@archetypeai/ds-cli 0.5.7 → 0.5.9

package/files/skills/embedding-upload/SKILL.md

@@ -1,427 +0,0 @@
----
-name: embedding-upload
-description: Run an Embedding Lens by uploading a CSV file for server-side processing. Use when you want to upload a file and get embeddings without local streaming.
-argument-hint: [csv-file-path]
----
-
-# Embedding Lens — Upload File (Server-Side Processing)
-
-Generate a script that uploads a CSV file to the Archetype AI platform and extracts embeddings server-side. The server reads the file directly — no local streaming loop required. Supports both Python and JavaScript/Web.
-
-## Frontend Architecture
-
-Decompose the UI into components. See `@rules/frontend-architecture` for conventions.
-
-### Recommended decomposition
-
-| UI Area | Component | Pattern/Primitives | Key Props |
-|---------|-----------|-------------------|-----------|
-| File upload | `DataInput.svelte` | BackgroundCard, Button, Input | `onselect`, `status` |
-| Scatter plot | Reuse ScatterChart pattern | BackgroundCard, Chart | `data[]`, `categories` |
-| Progress | `StreamProgress.svelte` | BackgroundCard, Progress | `current`, `total` |
-
-- Use `@skills/create-dashboard` for the page layout
-- Extract upload and session logic into `$lib/api/embeddings.js`
-
----
-
-## Python Implementation
-
-### Requirements
-
-- `archetypeai` Python package
-- Environment variables: `ATAI_API_KEY`, optionally `ATAI_API_ENDPOINT`
-
-### Architecture
-
-Uses `create_and_run_lens` with YAML config. After the session is created, upload the data CSV and configure a `csv_file_reader` input stream for server-side reading.
-
-#### 1. API Client Setup
-
-```python
-from archetypeai.api_client import ArchetypeAI
-import os
-
-api_key = os.getenv("ATAI_API_KEY")
-api_endpoint = os.getenv("ATAI_API_ENDPOINT", ArchetypeAI.get_default_endpoint())
-client = ArchetypeAI(api_key, api_endpoint=api_endpoint)
-```
-
-#### 2. Lens YAML Configuration
-
-```yaml
-lens_name: Embedding Lens
-lens_config:
-  model_pipeline:
-    - processor_name: lens_timeseries_embedding_processor
-      processor_config: {}
-  model_parameters:
-    model_name: OmegaEncoder
-    model_version: OmegaEncoder::omega_embeddings_01
-    normalize_input: true
-    buffer_size: {window_size}
-    csv_configs:
-      timestamp_column: timestamp
-      data_columns: ['a1', 'a2', 'a3', 'a4']
-      window_size: {window_size}
-      step_size: {step_size}
-  output_streams:
-    - stream_type: server_sent_events_writer
-```
-
-#### 3. Event Builders
-
-```python
-def build_input_event(file_id, window_size, step_size):
-    return {
-        "type": "input_stream.set",
-        "event_data": {
-            "stream_type": "csv_file_reader",
-            "stream_config": {
-                "file_id": file_id,
-                "window_size": window_size,
-                "step_size": step_size,
-                "loop_recording": False,
-                "output_format": ""
-            }
-        }
-    }
-
-def build_output_event():
-    return {
-        "type": "output_stream.set",
-        "event_data": {
-            "stream_type": "server_side_events_writer",
-            "stream_config": {}
-        }
-    }
-```
-
-#### 4. Session Callback
-
-```python
-def session_callback(session_id, session_endpoint, client, args):
-    print(f"Session created: {session_id}")
-
-    # Upload the data CSV
-    data_resp = client.files.local.upload(args["data_file_path"])
-    data_file_id = data_resp["file_id"]
-
-    # Tell server to read the uploaded CSV
-    client.lens.sessions.process_event(
-        session_id,
-        build_input_event(data_file_id, args["window_size"], args["step_size"])
-    )
-    client.lens.sessions.process_event(
-        session_id,
-        build_output_event()
-    )
-
-    # Collect embeddings via SSE
-    sse_reader = client.lens.sessions.create_sse_consumer(
-        session_id, max_read_time_sec=args["max_run_time_sec"]
-    )
-
-    embeddings = []
-    try:
-        for event in sse_reader.read(block=True):
-            if stop_flag:
-                break
-            if isinstance(event, dict) and event.get("type") == "inference.result":
-                ed = event.get("event_data", {})
-                embedding = ed.get("response")
-                meta = ed.get("query_metadata", {})
-
-                # Flatten 4×768 → 3072D
-                if isinstance(embedding, list) and len(embedding) > 0:
-                    if isinstance(embedding[0], list):
-                        flat = [val for row in embedding for val in row]
-                    else:
-                        flat = embedding
-
-                embeddings.append({
-                    "window_index": len(embeddings),
-                    "query_timestamp": meta.get("query_timestamp", "N/A"),
-                    "read_index": meta.get("query_metadata", {}).get("read_index", "N/A"),
-                    "embedding": flat,
-                })
-                print(f"[{len(embeddings)}] Embedding: {len(flat)}D")
-    finally:
-        sse_reader.close()
-        print(f"Collected {len(embeddings)} embeddings. Stopped.")
-```
-
-#### 5. Create and Run Lens
-
-```python
-client.lens.create_and_run_lens(
-    yaml_config, session_callback,
-    client=client, args=args
-)
-```
-
-### CLI Arguments
-
-```
---api-key              API key (fallback to ATAI_API_KEY env var)
---api-endpoint         API endpoint (default from SDK)
---data-file            Path to CSV file to analyze (required)
---window-size          Window size in samples (default: 100)
---step-size            Step size in samples (default: 100)
---max-run-time-sec     Max runtime (default: 600)
---output-file          Path to save embeddings CSV (optional)
-```
-
----
-
-## Web / JavaScript Implementation
-
-Uses direct `fetch` calls to the Archetype AI REST API. The simplest embedding approach on web — just upload and collect results.
-
-### API Reference
-
-| Operation | Method | Endpoint | Body |
-|-----------|--------|----------|------|
-| Upload file | POST | `/files` | `FormData` |
-| Register lens | POST | `/lens/register` | `{ lens_config: config }` |
-| Create session | POST | `/lens/sessions/create` | `{ lens_id }` |
-| Process event | POST | `/lens/sessions/events/process` | `{ session_id, event }` |
-| Delete lens | POST | `/lens/delete` | `{ lens_id }` |
-| Destroy session | POST | `/lens/sessions/destroy` | `{ session_id }` |
-| SSE consumer | GET | `/lens/sessions/consumer/{sessionId}` | — |
-
-### Helper: API fetch wrapper
-
-```typescript
-const API_ENDPOINT = 'https://api.u1.archetypeai.app/v0.5'
-
-async function apiPost<T>(path: string, apiKey: string, body: unknown, timeoutMs = 5000): Promise<T> {
-  const controller = new AbortController()
-  const timeoutId = setTimeout(() => controller.abort(), timeoutMs)
-
-  try {
-    const response = await fetch(`${API_ENDPOINT}${path}`, {
-      method: 'POST',
-      headers: {
-        Authorization: `Bearer ${apiKey}`,
-        'Content-Type': 'application/json',
-      },
-      body: JSON.stringify(body),
-      signal: controller.signal,
-    })
-
-    if (!response.ok) {
-      const errorBody = await response.json().catch(() => ({}))
-      throw new Error(`API POST ${path} failed: ${response.status} - ${JSON.stringify(errorBody)}`)
-    }
-
-    return response.json()
-  } finally {
-    clearTimeout(timeoutId)
-  }
-}
-```
-
-### Step 1: Upload the data CSV
-
-```typescript
-const dataFormData = new FormData()
-dataFormData.append('file', dataFile) // File from <input type="file">
-
-const dataResponse = await fetch(`${API_ENDPOINT}/files`, {
-  method: 'POST',
-  headers: { Authorization: `Bearer ${apiKey}` },
-  body: dataFormData,
-})
-const dataUpload = await dataResponse.json()
-const dataFileId = dataUpload.file_id
-```
-
-### Step 2: Register embedding lens and create session
-
-```typescript
-const windowSize = 100
-const stepSize = 100
-
-const lensConfig = {
-  lens_name: 'embedding_lens',
-  lens_config: {
-    model_pipeline: [
-      { processor_name: 'lens_timeseries_embedding_processor', processor_config: {} },
-    ],
-    model_parameters: {
-      model_name: 'OmegaEncoder',
-      model_version: 'OmegaEncoder::omega_embeddings_01',
-      normalize_input: true,
-      buffer_size: windowSize,
-      csv_configs: {
-        timestamp_column: 'timestamp',
-        data_columns: ['a1', 'a2', 'a3', 'a4'],
-        window_size: windowSize,
-        step_size: stepSize,
-      },
-    },
-    output_streams: [
-      { stream_type: 'server_sent_events_writer' },
-    ],
-  },
-}
-
-const registeredLens = await apiPost<{ lens_id: string }>(
-  '/lens/register', apiKey, { lens_config: lensConfig }
-)
-const lensId = registeredLens.lens_id
-
-const session = await apiPost<{ session_id: string }>(
-  '/lens/sessions/create', apiKey, { lens_id: lensId }
-)
-const sessionId = session.session_id
-
-await apiPost('/lens/delete', apiKey, { lens_id: lensId })
-
-// Wait for session ready (same waitForSessionReady pattern)
-async function waitForSessionReady(sessionId: string, maxWaitMs = 30000): Promise<boolean> {
-  const start = Date.now()
-  while (Date.now() - start < maxWaitMs) {
-    const status = await apiPost<{ session_status: string }>(
-      '/lens/sessions/events/process', apiKey,
-      { session_id: sessionId, event: { type: 'session.status' } },
-      10000
-    )
-    if (status.session_status === 'LensSessionStatus.SESSION_STATUS_RUNNING' ||
-        status.session_status === '3') return true
-    if (status.session_status === 'LensSessionStatus.SESSION_STATUS_FAILED' ||
-        status.session_status === '6') return false
-    await new Promise(r => setTimeout(r, 500))
-  }
-  return false
-}
-
-await waitForSessionReady(sessionId)
-```
-
-### Step 3: Tell server to read the uploaded CSV
-
-```typescript
-// Set input stream to CSV file reader
-await apiPost('/lens/sessions/events/process', apiKey, {
-  session_id: sessionId,
-  event: {
-    type: 'input_stream.set',
-    event_data: {
-      stream_type: 'csv_file_reader',
-      stream_config: {
-        file_id: dataFileId,
-        window_size: windowSize,
-        step_size: stepSize,
-        loop_recording: false,
-        output_format: '',
-      },
-    },
-  },
-}, 10000)
-
-// Enable SSE output
-await apiPost('/lens/sessions/events/process', apiKey, {
-  session_id: sessionId,
-  event: {
-    type: 'output_stream.set',
-    event_data: {
-      stream_type: 'server_side_events_writer',
-      stream_config: {},
-    },
-  },
-}, 10000)
-```
-
-### Step 4: Consume SSE embedding results
-
-```typescript
-import { fetchEventSource } from '@microsoft/fetch-event-source'
-
-interface EmbeddingResult {
-  windowIndex: number
-  queryTimestamp: string
-  readIndex: number | string
-  embedding: number[]  // 3072D flattened
-}
-
-const embeddings: EmbeddingResult[] = []
-const abortController = new AbortController()
-
-fetchEventSource(`${API_ENDPOINT}/lens/sessions/consumer/${sessionId}`, {
-  headers: { Authorization: `Bearer ${apiKey}` },
-  signal: abortController.signal,
-  onmessage(event) {
-    const parsed = JSON.parse(event.data)
-
-    if (parsed.type === 'inference.result') {
-      const response = parsed.event_data.response
-      const meta = parsed.event_data.query_metadata
-      const queryMeta = meta?.query_metadata ?? {}
-
-      const flat = Array.isArray(response[0]) ? response.flat() : response
-
-      embeddings.push({
-        windowIndex: embeddings.length,
-        queryTimestamp: meta?.query_timestamp ?? 'N/A',
-        readIndex: queryMeta.read_index ?? 'N/A',
-        embedding: flat,
-      })
-      console.log(`[${embeddings.length}] Embedding: ${flat.length}D`)
-    }
-
-    if (parsed.type === 'sse.stream.end') {
-      console.log(`Complete. ${embeddings.length} embeddings collected.`)
-      abortController.abort()
-    }
-  },
-})
-```
-
-### Step 5: Cleanup
-
-```typescript
-abortController.abort()
-await apiPost('/lens/sessions/destroy', apiKey, { session_id: sessionId })
-```
-
-### Web Lifecycle Summary
-
-```
-1. Upload data CSV       ->  POST /files  (FormData)
-2. Register lens         ->  POST /lens/register  { lens_config: config }
-3. Create session        ->  POST /lens/sessions/create  { lens_id }
-4. Wait for ready        ->  POST /lens/sessions/events/process  (poll)
-5. Set input stream      ->  POST /lens/sessions/events/process  { session_id, event: input_stream.set }
-6. Set output stream     ->  POST /lens/sessions/events/process  { session_id, event: output_stream.set }
-7. Consume SSE results   ->  GET /lens/sessions/consumer/{sessionId}
-8. Destroy session       ->  POST /lens/sessions/destroy  { session_id }
-```
-
----
-
-## Embedding Response Structure
-
-The `inference.result` response contains:
-- `response`: nested list `(4, 768)` — one 768D embedding per input channel
-- Flatten to `3072D` by concatenating: `[a1_768D, a2_768D, a3_768D, a4_768D]`
-- `query_metadata.query_timestamp`: timestamp
-- `query_metadata.query_metadata.read_index`: window position in file
-- `query_metadata.query_metadata.file_id`: the file being analyzed
-
-## Key Differences from Streaming Approaches
-
-| | Upload (this skill) | Stream from File | Stream from Sensor |
-|---|---|---|---|
-| Data reading | Server-side `csv_file_reader` | Local pandas/JS + windowed push | Local sensor + buffered push |
-| Local processing | None (just upload) | Window slicing | Sensor acquisition + buffering |
-| Best for | Batch embedding extraction | Controlled local streaming | Real-time from hardware |
-
-## Key Implementation Notes
-
-- Default `window_size` and `step_size`: **100**
-- No n-shot files or KNN config — this is pure embedding extraction
-- Embeddings are `(4, 768)` per window — flatten to `3072D` for downstream use
-- Use UMAP/t-SNE for 2D/3D visualization
-- Combine with machine state lens results for labeled embedding plots