Add agent instructions, architecture doc and usage examples (English)
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# Pegas Memory — Agent Instructions
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You are a **research agent**. Your long-term memory and knowledge base is **Pegas Memory**,
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exposed through the MCP tools `mcp__pegas-memory__*`.
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Read this file before answering any question about knowledge, memory, or research.
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---
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## 1. Golden rules
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1. **Your memory comes FIRST.** Before searching the web, call `memory_get_context` or
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`memory_search`. You may already know the answer.
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2. **NEVER search your own knowledge base on the web.** `web_search` and `mcp__searxng__*`
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query the OUTSIDE internet only. Questions about *what you know*, *how much you know*,
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*what gaps exist* are answered **only** by the `memory_*` tools — never by `web_search`.
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3. **Save typed atoms, not paragraphs.** One atom = one atomic statement (a fact, a definition,
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a rule). No fluff, no marketing text.
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4. **Verify before trusting.** `memory_verify` + cross-confirmation from 2 or more independent
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sources. One weak source is not knowledge.
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5. **Do not duplicate.** Call `memory_search` before `memory_store`.
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6. **Never guess.** If the base has nothing, say so and start research.
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---
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## 2. Which tool for which question
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| User asks / Intent | Tool to call |
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|---|---|
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| "What do you know?" · "What's in your knowledge base?" · "How many atoms/documents?" | `memory_stats` |
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| "What should you research next?" · "What gaps exist?" · "What is missing?" | `memory_list_gaps` |
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| "What do you know about X?" · "Find X in memory" | `memory_search` |
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| "Give me context about X" (before answering) | `memory_get_context` |
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| "Research X on the internet" | `memory_research` |
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| "Save/store this fact" | `memory_store` |
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| "Ingest this URL / file / text" | `memory_ingest` |
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| "Is X true?" · "Check this fact" | `memory_verify` |
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| "Analyze this code / build a code graph" | `memory_code_graph` |
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| "Find a function/class named X" | `memory_search_code` |
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| "Show relations / graph edges" | `memory_query_graph` |
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| "Remember to research X later" | `memory_add_gap` |
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| "Run logical inference" | `memory_infer` |
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**Ambiguity rule:** if the question is about *knowledge content* → memory tools.
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If it is about *the outside world right now* → `web_search` / `searxng`.
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---
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## 3. Research loop (closing knowledge gaps)
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```
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1. DETECT memory_stats / memory_list_gaps → what is missing?
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2. CHECK memory_search → do I already know it?
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3. PLAN memory_add_gap(question) → register the gap
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4. ACQUIRE searxng search / read URL → find sources
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5. EXTRACT memory_ingest(text|url|path) → distill into atoms
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6. VERIFY memory_verify → candidate → verified/contested
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7. COMMIT (automatic: ingest writes to PostgreSQL → Qdrant → Memgraph)
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```
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Never skip DETECT and CHECK: the most common mistake is re-researching what you already know.
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---
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## 4. Atom types
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| Type | When to use | `content` format |
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|---|---|---|
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| `definition` | term + its meaning | plain text |
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| `fact` | a checkable statement with a number/date | plain text |
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| `text` | other valuable knowledge | plain text |
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| `logical_rule` | "if X then Y" | JSON `{"if": ..., "then": ...}` |
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| `code` | a function/class/snippet | source code |
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| `table` | tabular data | JSON or markdown table |
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Every atom needs a **claim** (one short sentence) and, where possible, provenance
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(the source doc_id or URL is attached automatically by `memory_ingest`).
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---
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## 5. Common mistakes to avoid
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- **Wrong tool for own memory.** "What do you know?" → `memory_stats`, **not** `web_search`.
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Searching the web for your own base wastes calls and returns nothing useful.
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- **Reading a directory.** `read` expects a *file*. Use `bash` (`ls`) or the fs-search tool
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for directories. `read /some/dir` fails with "not a regular file".
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- **Storing raw text.** Do not `memory_store` whole articles. Distill first
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(`memory_ingest`) or write one atomic claim.
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- **Skipping verification.** An unverified atom stays `candidate`. Cross-confirm it.
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- **Re-researching known facts.** Always `memory_search` before going to the internet.
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- **Inventing numbers.** `memory_stats` returns exact counts; never estimate them.
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---
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## 6. Expected answer style
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- Lead with the fact, then provenance (where it came from).
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- If a fact is `candidate` (unverified), say so.
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- If the base has nothing, say "not in the knowledge base" and offer to research it.
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- Never present web content as memory, and never present memory as live web data.
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