Zotero Obsidian Literature Skill

Codex skill for managing a Zotero-to-Obsidian literature workflow.

It helps generate Zotero child-note AI reading notes, audit missing generated notes, maintain Obsidian literature notes, and build Dataview dashboards without committing private API keys.

What It Does

• Generates AI literature notes as Zotero child notes.
• Uses Obsidian templates and prompt files from the target vault.
• Supports one item, selected item keys, or approved whole-library batches.
• Audits Zotero items that are missing generated AI notes.
• Keeps real Zotero and DeepSeek/AwesomeGPT credentials in a local ignored config file.
• Provides Obsidian integration guidance for Dataview and Markdown maintenance.

Repository Layout

.
|-- SKILL.md
|-- agents/
|   `-- openai.yaml
|-- config/
|   `-- config.template.json
|-- references/
|   |-- obsidian-integration.md
|   |-- obsidian-literature-maintenance.md
|   |-- upgrade-plan.md
|   `-- upstream-obsidian-skills.md
`-- scripts/
    |-- audit_zotero_ai_notes.py
    |-- generate_zotero_ai_note.py
    `-- init_private_config.py

Requirements

• Zotero Desktop is open.
• Zotero Local API is enabled at http://127.0.0.1:23119.
• Python launcher py is available on Windows.
• The default Obsidian vault is C:\Users\qyh15\Documents\Obsidian Vault.
• The vault contains the expected templates under 00 Templater.
• A Zotero Web API key is available for note writes.
• DeepSeek or another OpenAI-compatible endpoint is configured through AwesomeGPT settings, environment variables, or the local private config.

Private Config

Do not commit real API keys.

The committed file is only a template:

config/config.template.json

Create the local ignored config with:

py "$env:USERPROFILE\.codex\skills\zotero-obsidian-literature\scripts\init_private_config.py"

This writes:

config/config.local.json

config/config.local.json is ignored by Git. Do not paste its contents into chat, logs, README files, or committed examples.

Common Commands

Generate a note for one Zotero item:

py "$env:USERPROFILE\.codex\skills\zotero-obsidian-literature\scripts\generate_zotero_ai_note.py" --vault "C:\Users\qyh15\Documents\Obsidian Vault" --item-key SXAIQUJT --skip-existing

Generate notes for selected items:

py "$env:USERPROFILE\.codex\skills\zotero-obsidian-literature\scripts\generate_zotero_ai_note.py" --vault "C:\Users\qyh15\Documents\Obsidian Vault" --item-keys "SXAIQUJT X7GJZ627 ZCZXGRAM" --limit 0 --skip-existing --fulltext-chars 4000

Audit missing generated notes:

py "$env:USERPROFILE\.codex\skills\zotero-obsidian-literature\scripts\audit_zotero_ai_notes.py" --vault "C:\Users\qyh15\Documents\Obsidian Vault" --keys-only

Rebuild the audit cache:

py "$env:USERPROFILE\.codex\skills\zotero-obsidian-literature\scripts\audit_zotero_ai_notes.py" --vault "C:\Users\qyh15\Documents\Obsidian Vault" --rebuild

Batch Safety

Whole-library generation writes many Zotero child notes. Use it only after explicitly confirming the target library and write scope.

For long runs, prefer batches of 20-30 items and keep --skip-existing enabled so interrupted runs can resume without duplicating notes.

Git

Current remote:

git@git.qyhhh.top:Skills/MYwirte-skill.git

Recommended push command in this environment:

& "$env:USERPROFILE\.codex\tools\mingit\cmd\git.exe" push