emacs.pkgs.withPackages emacsPackages;
-
-  # Path to doom config directory (relative to this file)
-  doomConfigDir = ./doom;
 in
 {
   options.home.roles.emacs = {
     enable = mkEnableOption "Doom Emacs with vterm and tree-sitter support";
-
-    prebuiltDoom = mkOption {
-      type = types.bool;
-      default = false;
-      description = ''
-        Use nix-doom-emacs-unstraightened to pre-build all Doom packages at
-        nix build time. This eliminates the need to run `doom sync` after
-        first boot, making it ideal for live USB images or immutable systems.
-
-        When enabled, the doom configuration is read-only (stored in nix store).
-      '';
-    };
   };
 
-  config = mkIf cfg.enable (mkMerge [
+  config = mkIf cfg.enable {
-    # Common configuration for both modes
-    {
     home.packages = [
       pkgs.emacs-all-the-icons-fonts
       pkgs.fira-code
@@ -63,16 +46,13 @@ in
       pkgs.python3
     ];
 
-      fonts.fontconfig.enable = true;
-    }
-
-    # Standard Doom Emacs mode (requires doom sync at runtime)
-    (mkIf (!cfg.prebuiltDoom) {
     programs.emacs = {
       enable = true;
       package = defaultEmacsPackage;
     };
 
+    fonts.fontconfig.enable = true;
+
     # Mount emacs and tree-sitter grammars from nix store
     home.file = {
       "${config.xdg.configHome}/emacs".source = doomEmacs;
@@ -93,20 +73,5 @@ in
       rm -rf "${config.xdg.configHome}/doom"
       ln -sf "${config.home.homeDirectory}/nixos-configs/home/roles/emacs/doom" "${config.xdg.configHome}/doom"
     '';
-    })
-
-    # Pre-built Doom Emacs mode (no doom sync needed - ideal for live USB)
-    (mkIf cfg.prebuiltDoom {
-      programs.doom-emacs = {
-        enable = true;
-        doomDir = doomConfigDir;
-        doomLocalDir = "${config.xdg.dataHome}/doom";
-        # Add extra packages that aren't part of Doom but needed for our config
-        extraPackages = epkgs: [
-          epkgs.vterm
-          epkgs.treesit-grammars.with-all-grammars
-        ];
   };
-    })
-  ]);
 }

home/roles/emacs/doom/packages.el

@@ -51,21 +51,11 @@
 
 ;; (package! org-caldav)
 
-;; Note: Packages with custom recipes must be pinned for nix-doom-emacs-unstraightened
-;; to build deterministically. Update pins when upgrading packages.
-
 (package! gptel :recipe (:nonrecursive t))
 
 (package! claude-code-ide
-  :recipe (:host github :repo "manzaltu/claude-code-ide.el")
+  :recipe (:host github :repo "manzaltu/claude-code-ide.el"))
-  :pin "760240d7f03ff16f90ede9d4f4243cd94f3fed73")
 
 (package! gptel-tool-library
   :recipe (:host github :repo "aard-fi/gptel-tool-library"
-           :files ("*.el"))
+           :files ("*.el")))
-  :pin "baffc3b0d74a2b7cbda0d5cd6dd7726d6ccaca83")
-
-(package! beads
-  :recipe (:type git :repo "https://codeberg.org/ctietze/beads.el.git"
-           :files ("lisp/*.el"))
-  :pin "f40a6461d3c0fa0969311bbb6a1e30d1bba86c88")

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)
+- [x] Recent backup verified (< 24 hours)
-- [ ] Maintenance window scheduled
+- [x] Maintenance window scheduled
-- [ ] NixOS ISO downloaded
+- [x] NixOS ISO downloaded
-- [ ] Bootable USB created
+- [x] Bootable USB created
-- [ ] NixOS config builds successfully
+- [x] NixOS config builds successfully
 
 During migration:
 - [ ] ZFS pools exported