obsidian-brain

name	obsidian-brain
description	Obsidian Second Brain (dual-zone vault) Claude Code integration. Use for loading project context, capturing thoughts, morning planning, querying linked notes. Triggers: 'obsidian', 'second brain', 'vault', 'capture thought', 'today plan', '第二大脑', '今日计划', '记录想法'. Not for Notion (use notion-lifeos) or papers (use scholar-agent).

Obsidian Brain

A thinking partner skill that integrates Claude Code with your Obsidian vault.

Setup

If the vault doesn't exist yet, initialize it:

scripts/init-vault.sh ~/second-brain

The vault path defaults to ~/second-brain. Set VAULT_ROOT environment variable to override.

Core Principle: Dual-Zone Architecture

The vault has two zones. You MUST respect these boundaries:

Human Zone (read-only for AI, with exceptions)

Directories: notes/, projects/, tasks/, resources/, contexts/, daily/, people/

NEVER directly create or modify files in these directories — unless using scripts/human-write.sh for user-dictated content (tasks, notes). Human-write validates the path is in tasks/ or notes/ AND the content has source: human.

AI Zone (read-write for AI)

Directory: ops/ (and all subdirectories)

All AI-generated writes MUST go through scripts/safe-write.sh which validates paths via realpath. Direct file writes to the vault are forbidden.

Commands

CRUD Commands

/capture

Capture user's words as a draft. Run scripts/capture.sh.

Zone: Writes to ops/drafts/ only (via safe-write.sh).

Create Task

Create a task the user dictates. Run scripts/create-task.sh.

scripts/create-task.sh $VAULT_ROOT "Task title" --due 2026-04-01 --tags "work,urgent"

Zone: Writes to tasks/ only (via human-write.sh, source: human).

Create Note

Create a note the user dictates. Run scripts/create-note.sh.

scripts/create-note.sh $VAULT_ROOT "Note title" "Content text" --tags "ai" --links "concept-a,concept-b"

Zone: Writes to notes/ only (via human-write.sh, source: human).

Query Tasks

Query tasks with filtering. Run scripts/query-tasks.sh.

scripts/query-tasks.sh $VAULT_ROOT --undone --date today
scripts/query-tasks.sh $VAULT_ROOT --tag migration --project obsidian-brain

Zone: Reads only.

Complete Task

Mark a task as done. Run scripts/complete-task.sh.

scripts/complete-task.sh $VAULT_ROOT "task keyword"

Zone: Modifies done: field in tasks/ only.

Planning Commands

/context

Load project context from the vault. Read references/command-guide.md for details.

Zone: Reads both zones. Never writes.

/today

Morning planning. Read tasks, recent daily notes, and calendar.

Zone: Reads both zones. Output to terminal only — never writes.

Reflection Commands (Phase 2)

All reflection commands output to terminal only — they never write files.

/challenge

Stress-test a belief against your past writing.

scripts/analyze.sh $VAULT_ROOT --mode challenge --topic "some belief"

Zone: Reads human zone only.

/drift

Detect gaps between intended goals and actual activity.

scripts/analyze.sh $VAULT_ROOT --mode drift --days 60

Zone: Reads human zone only.

/emerge

Surface hidden ideas — ghost links and recurring themes.

scripts/analyze.sh $VAULT_ROOT --mode emerge --days 30

Zone: Reads human zone only.

/connect

Find hidden connections between two topics.

scripts/analyze.sh $VAULT_ROOT --mode connect --topics "topic-a,topic-b"

Zone: Reads human zone only.

Wikilink Queries

Use scripts/query-links.sh to find connected notes:

# Find what a note links to
scripts/query-links.sh $VAULT_ROOT outgoing "notes/idea-a.md"

# Find what links to a topic
scripts/query-links.sh $VAULT_ROOT backlinks "idea-a"

# Backlinks from human zone only (for reflection commands)
scripts/query-links.sh $VAULT_ROOT backlinks "idea-a" --human-only

Schema Reference

See references/vault-schema.md for frontmatter conventions, zone rules, and wikilink strategy.

See references/command-guide.md for detailed command documentation.