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agnes-the-ai-analyst/cli/skills/troubleshoot.md
ZdenekSrotyr 1563b05f2e refactor(cli): hard-cutover env vars + config dir to AGNES_* 
Task 0.5 of clean-analyst-bootstrap. Greenfield rewrite — no fallback,
no aliases. Existing dev environments lose their cached PAT and must
re-authenticate.

Env var renames (hard cutover):
- DA_CONFIG_DIR    -> AGNES_CONFIG_DIR
- DA_SERVER        -> AGNES_SERVER
- DA_SERVER_URL    -> AGNES_SERVER_URL  (test-only stale ref, not in spec)
- DA_NO_UPDATE_CHECK -> AGNES_NO_UPDATE_CHECK
- DA_LOCAL_DIR     -> AGNES_LOCAL_DIR
- DA_TOKEN         -> AGNES_TOKEN
- DA_STREAM_RETRIES -> AGNES_STREAM_RETRIES

Config dir rename: ~/.config/da/ -> ~/.config/agnes/ (across code,
comments, docstrings, error messages, install templates, dev scripts).

Stale `da X` references in CLI source (and adjacent app/, tests/):
swept docstrings, comments, help text, and error messages where the
verb survives the rewrite (init, pull, push, catalog, status, diagnose,
auth, admin, skills, query, schema, describe, explore, disk-info,
snapshot, login, logout, whoami, server, setup) and replaced `da X`
with `agnes X`. Intentionally kept `da sync`, `da fetch`, `da analyst`,
`da metrics` — those verbs are removed in later tasks; the legacy
strings will be detected by `_LEGACY_STRINGS` (added in Task 2).

Test fixes:
- TestCLIVersion now asserts output starts with `agnes ` (was `da `).

Test results: 2675 passed, 25 skipped (full pytest run, excluding 9
pre-existing test_db.py / test_user_management.py / test_e2e_extract.py
/ test_cli_binary_rename.py failures unrelated to this rename).
2026-05-04 16:35:44 +02:00

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Troubleshoot — Diagnostic procedures

Quick Check

agnes diagnose --json

Common Issues

Data not updating

  1. agnes diagnose --component data — check data freshness
  2. agnes server logs scheduler --since 1h — check scheduler logs
  3. Verify data source credentials: agnes admin test-connection

Cannot login

  1. Check server is running: curl http://server:8000/api/health
  2. Check user exists: agnes admin list-users (from admin account)
  3. Re-generate token: agnes login --email your@email.com

DuckDB errors locally

  1. Re-sync: da sync (rebuilds views)
  2. Check disk space: du -sh user/duckdb/
  3. Delete and re-create: rm user/duckdb/analytics.duckdb && da sync

Server unresponsive

  1. docker compose ps — check container status
  2. docker compose logs app --tail 50 — check app logs
  3. docker compose restart app — restart app

Escalation

If automated diagnostics don't help:

  1. Collect full diagnostic: agnes diagnose --json > /tmp/diag.json
  2. Collect server logs: docker compose logs > /tmp/logs.txt
  3. Share both files with admin