CR-2026-03-25: dots-quantum Host Overlay & Claude Code Configuration

Change Summary

Field Value

Change ID

CR-2026-03-25-dotfiles-claude-002

Requested By

Self

Execution Date

2026-03-25

Systems Affected

dots-quantum, ~/.claude/, domus-nvim/.claude/

Risk Level

Low (configuration changes only)

Rollback Time

< 5 minutes (git restore)

Change Window

Development session

Category

Normal (retroactive documentation)

Business Justification

Problem Statement

  1. Symlink breakage - nvim-domus symlink broken after renaming domus-instrumentum to domus-nvim

  2. Dotfiles migration - dots-quantum not ready to replace dotfiles-optimus

  3. Personal data exposure - dots-quantum public but contains personal paths/credentials

  4. Claude Code friction - Permission prompts slowing workflow

Solution

  1. Fix symlink to new path

  2. Implement host overlay pattern (hosts/razer/) for machine-specific configs

  3. Update generic configs to source local overrides

  4. Configure Claude Code auto-accept permissions

Changes Implemented

Phase 1: Symlink Repair

cd ~/.config
ln -sf ~/atelier/_projects/personal/domus-nvim nvim-domus

Verification:

ls -la ~/.config/nvim-domus
# Result: lrwxrwxrwx nvim-domus -> ~/atelier/_projects/personal/domus-nvim

Phase 2: dots-quantum Host Overlay Structure

Created hosts/razer/ directory for machine-specific configurations:

dots-quantum/
├── bash/
│   └── .bashrc              # Generic, sources .bashrc.local at END
├── git/
│   └── .gitconfig           # Generic, includes .gitconfig.local
├── zsh/
│   └── .zshrc               # Generic with added functions
└── hosts/
    └── razer/               # Machine-specific
        ├── .bashrc.local    # Personal paths, overrides
        └── .gitconfig.local # Credentials, signing key

Phase 3: dots-quantum File Modifications

bash/.bashrc

Change: Moved .bashrc.local sourcing from line 609 to line 736 (end of file)

Reason: Local overrides must come AFTER all variable definitions to allow overriding

# ╔═══════════════════════════════════════════════════════════════════════════════════╗
# ║ LOCAL OVERRIDES (HOST-SPECIFIC)                                                   ║
# ╚═══════════════════════════════════════════════════════════════════════════════════╝
# Sourced LAST so it can override any variable or function above
[[ -f ~/.bashrc.local ]] && source ~/.bashrc.local

git/.gitconfig

Change: Added [include] directive for local overrides

[include]
    path = ~/.gitconfig.local

[user]
    email = your.email@example.com
    name = Your Name

zsh/.zshrc

Change: Added missing functions and environment variable

# Days since a date (for carryover tracking)
days_since() {
    if [[ -z "$1" ]]; then
        echo "Usage: days_since YYYY-MM-DD"
        return 1
    fi
    echo $(( ($(date +%s) - $(date -d "$1" +%s)) / 86400 ))
}

# Days until a date (for deadline tracking)
days_until() {
    if [[ -z "$1" ]]; then
        echo "Usage: days_until YYYY-MM-DD"
        return 1
    fi
    echo $(( ($(date -d "$1" +%s) - $(date +%s)) / 86400 ))
}

# Claude Code settings
export CLAUDE_CODE_MAX_OUTPUT_TOKENS=64000

Phase 4: Host Overlay Files Created

hosts/razer/.bashrc.local

# HOST: razer - Personal overrides for EvanusModestus
# Sourced at END of .bashrc (after all variables defined)

export BORG_REPO="/run/media/evanusmodestus/MyDocsI/borg-repo"

PRINCIPIA_CAPTURES="$HOME/atelier/_bibliotheca/Principia/03_Captures"
PRINCIPIA_CONVERSATIONS="$HOME/atelier/_bibliotheca/Principia/02_Assets/TAB-CONVERSATIONS"
CAPTURES_DIR="$PRINCIPIA_CAPTURES"
CONVERSATIONS_DIR="$PRINCIPIA_CONVERSATIONS"

if [[ -f "$HOME/.config/shell/atelier.shell" ]]; then
    source "$HOME/.config/shell/atelier.shell"
fi

hosts/razer/.gitconfig.local

[user]
    email = evan.rosado@outlook.com
    name = EvanusModestus
    signingkey = 0x671893F987DA191C

[credential "https://github.com"]
    helper =
    helper = /home/evanusmodestus/.secrets/bin/git-credential-helper

[commit]
    gpgsign = true

[tag]
    gpgsign = true

[url "git@github.com:"]
    insteadOf = https://github.com/

Phase 5: Claude Code Settings

~/.claude/settings.json

{
  "$schema": "https://json.schemastore.org/claude-code-settings.json",
  "alwaysThinkingEnabled": true,
  "enabledPlugins": {
    "rust-analyzer-lsp@claude-plugins-official": true
  },
  "permissions": {
    "defaultMode": "acceptEdits",
    "allow": [
      "Bash(git:*)",
      "Bash(ls:*)",
      "Bash(tree:*)",
      "Bash(find:*)",
      "Bash(grep:*)",
      "Bash(cat:*)",
      "Bash(head:*)",
      "Bash(tail:*)",
      "Bash(wc:*)",
      "Bash(sort:*)",
      "Bash(awk:*)",
      "Bash(sed:*)",
      "Bash(diff:*)",
      "Bash(make:*)",
      "Bash(npm:*)",
      "Bash(npx:*)",
      "Bash(stow:*)",
      "Bash(uv:*)",
      "Bash(python:*)",
      "Bash(gh:*)",
      "Bash(basename:*)",
      "Bash(readlink:*)",
      "Bash(ln:*)",
      "Bash(echo:*)",
      "Bash(chmod:*)",
      "Bash(bash:*)",
      "Bash(xargs:*)",
      "Bash(rsync:*)",
      "WebSearch"
    ],
    "deny": [
      "Read(./.env)",
      "Read(./.env.*)",
      "Read(~/.secrets/*)",
      "Bash(age -d:*)",
      "Bash(gopass show:*)"
    ]
  },
  "showTurnDuration": true,
  "terminalProgressBarEnabled": true,
  "respectGitignore": true,
  "includeGitInstructions": true,
  "cleanupPeriodDays": 30
}

domus-nvim/.claude/settings.local.json

{
  "permissions": {
    "allow": [
      "Bash(git:*)",
      "Bash(ls:*)",
      "Bash(cat:*)",
      "Bash(tree:*)",
      "Bash(find:*)",
      "Bash(grep:*)",
      "Bash(awk:*)",
      "Bash(sed:*)",
      "Bash(make:*)",
      "Bash(nvim:*)",
      "Bash(stow:*)",
      "Bash(diff:*)",
      "Bash(sort:*)",
      "Bash(basename:*)",
      "Bash(readlink:*)",
      "Bash(ln:*)",
      "Bash(echo:*)",
      "Bash(chmod:*)",
      "Bash(bash:*)",
      "Bash(xargs:*)",
      "Bash(gh:*)",
      "Bash(rsync:*)",
      "Bash(npx:*)",
      "Bash(npm:*)",
      "Bash(uv:*)",
      "Bash(python:*)",
      "WebSearch"
    ]
  }
}

Errors Encountered & Fixed

Error Cause Fix

Bash(command*)

Missing colon in permission pattern

Changed to Bash(command:*) with colon

"delegate" mode invalid

Invalid permission mode value

Changed to "acceptEdits"

WebFetch(*)

Missing domain prefix

Removed (not needed in current config)

Symlink in wrong location

Created link from wrong directory

Used full path: ln -sf ~/atelier/…​/domus-nvim nvim-domus

Zsh parse errors with for loops

Zsh syntax differs from bash

Used bash -c '…​' wrapper

.bashrc.local not overriding

Sourced before variables defined

Moved sourcing to end of file (line 736)

Post-Change Validation

State Comparison

Metric Pre-Change Post-Change

nvim-domus symlink

Broken (domus-instrumentum)

Working (domus-nvim)

dots-quantum host overlays

None

hosts/razer/ with 2 files

.bashrc.local sourcing

Line 609 (too early)

Line 736 (end of file)

Claude Code permissions

Manual approval required

Auto-accept for safe commands

Claude Code settings errors

Settings file syntax errors

Valid JSON, working

Verification Commands

# Symlink
ls -la ~/.config/nvim-domus

# Host overlay files
ls -la ~/atelier/_projects/personal/dots-quantum/hosts/razer/

# Claude settings validation
jq . ~/.claude/settings.json > /dev/null && echo "Valid JSON"

# Alias test
which v  # Should show nvim function

Rollback Procedure

Symlink

cd ~/.config
rm nvim-domus
ln -sf ~/atelier/_projects/personal/domus-instrumentum nvim-domus

dots-quantum

cd ~/atelier/_projects/personal/dots-quantum
git restore bash/.bashrc git/.gitconfig zsh/.zshrc
rm -rf hosts/razer

Claude Code Settings

# Restore from backup or git
cd ~/.claude
git restore settings.json

cd ~/atelier/_projects/personal/domus-nvim
git restore .claude/settings.local.json

Pending Actions

Action Description Status

dots-quantum switch

Execute stow commands to switch from optimus

Pending (user will execute when ready)

Commit dots-quantum

Commit host overlay and config changes

Pending

dots-quantum privacy

Made private via GitHub API

Completed

Sign-Off

Role Name Date

Implementer

Claude (AI)

2026-03-25

Reviewer

Evan Rosado

2026-03-25

Approver

Evan Rosado

2026-03-25

Lessons Learned

What Went Well

  • Host overlay pattern provides clean separation

  • Claude Code permission syntax documented for future reference

  • Symlink repair was straightforward

What Could Be Improved

  • Verify permission syntax before applying (Bash(cmd:*) not Bash(cmd*))

  • Test .bashrc.local sourcing order earlier

  • Check valid values for settings before applying

Key Takeaways

  • Claude Code permission patterns use colon: Bash(command:*)

  • Valid permission modes: default, acceptEdits, plan, auto, dontAsk, bypassPermissions

  • .bashrc.local must be sourced at END of .bashrc to override variables

Related Documentation