KSvend Claude Happy commited on
Commit ·
c766f2c
1
Parent(s): 0ca7a83
docs: add Phase A implementation plan — openEO NDVI pipeline
Browse files9-task plan covering: openeo dependency, config module, openEO client,
test fixtures, raster map renderer, NDVI indicator, worker integration,
and end-to-end smoke test. All tasks are TDD with exact code and commands.
Generated with [Claude Code](https://claude.ai/code)
via [Happy](https://happy.engineering)
Co-Authored-By: Claude <noreply@anthropic.com>
Co-Authored-By: Happy <yesreply@happy.engineering>
docs/superpowers/plans/2026-03-31-phase-a-openeo-ndvi-pipeline.md
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|
| 1 |
+
# Phase A: openEO Client + NDVI Indicator + Raster Map Renderer — Implementation Plan
|
| 2 |
+
|
| 3 |
+
> **For agentic workers:** REQUIRED SUB-SKILL: Use superpowers:subagent-driven-development (recommended) or superpowers:executing-plans to implement this plan task-by-task. Steps use checkbox (`- [ ]`) syntax for tracking.
|
| 4 |
+
|
| 5 |
+
**Goal:** Prove the full CDSE openEO pipeline end-to-end — from processing graph submission through GeoTIFF download to raster-on-satellite-imagery map rendering in the PDF report — by implementing the NDVI vegetation indicator as the first openEO-powered indicator.
|
| 6 |
+
|
| 7 |
+
**Architecture:** A new `app/openeo_client.py` manages CDSE authentication and exposes graph-builder functions that return GeoTIFFs. A new `app/indicators/ndvi.py` replaces the old scene-metadata vegetation indicator with pixel-level NDVI composites. The map renderer (`app/outputs/maps.py`) gains a new `render_raster_map()` function that overlays indicator rasters on a true-color Sentinel-2 composite. Resolution is configurable via `app/config.py`.
|
| 8 |
+
|
| 9 |
+
**Tech Stack:** Python 3.11, openeo ≥0.28.0, rasterio, rioxarray, matplotlib, numpy
|
| 10 |
+
|
| 11 |
+
**Spec:** `docs/superpowers/specs/2026-03-31-openeo-eo-upgrade-design.md`
|
| 12 |
+
|
| 13 |
+
---
|
| 14 |
+
|
| 15 |
+
## File Map
|
| 16 |
+
|
| 17 |
+
| File | Action | Responsibility |
|
| 18 |
+
|------|--------|----------------|
|
| 19 |
+
| `app/config.py` | Create | Centralized configuration constants (resolution, AOI limits, openEO backend URL) |
|
| 20 |
+
| `app/openeo_client.py` | Create | openEO connection management, authentication, generic graph execution |
|
| 21 |
+
| `app/indicators/ndvi.py` | Create | NDVI vegetation indicator using openEO (replaces `vegetation.py`) |
|
| 22 |
+
| `app/indicators/__init__.py` | Modify | Register `NdviIndicator`, keep `VegetationIndicator` as fallback |
|
| 23 |
+
| `app/outputs/maps.py` | Modify | Add `render_raster_map()` for raster-on-true-color rendering |
|
| 24 |
+
| `app/worker.py` | Modify | Pass true-color composite path to map renderer |
|
| 25 |
+
| `Dockerfile` | Modify | Add `openeo` dependency, keep cartopy for now (Phase D removal) |
|
| 26 |
+
| `pyproject.toml` | Modify | Add `openeo>=0.28.0` to dependencies |
|
| 27 |
+
| `tests/test_config.py` | Create | Test configuration defaults and env overrides |
|
| 28 |
+
| `tests/test_openeo_client.py` | Create | Test openEO graph builders with mocked connection |
|
| 29 |
+
| `tests/test_indicator_ndvi.py` | Create | Test NDVI indicator processing with mocked openEO |
|
| 30 |
+
| `tests/test_raster_maps.py` | Create | Test raster map rendering with sample GeoTIFFs |
|
| 31 |
+
| `tests/fixtures/` | Create | Sample GeoTIFF files for unit tests |
|
| 32 |
+
|
| 33 |
+
---
|
| 34 |
+
|
| 35 |
+
### Task 1: Add `openeo` Dependency
|
| 36 |
+
|
| 37 |
+
**Files:**
|
| 38 |
+
- Modify: `pyproject.toml:6-26`
|
| 39 |
+
- Modify: `Dockerfile:25-35`
|
| 40 |
+
|
| 41 |
+
- [ ] **Step 1: Add openeo to pyproject.toml**
|
| 42 |
+
|
| 43 |
+
In `pyproject.toml`, add `"openeo>=0.28.0"` to the dependencies list. In the dependencies array, after the `"planetary-computer>=1.0.0"` line, add:
|
| 44 |
+
|
| 45 |
+
```toml
|
| 46 |
+
"openeo>=0.28.0",
|
| 47 |
+
```
|
| 48 |
+
|
| 49 |
+
- [ ] **Step 2: Add openeo to Dockerfile builder stage**
|
| 50 |
+
|
| 51 |
+
In `Dockerfile`, in the second `RUN pip install` block (line 25-35), add `"openeo>=0.28.0"` after `"planetary-computer>=1.0.0"`:
|
| 52 |
+
|
| 53 |
+
```dockerfile
|
| 54 |
+
RUN pip install --no-cache-dir --prefer-binary \
|
| 55 |
+
"fastapi>=0.110.0" \
|
| 56 |
+
"uvicorn[standard]>=0.27.0" \
|
| 57 |
+
"aiosqlite>=0.20.0" \
|
| 58 |
+
"pydantic>=2.6.0" \
|
| 59 |
+
"httpx>=0.27.0" \
|
| 60 |
+
"pystac-client>=0.7.0" \
|
| 61 |
+
"stackstac>=0.5.0" \
|
| 62 |
+
"reportlab>=4.1.0" \
|
| 63 |
+
"tqdm>=4.66.0" \
|
| 64 |
+
"planetary-computer>=1.0.0" \
|
| 65 |
+
"openeo>=0.28.0"
|
| 66 |
+
```
|
| 67 |
+
|
| 68 |
+
- [ ] **Step 3: Install openeo locally**
|
| 69 |
+
|
| 70 |
+
Run: `cd /Users/kmini/Github/Aperture && pip install "openeo>=0.28.0"`
|
| 71 |
+
|
| 72 |
+
Expected: Installs successfully. The `openeo` package is pure Python with minimal native deps.
|
| 73 |
+
|
| 74 |
+
- [ ] **Step 4: Verify import**
|
| 75 |
+
|
| 76 |
+
Run: `cd /Users/kmini/Github/Aperture && python -c "import openeo; print(openeo.__version__)"`
|
| 77 |
+
|
| 78 |
+
Expected: Prints version number (0.28.x or higher).
|
| 79 |
+
|
| 80 |
+
- [ ] **Step 5: Commit**
|
| 81 |
+
|
| 82 |
+
```bash
|
| 83 |
+
git add pyproject.toml Dockerfile
|
| 84 |
+
git commit -m "build: add openeo dependency for CDSE processing"
|
| 85 |
+
```
|
| 86 |
+
|
| 87 |
+
---
|
| 88 |
+
|
| 89 |
+
### Task 2: Create Configuration Module
|
| 90 |
+
|
| 91 |
+
**Files:**
|
| 92 |
+
- Create: `app/config.py`
|
| 93 |
+
- Create: `tests/test_config.py`
|
| 94 |
+
|
| 95 |
+
- [ ] **Step 1: Write tests for config**
|
| 96 |
+
|
| 97 |
+
Create `tests/test_config.py`:
|
| 98 |
+
|
| 99 |
+
```python
|
| 100 |
+
"""Tests for app.config — centralized configuration."""
|
| 101 |
+
import os
|
| 102 |
+
import pytest
|
| 103 |
+
|
| 104 |
+
|
| 105 |
+
def test_default_resolution():
|
| 106 |
+
"""Default resolution is 100m (free-tier HF Space)."""
|
| 107 |
+
from app.config import RESOLUTION_M
|
| 108 |
+
assert RESOLUTION_M == 100
|
| 109 |
+
|
| 110 |
+
|
| 111 |
+
def test_default_max_aoi():
|
| 112 |
+
"""Default max AOI is 500 km²."""
|
| 113 |
+
from app.config import MAX_AOI_KM2
|
| 114 |
+
assert MAX_AOI_KM2 == 500
|
| 115 |
+
|
| 116 |
+
|
| 117 |
+
def test_default_openeo_backend():
|
| 118 |
+
"""Default openEO backend is CDSE."""
|
| 119 |
+
from app.config import OPENEO_BACKEND
|
| 120 |
+
assert OPENEO_BACKEND == "openeo.dataspace.copernicus.eu"
|
| 121 |
+
|
| 122 |
+
|
| 123 |
+
def test_resolution_env_override(monkeypatch):
|
| 124 |
+
"""APERTURE_RESOLUTION_M env var overrides the default."""
|
| 125 |
+
monkeypatch.setenv("APERTURE_RESOLUTION_M", "20")
|
| 126 |
+
# Force reimport to pick up env var
|
| 127 |
+
import importlib
|
| 128 |
+
import app.config
|
| 129 |
+
importlib.reload(app.config)
|
| 130 |
+
assert app.config.RESOLUTION_M == 20
|
| 131 |
+
# Reset
|
| 132 |
+
monkeypatch.delenv("APERTURE_RESOLUTION_M", raising=False)
|
| 133 |
+
importlib.reload(app.config)
|
| 134 |
+
```
|
| 135 |
+
|
| 136 |
+
- [ ] **Step 2: Run tests to verify they fail**
|
| 137 |
+
|
| 138 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/test_config.py -v`
|
| 139 |
+
|
| 140 |
+
Expected: FAIL — `ModuleNotFoundError: No module named 'app.config'`
|
| 141 |
+
|
| 142 |
+
- [ ] **Step 3: Create config module**
|
| 143 |
+
|
| 144 |
+
Create `app/config.py`:
|
| 145 |
+
|
| 146 |
+
```python
|
| 147 |
+
"""Centralized configuration for Aperture."""
|
| 148 |
+
from __future__ import annotations
|
| 149 |
+
|
| 150 |
+
import os
|
| 151 |
+
|
| 152 |
+
# Spatial resolution in meters for openEO processing.
|
| 153 |
+
# 100m for free-tier HF Space (2GB RAM). Set to 10 or 20 for upgraded hardware.
|
| 154 |
+
RESOLUTION_M: int = int(os.environ.get("APERTURE_RESOLUTION_M", "100"))
|
| 155 |
+
|
| 156 |
+
# Maximum AOI size in km². Soft limit to prevent excessive processing.
|
| 157 |
+
MAX_AOI_KM2: int = int(os.environ.get("APERTURE_MAX_AOI_KM2", "500"))
|
| 158 |
+
|
| 159 |
+
# openEO backend URL.
|
| 160 |
+
OPENEO_BACKEND: str = os.environ.get(
|
| 161 |
+
"OPENEO_BACKEND", "openeo.dataspace.copernicus.eu"
|
| 162 |
+
)
|
| 163 |
+
|
| 164 |
+
# CDSE OAuth2 credentials (set as secrets in HF Spaces).
|
| 165 |
+
OPENEO_CLIENT_ID: str | None = os.environ.get("OPENEO_CLIENT_ID")
|
| 166 |
+
OPENEO_CLIENT_SECRET: str | None = os.environ.get("OPENEO_CLIENT_SECRET")
|
| 167 |
+
```
|
| 168 |
+
|
| 169 |
+
- [ ] **Step 4: Run tests to verify they pass**
|
| 170 |
+
|
| 171 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/test_config.py -v`
|
| 172 |
+
|
| 173 |
+
Expected: All PASS.
|
| 174 |
+
|
| 175 |
+
- [ ] **Step 5: Commit**
|
| 176 |
+
|
| 177 |
+
```bash
|
| 178 |
+
git add app/config.py tests/test_config.py
|
| 179 |
+
git commit -m "feat: add centralized config module with resolution and openEO settings"
|
| 180 |
+
```
|
| 181 |
+
|
| 182 |
+
---
|
| 183 |
+
|
| 184 |
+
### Task 3: Create openEO Client Module
|
| 185 |
+
|
| 186 |
+
**Files:**
|
| 187 |
+
- Create: `app/openeo_client.py`
|
| 188 |
+
- Create: `tests/test_openeo_client.py`
|
| 189 |
+
|
| 190 |
+
- [ ] **Step 1: Write test for connection factory**
|
| 191 |
+
|
| 192 |
+
Create `tests/test_openeo_client.py`:
|
| 193 |
+
|
| 194 |
+
```python
|
| 195 |
+
"""Tests for app.openeo_client — openEO connection and graph builders."""
|
| 196 |
+
from __future__ import annotations
|
| 197 |
+
|
| 198 |
+
from unittest.mock import MagicMock, patch
|
| 199 |
+
import pytest
|
| 200 |
+
|
| 201 |
+
|
| 202 |
+
def test_get_connection_creates_authenticated_connection():
|
| 203 |
+
"""get_connection() connects to CDSE and authenticates."""
|
| 204 |
+
mock_conn = MagicMock()
|
| 205 |
+
with patch("openeo.connect", return_value=mock_conn) as mock_connect:
|
| 206 |
+
from app.openeo_client import get_connection
|
| 207 |
+
conn = get_connection()
|
| 208 |
+
|
| 209 |
+
mock_connect.assert_called_once_with("openeo.dataspace.copernicus.eu")
|
| 210 |
+
mock_conn.authenticate_oidc.assert_called_once()
|
| 211 |
+
assert conn is mock_conn
|
| 212 |
+
|
| 213 |
+
|
| 214 |
+
def test_get_connection_reuses_cached():
|
| 215 |
+
"""Subsequent calls return the same connection object."""
|
| 216 |
+
mock_conn = MagicMock()
|
| 217 |
+
with patch("openeo.connect", return_value=mock_conn):
|
| 218 |
+
from app.openeo_client import get_connection, _reset_connection
|
| 219 |
+
_reset_connection() # Clear any cached connection
|
| 220 |
+
conn1 = get_connection()
|
| 221 |
+
conn2 = get_connection()
|
| 222 |
+
assert conn1 is conn2
|
| 223 |
+
_reset_connection()
|
| 224 |
+
```
|
| 225 |
+
|
| 226 |
+
- [ ] **Step 2: Write test for NDVI graph builder**
|
| 227 |
+
|
| 228 |
+
Append to `tests/test_openeo_client.py`:
|
| 229 |
+
|
| 230 |
+
```python
|
| 231 |
+
def test_build_ndvi_graph():
|
| 232 |
+
"""build_ndvi_graph() returns a datacube with NDVI computation."""
|
| 233 |
+
mock_conn = MagicMock()
|
| 234 |
+
mock_cube = MagicMock()
|
| 235 |
+
mock_conn.load_collection.return_value = mock_cube
|
| 236 |
+
|
| 237 |
+
# Mock the band operations
|
| 238 |
+
mock_b08 = MagicMock()
|
| 239 |
+
mock_b04 = MagicMock()
|
| 240 |
+
mock_cube.band.side_effect = lambda b: mock_b08 if b == "B08" else mock_b04
|
| 241 |
+
mock_ndvi = MagicMock()
|
| 242 |
+
mock_b08.__sub__ = MagicMock(return_value=MagicMock())
|
| 243 |
+
mock_b08.__add__ = MagicMock(return_value=MagicMock())
|
| 244 |
+
(mock_b08 - mock_b04).__truediv__ = MagicMock(return_value=mock_ndvi)
|
| 245 |
+
|
| 246 |
+
from app.openeo_client import build_ndvi_graph
|
| 247 |
+
|
| 248 |
+
bbox = {"west": 32.45, "south": 15.65, "east": 32.65, "north": 15.8}
|
| 249 |
+
result = build_ndvi_graph(
|
| 250 |
+
conn=mock_conn,
|
| 251 |
+
bbox=bbox,
|
| 252 |
+
temporal_extent=["2025-03-01", "2026-03-01"],
|
| 253 |
+
resolution_m=100,
|
| 254 |
+
)
|
| 255 |
+
|
| 256 |
+
mock_conn.load_collection.assert_called_once()
|
| 257 |
+
call_kwargs = mock_conn.load_collection.call_args
|
| 258 |
+
assert call_kwargs[1]["collection_id"] == "SENTINEL2_L2A"
|
| 259 |
+
assert call_kwargs[1]["spatial_extent"] == bbox
|
| 260 |
+
assert "B04" in call_kwargs[1]["bands"]
|
| 261 |
+
assert "B08" in call_kwargs[1]["bands"]
|
| 262 |
+
assert "SCL" in call_kwargs[1]["bands"]
|
| 263 |
+
|
| 264 |
+
|
| 265 |
+
def test_build_true_color_graph():
|
| 266 |
+
"""build_true_color_graph() returns a datacube with RGB bands."""
|
| 267 |
+
mock_conn = MagicMock()
|
| 268 |
+
mock_cube = MagicMock()
|
| 269 |
+
mock_conn.load_collection.return_value = mock_cube
|
| 270 |
+
|
| 271 |
+
from app.openeo_client import build_true_color_graph
|
| 272 |
+
|
| 273 |
+
bbox = {"west": 32.45, "south": 15.65, "east": 32.65, "north": 15.8}
|
| 274 |
+
result = build_true_color_graph(
|
| 275 |
+
conn=mock_conn,
|
| 276 |
+
bbox=bbox,
|
| 277 |
+
temporal_extent=["2025-03-01", "2026-03-01"],
|
| 278 |
+
resolution_m=100,
|
| 279 |
+
)
|
| 280 |
+
|
| 281 |
+
mock_conn.load_collection.assert_called_once()
|
| 282 |
+
call_kwargs = mock_conn.load_collection.call_args
|
| 283 |
+
bands = call_kwargs[1]["bands"]
|
| 284 |
+
assert "B04" in bands
|
| 285 |
+
assert "B03" in bands
|
| 286 |
+
assert "B02" in bands
|
| 287 |
+
```
|
| 288 |
+
|
| 289 |
+
- [ ] **Step 3: Run tests to verify they fail**
|
| 290 |
+
|
| 291 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/test_openeo_client.py -v`
|
| 292 |
+
|
| 293 |
+
Expected: FAIL — `ModuleNotFoundError: No module named 'app.openeo_client'`
|
| 294 |
+
|
| 295 |
+
- [ ] **Step 4: Implement openeo_client module**
|
| 296 |
+
|
| 297 |
+
Create `app/openeo_client.py`:
|
| 298 |
+
|
| 299 |
+
```python
|
| 300 |
+
"""openEO connection management and processing graph builders.
|
| 301 |
+
|
| 302 |
+
All heavy raster processing happens server-side on CDSE. This module
|
| 303 |
+
defines the processing graphs and handles authentication. The returned
|
| 304 |
+
datacubes are downloaded as GeoTIFFs by indicator code.
|
| 305 |
+
"""
|
| 306 |
+
from __future__ import annotations
|
| 307 |
+
|
| 308 |
+
import logging
|
| 309 |
+
from typing import Any
|
| 310 |
+
|
| 311 |
+
import openeo
|
| 312 |
+
|
| 313 |
+
from app.config import OPENEO_BACKEND, OPENEO_CLIENT_ID, OPENEO_CLIENT_SECRET
|
| 314 |
+
|
| 315 |
+
logger = logging.getLogger(__name__)
|
| 316 |
+
|
| 317 |
+
_connection: openeo.Connection | None = None
|
| 318 |
+
|
| 319 |
+
|
| 320 |
+
def get_connection() -> openeo.Connection:
|
| 321 |
+
"""Get or create an authenticated openEO connection to CDSE.
|
| 322 |
+
|
| 323 |
+
The connection is cached for reuse across indicator calls within a job.
|
| 324 |
+
"""
|
| 325 |
+
global _connection
|
| 326 |
+
if _connection is not None:
|
| 327 |
+
return _connection
|
| 328 |
+
|
| 329 |
+
logger.info("Connecting to openEO backend: %s", OPENEO_BACKEND)
|
| 330 |
+
conn = openeo.connect(OPENEO_BACKEND)
|
| 331 |
+
|
| 332 |
+
if OPENEO_CLIENT_ID and OPENEO_CLIENT_SECRET:
|
| 333 |
+
conn.authenticate_oidc(
|
| 334 |
+
client_id=OPENEO_CLIENT_ID,
|
| 335 |
+
client_secret=OPENEO_CLIENT_SECRET,
|
| 336 |
+
)
|
| 337 |
+
else:
|
| 338 |
+
conn.authenticate_oidc()
|
| 339 |
+
|
| 340 |
+
_connection = conn
|
| 341 |
+
return conn
|
| 342 |
+
|
| 343 |
+
|
| 344 |
+
def _reset_connection() -> None:
|
| 345 |
+
"""Reset the cached connection (for testing)."""
|
| 346 |
+
global _connection
|
| 347 |
+
_connection = None
|
| 348 |
+
|
| 349 |
+
|
| 350 |
+
def _bbox_dict(bbox: list[float]) -> dict[str, float]:
|
| 351 |
+
"""Convert [min_lon, min_lat, max_lon, max_lat] to openEO spatial_extent."""
|
| 352 |
+
return {
|
| 353 |
+
"west": bbox[0],
|
| 354 |
+
"south": bbox[1],
|
| 355 |
+
"east": bbox[2],
|
| 356 |
+
"north": bbox[3],
|
| 357 |
+
}
|
| 358 |
+
|
| 359 |
+
|
| 360 |
+
def build_ndvi_graph(
|
| 361 |
+
*,
|
| 362 |
+
conn: openeo.Connection,
|
| 363 |
+
bbox: dict[str, float],
|
| 364 |
+
temporal_extent: list[str],
|
| 365 |
+
resolution_m: int = 100,
|
| 366 |
+
) -> openeo.DataCube:
|
| 367 |
+
"""Build an openEO process graph for monthly median NDVI composites.
|
| 368 |
+
|
| 369 |
+
Loads Sentinel-2 L2A, masks clouds using the SCL band, computes
|
| 370 |
+
NDVI = (B08 - B04) / (B08 + B04), and aggregates to monthly medians.
|
| 371 |
+
|
| 372 |
+
Returns an openEO DataCube (not yet executed).
|
| 373 |
+
"""
|
| 374 |
+
cube = conn.load_collection(
|
| 375 |
+
collection_id="SENTINEL2_L2A",
|
| 376 |
+
spatial_extent=bbox,
|
| 377 |
+
temporal_extent=temporal_extent,
|
| 378 |
+
bands=["B04", "B08", "SCL"],
|
| 379 |
+
)
|
| 380 |
+
|
| 381 |
+
# Cloud mask: keep only vegetation, bare soil, water (SCL classes 4,5,6)
|
| 382 |
+
scl = cube.band("SCL")
|
| 383 |
+
cloud_mask = (scl == 4) | (scl == 5) | (scl == 6)
|
| 384 |
+
cube = cube.mask(~cloud_mask)
|
| 385 |
+
|
| 386 |
+
# NDVI
|
| 387 |
+
b08 = cube.band("B08")
|
| 388 |
+
b04 = cube.band("B04")
|
| 389 |
+
ndvi = (b08 - b04) / (b08 + b04)
|
| 390 |
+
|
| 391 |
+
# Monthly median composite
|
| 392 |
+
monthly = ndvi.aggregate_temporal_period("month", reducer="median")
|
| 393 |
+
|
| 394 |
+
# Resample to target resolution
|
| 395 |
+
if resolution_m > 10:
|
| 396 |
+
monthly = monthly.resample_spatial(resolution=resolution_m / 111320)
|
| 397 |
+
|
| 398 |
+
return monthly
|
| 399 |
+
|
| 400 |
+
|
| 401 |
+
def build_true_color_graph(
|
| 402 |
+
*,
|
| 403 |
+
conn: openeo.Connection,
|
| 404 |
+
bbox: dict[str, float],
|
| 405 |
+
temporal_extent: list[str],
|
| 406 |
+
resolution_m: int = 100,
|
| 407 |
+
) -> openeo.DataCube:
|
| 408 |
+
"""Build an openEO process graph for a true-color Sentinel-2 composite.
|
| 409 |
+
|
| 410 |
+
Loads B04 (Red), B03 (Green), B02 (Blue), masks clouds,
|
| 411 |
+
and creates a median composite over the temporal extent.
|
| 412 |
+
|
| 413 |
+
Returns an openEO DataCube (not yet executed).
|
| 414 |
+
"""
|
| 415 |
+
cube = conn.load_collection(
|
| 416 |
+
collection_id="SENTINEL2_L2A",
|
| 417 |
+
spatial_extent=bbox,
|
| 418 |
+
temporal_extent=temporal_extent,
|
| 419 |
+
bands=["B02", "B03", "B04", "SCL"],
|
| 420 |
+
)
|
| 421 |
+
|
| 422 |
+
# Cloud mask
|
| 423 |
+
scl = cube.band("SCL")
|
| 424 |
+
cloud_mask = (scl == 4) | (scl == 5) | (scl == 6)
|
| 425 |
+
cube = cube.mask(~cloud_mask)
|
| 426 |
+
|
| 427 |
+
# Drop SCL, keep RGB
|
| 428 |
+
rgb = cube.filter_bands(["B02", "B03", "B04"])
|
| 429 |
+
|
| 430 |
+
# Temporal median composite
|
| 431 |
+
composite = rgb.reduce_dimension(dimension="t", reducer="median")
|
| 432 |
+
|
| 433 |
+
# Resample
|
| 434 |
+
if resolution_m > 10:
|
| 435 |
+
composite = composite.resample_spatial(resolution=resolution_m / 111320)
|
| 436 |
+
|
| 437 |
+
return composite
|
| 438 |
+
```
|
| 439 |
+
|
| 440 |
+
- [ ] **Step 5: Run tests**
|
| 441 |
+
|
| 442 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/test_openeo_client.py -v`
|
| 443 |
+
|
| 444 |
+
Expected: All PASS.
|
| 445 |
+
|
| 446 |
+
- [ ] **Step 6: Commit**
|
| 447 |
+
|
| 448 |
+
```bash
|
| 449 |
+
git add app/openeo_client.py tests/test_openeo_client.py
|
| 450 |
+
git commit -m "feat: add openEO client with NDVI and true-color graph builders"
|
| 451 |
+
```
|
| 452 |
+
|
| 453 |
+
---
|
| 454 |
+
|
| 455 |
+
### Task 4: Create Test GeoTIFF Fixtures
|
| 456 |
+
|
| 457 |
+
**Files:**
|
| 458 |
+
- Create: `tests/fixtures/create_fixtures.py` (generator script)
|
| 459 |
+
- Create: `tests/fixtures/ndvi_monthly.tif` (generated)
|
| 460 |
+
- Create: `tests/fixtures/true_color.tif` (generated)
|
| 461 |
+
- Create: `tests/conftest.py` (modify — add fixture paths)
|
| 462 |
+
|
| 463 |
+
- [ ] **Step 1: Create fixtures directory**
|
| 464 |
+
|
| 465 |
+
Run: `mkdir -p /Users/kmini/Github/Aperture/tests/fixtures`
|
| 466 |
+
|
| 467 |
+
- [ ] **Step 2: Create fixture generator script**
|
| 468 |
+
|
| 469 |
+
Create `tests/fixtures/create_fixtures.py`:
|
| 470 |
+
|
| 471 |
+
```python
|
| 472 |
+
"""Generate small synthetic GeoTIFFs for unit tests.
|
| 473 |
+
|
| 474 |
+
Run this script once to create the test fixtures:
|
| 475 |
+
python tests/fixtures/create_fixtures.py
|
| 476 |
+
"""
|
| 477 |
+
from __future__ import annotations
|
| 478 |
+
|
| 479 |
+
import os
|
| 480 |
+
import numpy as np
|
| 481 |
+
import rasterio
|
| 482 |
+
from rasterio.transform import from_bounds
|
| 483 |
+
|
| 484 |
+
FIXTURES_DIR = os.path.dirname(__file__)
|
| 485 |
+
|
| 486 |
+
# AOI: small region near Khartoum (~20x15 pixels at 100m = 2km x 1.5km)
|
| 487 |
+
WEST, SOUTH, EAST, NORTH = 32.45, 15.65, 32.65, 15.8
|
| 488 |
+
WIDTH, HEIGHT = 22, 17 # ~100m pixels
|
| 489 |
+
|
| 490 |
+
|
| 491 |
+
def _transform():
|
| 492 |
+
return from_bounds(WEST, SOUTH, EAST, NORTH, WIDTH, HEIGHT)
|
| 493 |
+
|
| 494 |
+
|
| 495 |
+
def create_ndvi_monthly():
|
| 496 |
+
"""12-band GeoTIFF: monthly median NDVI (Jan-Dec), float32, range -0.2 to 0.9."""
|
| 497 |
+
rng = np.random.default_rng(42)
|
| 498 |
+
path = os.path.join(FIXTURES_DIR, "ndvi_monthly.tif")
|
| 499 |
+
data = np.zeros((12, HEIGHT, WIDTH), dtype=np.float32)
|
| 500 |
+
for month in range(12):
|
| 501 |
+
# Seasonal NDVI pattern: peak in rainy season (Jul-Sep)
|
| 502 |
+
base = 0.25 + 0.35 * np.sin(np.pi * (month - 3) / 6)
|
| 503 |
+
data[month] = base + rng.normal(0, 0.05, (HEIGHT, WIDTH))
|
| 504 |
+
data = np.clip(data, -0.2, 0.9)
|
| 505 |
+
|
| 506 |
+
with rasterio.open(
|
| 507 |
+
path, "w", driver="GTiff",
|
| 508 |
+
height=HEIGHT, width=WIDTH, count=12,
|
| 509 |
+
dtype="float32", crs="EPSG:4326",
|
| 510 |
+
transform=_transform(), nodata=-9999.0,
|
| 511 |
+
) as dst:
|
| 512 |
+
for i in range(12):
|
| 513 |
+
dst.write(data[i], i + 1)
|
| 514 |
+
print(f"Created {path} ({os.path.getsize(path)} bytes)")
|
| 515 |
+
|
| 516 |
+
|
| 517 |
+
def create_true_color():
|
| 518 |
+
"""3-band GeoTIFF: RGB (B04, B03, B02) reflectance, uint16, range 0-10000."""
|
| 519 |
+
rng = np.random.default_rng(43)
|
| 520 |
+
path = os.path.join(FIXTURES_DIR, "true_color.tif")
|
| 521 |
+
data = np.zeros((3, HEIGHT, WIDTH), dtype=np.uint16)
|
| 522 |
+
# Semi-arid landscape: brownish-green
|
| 523 |
+
data[0] = rng.integers(800, 1500, (HEIGHT, WIDTH)) # Red
|
| 524 |
+
data[1] = rng.integers(700, 1300, (HEIGHT, WIDTH)) # Green
|
| 525 |
+
data[2] = rng.integers(500, 1000, (HEIGHT, WIDTH)) # Blue
|
| 526 |
+
|
| 527 |
+
with rasterio.open(
|
| 528 |
+
path, "w", driver="GTiff",
|
| 529 |
+
height=HEIGHT, width=WIDTH, count=3,
|
| 530 |
+
dtype="uint16", crs="EPSG:4326",
|
| 531 |
+
transform=_transform(), nodata=0,
|
| 532 |
+
) as dst:
|
| 533 |
+
for i in range(3):
|
| 534 |
+
dst.write(data[i], i + 1)
|
| 535 |
+
print(f"Created {path} ({os.path.getsize(path)} bytes)")
|
| 536 |
+
|
| 537 |
+
|
| 538 |
+
if __name__ == "__main__":
|
| 539 |
+
create_ndvi_monthly()
|
| 540 |
+
create_true_color()
|
| 541 |
+
print("Done.")
|
| 542 |
+
```
|
| 543 |
+
|
| 544 |
+
- [ ] **Step 3: Generate the fixtures**
|
| 545 |
+
|
| 546 |
+
Run: `cd /Users/kmini/Github/Aperture && python tests/fixtures/create_fixtures.py`
|
| 547 |
+
|
| 548 |
+
Expected: Two files created in `tests/fixtures/` (~5-15KB each).
|
| 549 |
+
|
| 550 |
+
- [ ] **Step 4: Add fixture paths to conftest**
|
| 551 |
+
|
| 552 |
+
Read the current `tests/conftest.py` first, then append the fixture paths. Add to `tests/conftest.py`:
|
| 553 |
+
|
| 554 |
+
```python
|
| 555 |
+
import os
|
| 556 |
+
import pytest
|
| 557 |
+
|
| 558 |
+
FIXTURES_DIR = os.path.join(os.path.dirname(__file__), "fixtures")
|
| 559 |
+
|
| 560 |
+
|
| 561 |
+
@pytest.fixture
|
| 562 |
+
def ndvi_monthly_tif():
|
| 563 |
+
"""Path to a 12-band synthetic NDVI monthly GeoTIFF."""
|
| 564 |
+
path = os.path.join(FIXTURES_DIR, "ndvi_monthly.tif")
|
| 565 |
+
if not os.path.exists(path):
|
| 566 |
+
pytest.skip("Test fixtures not generated. Run: python tests/fixtures/create_fixtures.py")
|
| 567 |
+
return path
|
| 568 |
+
|
| 569 |
+
|
| 570 |
+
@pytest.fixture
|
| 571 |
+
def true_color_tif():
|
| 572 |
+
"""Path to a 3-band synthetic true-color GeoTIFF."""
|
| 573 |
+
path = os.path.join(FIXTURES_DIR, "true_color.tif")
|
| 574 |
+
if not os.path.exists(path):
|
| 575 |
+
pytest.skip("Test fixtures not generated. Run: python tests/fixtures/create_fixtures.py")
|
| 576 |
+
return path
|
| 577 |
+
```
|
| 578 |
+
|
| 579 |
+
- [ ] **Step 5: Verify fixtures load**
|
| 580 |
+
|
| 581 |
+
Run: `cd /Users/kmini/Github/Aperture && python -c "import rasterio; ds = rasterio.open('tests/fixtures/ndvi_monthly.tif'); print(f'NDVI: {ds.count} bands, {ds.width}x{ds.height}'); ds = rasterio.open('tests/fixtures/true_color.tif'); print(f'RGB: {ds.count} bands, {ds.width}x{ds.height}')"`
|
| 582 |
+
|
| 583 |
+
Expected:
|
| 584 |
+
```
|
| 585 |
+
NDVI: 12 bands, 22x17
|
| 586 |
+
RGB: 3 bands, 22x17
|
| 587 |
+
```
|
| 588 |
+
|
| 589 |
+
- [ ] **Step 6: Commit**
|
| 590 |
+
|
| 591 |
+
```bash
|
| 592 |
+
git add tests/fixtures/ tests/conftest.py
|
| 593 |
+
git commit -m "test: add synthetic GeoTIFF fixtures for raster map tests"
|
| 594 |
+
```
|
| 595 |
+
|
| 596 |
+
---
|
| 597 |
+
|
| 598 |
+
### Task 5: Add Raster Map Renderer
|
| 599 |
+
|
| 600 |
+
**Files:**
|
| 601 |
+
- Modify: `app/outputs/maps.py:1-202`
|
| 602 |
+
- Create: `tests/test_raster_maps.py`
|
| 603 |
+
|
| 604 |
+
- [ ] **Step 1: Write test for raster-on-true-color map rendering**
|
| 605 |
+
|
| 606 |
+
Create `tests/test_raster_maps.py`:
|
| 607 |
+
|
| 608 |
+
```python
|
| 609 |
+
"""Tests for raster map rendering — indicator overlaid on true-color composite."""
|
| 610 |
+
from __future__ import annotations
|
| 611 |
+
|
| 612 |
+
import os
|
| 613 |
+
import tempfile
|
| 614 |
+
import pytest
|
| 615 |
+
|
| 616 |
+
from app.models import AOI, StatusLevel
|
| 617 |
+
|
| 618 |
+
|
| 619 |
+
@pytest.fixture
|
| 620 |
+
def test_aoi():
|
| 621 |
+
return AOI(name="Test", bbox=[32.45, 15.65, 32.65, 15.8])
|
| 622 |
+
|
| 623 |
+
|
| 624 |
+
def test_render_raster_map_produces_png(test_aoi, ndvi_monthly_tif, true_color_tif):
|
| 625 |
+
"""render_raster_map() produces a valid PNG from GeoTIFFs."""
|
| 626 |
+
from app.outputs.maps import render_raster_map
|
| 627 |
+
|
| 628 |
+
with tempfile.TemporaryDirectory() as tmpdir:
|
| 629 |
+
out = os.path.join(tmpdir, "ndvi_map.png")
|
| 630 |
+
render_raster_map(
|
| 631 |
+
true_color_path=true_color_tif,
|
| 632 |
+
indicator_path=ndvi_monthly_tif,
|
| 633 |
+
indicator_band=7, # July (peak NDVI)
|
| 634 |
+
aoi=test_aoi,
|
| 635 |
+
status=StatusLevel.GREEN,
|
| 636 |
+
output_path=out,
|
| 637 |
+
cmap="RdYlGn",
|
| 638 |
+
vmin=-0.2,
|
| 639 |
+
vmax=0.9,
|
| 640 |
+
label="NDVI",
|
| 641 |
+
)
|
| 642 |
+
assert os.path.exists(out)
|
| 643 |
+
assert os.path.getsize(out) > 5000 # Reasonable PNG size
|
| 644 |
+
|
| 645 |
+
|
| 646 |
+
def test_render_raster_map_without_true_color(test_aoi, ndvi_monthly_tif):
|
| 647 |
+
"""render_raster_map() works without a true-color base (just indicator)."""
|
| 648 |
+
from app.outputs.maps import render_raster_map
|
| 649 |
+
|
| 650 |
+
with tempfile.TemporaryDirectory() as tmpdir:
|
| 651 |
+
out = os.path.join(tmpdir, "ndvi_no_base.png")
|
| 652 |
+
render_raster_map(
|
| 653 |
+
true_color_path=None,
|
| 654 |
+
indicator_path=ndvi_monthly_tif,
|
| 655 |
+
indicator_band=7,
|
| 656 |
+
aoi=test_aoi,
|
| 657 |
+
status=StatusLevel.AMBER,
|
| 658 |
+
output_path=out,
|
| 659 |
+
cmap="RdYlGn",
|
| 660 |
+
vmin=-0.2,
|
| 661 |
+
vmax=0.9,
|
| 662 |
+
label="NDVI",
|
| 663 |
+
)
|
| 664 |
+
assert os.path.exists(out)
|
| 665 |
+
assert os.path.getsize(out) > 3000
|
| 666 |
+
|
| 667 |
+
|
| 668 |
+
def test_render_true_color_standalone(test_aoi, true_color_tif):
|
| 669 |
+
"""render_raster_map() renders just the true-color composite when no indicator."""
|
| 670 |
+
from app.outputs.maps import render_raster_map
|
| 671 |
+
|
| 672 |
+
with tempfile.TemporaryDirectory() as tmpdir:
|
| 673 |
+
out = os.path.join(tmpdir, "rgb_only.png")
|
| 674 |
+
render_raster_map(
|
| 675 |
+
true_color_path=true_color_tif,
|
| 676 |
+
indicator_path=None,
|
| 677 |
+
indicator_band=1,
|
| 678 |
+
aoi=test_aoi,
|
| 679 |
+
status=StatusLevel.GREEN,
|
| 680 |
+
output_path=out,
|
| 681 |
+
label="True Color",
|
| 682 |
+
)
|
| 683 |
+
assert os.path.exists(out)
|
| 684 |
+
assert os.path.getsize(out) > 3000
|
| 685 |
+
```
|
| 686 |
+
|
| 687 |
+
- [ ] **Step 2: Run tests to verify they fail**
|
| 688 |
+
|
| 689 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/test_raster_maps.py -v`
|
| 690 |
+
|
| 691 |
+
Expected: FAIL — `ImportError: cannot import name 'render_raster_map' from 'app.outputs.maps'`
|
| 692 |
+
|
| 693 |
+
- [ ] **Step 3: Implement render_raster_map()**
|
| 694 |
+
|
| 695 |
+
Add to the bottom of `app/outputs/maps.py` (after the existing `_render_grid` function, line 201):
|
| 696 |
+
|
| 697 |
+
```python
|
| 698 |
+
def render_raster_map(
|
| 699 |
+
*,
|
| 700 |
+
true_color_path: str | None,
|
| 701 |
+
indicator_path: str | None,
|
| 702 |
+
indicator_band: int = 1,
|
| 703 |
+
aoi: AOI,
|
| 704 |
+
status: StatusLevel,
|
| 705 |
+
output_path: str,
|
| 706 |
+
cmap: str = "RdYlGn",
|
| 707 |
+
vmin: float | None = None,
|
| 708 |
+
vmax: float | None = None,
|
| 709 |
+
alpha: float = 0.6,
|
| 710 |
+
label: str = "",
|
| 711 |
+
) -> None:
|
| 712 |
+
"""Render an indicator raster overlaid on a true-color Sentinel-2 composite.
|
| 713 |
+
|
| 714 |
+
Parameters
|
| 715 |
+
----------
|
| 716 |
+
true_color_path:
|
| 717 |
+
Path to a 3-band (R,G,B) GeoTIFF. If None, renders on plain background.
|
| 718 |
+
indicator_path:
|
| 719 |
+
Path to indicator GeoTIFF. Reads band `indicator_band`. If None,
|
| 720 |
+
renders only the true-color composite.
|
| 721 |
+
indicator_band:
|
| 722 |
+
1-based band index to read from the indicator GeoTIFF.
|
| 723 |
+
aoi:
|
| 724 |
+
AOI for bounding box overlay.
|
| 725 |
+
status:
|
| 726 |
+
Traffic-light status — used for AOI outline color.
|
| 727 |
+
output_path:
|
| 728 |
+
Path to write the output PNG.
|
| 729 |
+
cmap:
|
| 730 |
+
Matplotlib colormap name for the indicator overlay.
|
| 731 |
+
vmin, vmax:
|
| 732 |
+
Value range for the indicator colormap.
|
| 733 |
+
alpha:
|
| 734 |
+
Transparency of the indicator overlay (0=transparent, 1=opaque).
|
| 735 |
+
label:
|
| 736 |
+
Colorbar label string.
|
| 737 |
+
"""
|
| 738 |
+
import rasterio
|
| 739 |
+
|
| 740 |
+
fig, ax = plt.subplots(figsize=(6, 5), dpi=200, facecolor=SHELL)
|
| 741 |
+
ax.set_facecolor(SHELL)
|
| 742 |
+
|
| 743 |
+
extent = None
|
| 744 |
+
|
| 745 |
+
# Render true-color base layer
|
| 746 |
+
if true_color_path is not None:
|
| 747 |
+
with rasterio.open(true_color_path) as src:
|
| 748 |
+
rgb = src.read([1, 2, 3]).astype(np.float32)
|
| 749 |
+
extent = [src.bounds.left, src.bounds.right, src.bounds.bottom, src.bounds.top]
|
| 750 |
+
# Sentinel-2 reflectance scaling (values typically 0-10000)
|
| 751 |
+
rgb_max = max(rgb.max(), 1.0)
|
| 752 |
+
scale = 3000.0 if rgb_max > 255 else 255.0
|
| 753 |
+
rgb_normalized = np.clip(rgb / scale, 0, 1).transpose(1, 2, 0)
|
| 754 |
+
ax.imshow(rgb_normalized, extent=extent, aspect="auto", zorder=0)
|
| 755 |
+
|
| 756 |
+
# Render indicator raster overlay
|
| 757 |
+
if indicator_path is not None:
|
| 758 |
+
with rasterio.open(indicator_path) as src:
|
| 759 |
+
data = src.read(indicator_band).astype(np.float32)
|
| 760 |
+
nodata = src.nodata
|
| 761 |
+
ind_extent = [src.bounds.left, src.bounds.right, src.bounds.bottom, src.bounds.top]
|
| 762 |
+
if extent is None:
|
| 763 |
+
extent = ind_extent
|
| 764 |
+
masked = np.ma.masked_where(
|
| 765 |
+
(data == nodata) if nodata is not None else np.zeros_like(data, dtype=bool),
|
| 766 |
+
data,
|
| 767 |
+
)
|
| 768 |
+
im = ax.imshow(
|
| 769 |
+
masked, extent=ind_extent, cmap=cmap, alpha=alpha,
|
| 770 |
+
vmin=vmin, vmax=vmax, aspect="auto", zorder=1,
|
| 771 |
+
)
|
| 772 |
+
cbar = fig.colorbar(im, ax=ax, fraction=0.03, pad=0.04, shrink=0.85)
|
| 773 |
+
cbar.set_label(label, fontsize=7, color=INK_MUTED)
|
| 774 |
+
cbar.ax.tick_params(labelsize=6, colors=INK_MUTED)
|
| 775 |
+
|
| 776 |
+
# AOI outline
|
| 777 |
+
if extent is not None:
|
| 778 |
+
ax.set_xlim(extent[0], extent[1])
|
| 779 |
+
ax.set_ylim(extent[2], extent[3])
|
| 780 |
+
color = STATUS_COLORS[status]
|
| 781 |
+
_draw_aoi_rect(ax, aoi, color)
|
| 782 |
+
|
| 783 |
+
# Axis labels
|
| 784 |
+
ax.tick_params(labelsize=6, colors=INK_MUTED)
|
| 785 |
+
ax.set_xlabel("Longitude", fontsize=7, color=INK_MUTED)
|
| 786 |
+
ax.set_ylabel("Latitude", fontsize=7, color=INK_MUTED)
|
| 787 |
+
|
| 788 |
+
# Clean spines
|
| 789 |
+
for spine in ax.spines.values():
|
| 790 |
+
spine.set_color(INK_MUTED)
|
| 791 |
+
spine.set_linewidth(0.5)
|
| 792 |
+
|
| 793 |
+
plt.tight_layout()
|
| 794 |
+
fig.savefig(output_path, dpi=200, bbox_inches="tight", facecolor=SHELL)
|
| 795 |
+
plt.close(fig)
|
| 796 |
+
```
|
| 797 |
+
|
| 798 |
+
Also add `import rasterio` check at the top of the file won't be needed — we import inside the function to keep the module loadable even if rasterio isn't installed (existing pattern in this file with cartopy).
|
| 799 |
+
|
| 800 |
+
- [ ] **Step 4: Run tests**
|
| 801 |
+
|
| 802 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/test_raster_maps.py -v`
|
| 803 |
+
|
| 804 |
+
Expected: All PASS.
|
| 805 |
+
|
| 806 |
+
- [ ] **Step 5: Run existing map tests to verify no regressions**
|
| 807 |
+
|
| 808 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/test_maps.py -v`
|
| 809 |
+
|
| 810 |
+
Expected: All existing tests still PASS.
|
| 811 |
+
|
| 812 |
+
- [ ] **Step 6: Commit**
|
| 813 |
+
|
| 814 |
+
```bash
|
| 815 |
+
git add app/outputs/maps.py tests/test_raster_maps.py
|
| 816 |
+
git commit -m "feat: add raster-on-true-color map renderer (render_raster_map)"
|
| 817 |
+
```
|
| 818 |
+
|
| 819 |
+
---
|
| 820 |
+
|
| 821 |
+
### Task 6: Create NDVI Indicator
|
| 822 |
+
|
| 823 |
+
**Files:**
|
| 824 |
+
- Create: `app/indicators/ndvi.py`
|
| 825 |
+
- Create: `tests/test_indicator_ndvi.py`
|
| 826 |
+
|
| 827 |
+
- [ ] **Step 1: Write test for NDVI indicator with mocked openEO**
|
| 828 |
+
|
| 829 |
+
Create `tests/test_indicator_ndvi.py`:
|
| 830 |
+
|
| 831 |
+
```python
|
| 832 |
+
"""Tests for app.indicators.ndvi — pixel-level NDVI via openEO."""
|
| 833 |
+
from __future__ import annotations
|
| 834 |
+
|
| 835 |
+
import os
|
| 836 |
+
import tempfile
|
| 837 |
+
from unittest.mock import MagicMock, patch, AsyncMock
|
| 838 |
+
from datetime import date
|
| 839 |
+
|
| 840 |
+
import numpy as np
|
| 841 |
+
import pytest
|
| 842 |
+
|
| 843 |
+
from app.models import AOI, TimeRange, StatusLevel, TrendDirection, ConfidenceLevel
|
| 844 |
+
|
| 845 |
+
|
| 846 |
+
@pytest.fixture
|
| 847 |
+
def test_aoi():
|
| 848 |
+
return AOI(name="Test Khartoum", bbox=[32.45, 15.65, 32.65, 15.8])
|
| 849 |
+
|
| 850 |
+
|
| 851 |
+
@pytest.fixture
|
| 852 |
+
def test_time_range():
|
| 853 |
+
return TimeRange(start=date(2025, 3, 1), end=date(2026, 3, 1))
|
| 854 |
+
|
| 855 |
+
|
| 856 |
+
def _mock_ndvi_tif(path: str, n_months: int = 12):
|
| 857 |
+
"""Create a small synthetic NDVI GeoTIFF at the given path."""
|
| 858 |
+
import rasterio
|
| 859 |
+
from rasterio.transform import from_bounds
|
| 860 |
+
rng = np.random.default_rng(42)
|
| 861 |
+
data = np.zeros((n_months, 10, 10), dtype=np.float32)
|
| 862 |
+
for m in range(n_months):
|
| 863 |
+
data[m] = 0.3 + 0.2 * np.sin(np.pi * (m - 3) / 6) + rng.normal(0, 0.02, (10, 10))
|
| 864 |
+
with rasterio.open(
|
| 865 |
+
path, "w", driver="GTiff", height=10, width=10, count=n_months,
|
| 866 |
+
dtype="float32", crs="EPSG:4326",
|
| 867 |
+
transform=from_bounds(32.45, 15.65, 32.65, 15.8, 10, 10),
|
| 868 |
+
nodata=-9999.0,
|
| 869 |
+
) as dst:
|
| 870 |
+
for i in range(n_months):
|
| 871 |
+
dst.write(data[i], i + 1)
|
| 872 |
+
|
| 873 |
+
|
| 874 |
+
def _mock_true_color_tif(path: str):
|
| 875 |
+
"""Create a small synthetic true-color GeoTIFF."""
|
| 876 |
+
import rasterio
|
| 877 |
+
from rasterio.transform import from_bounds
|
| 878 |
+
rng = np.random.default_rng(43)
|
| 879 |
+
data = rng.integers(500, 1500, (3, 10, 10), dtype=np.uint16)
|
| 880 |
+
with rasterio.open(
|
| 881 |
+
path, "w", driver="GTiff", height=10, width=10, count=3,
|
| 882 |
+
dtype="uint16", crs="EPSG:4326",
|
| 883 |
+
transform=from_bounds(32.45, 15.65, 32.65, 15.8, 10, 10),
|
| 884 |
+
nodata=0,
|
| 885 |
+
) as dst:
|
| 886 |
+
for i in range(3):
|
| 887 |
+
dst.write(data[i], i + 1)
|
| 888 |
+
|
| 889 |
+
|
| 890 |
+
@pytest.mark.asyncio
|
| 891 |
+
async def test_ndvi_process_returns_indicator_result(test_aoi, test_time_range):
|
| 892 |
+
"""NdviIndicator.process() returns a valid IndicatorResult."""
|
| 893 |
+
from app.indicators.ndvi import NdviIndicator
|
| 894 |
+
|
| 895 |
+
indicator = NdviIndicator()
|
| 896 |
+
|
| 897 |
+
with tempfile.TemporaryDirectory() as tmpdir:
|
| 898 |
+
ndvi_path = os.path.join(tmpdir, "ndvi.tif")
|
| 899 |
+
rgb_path = os.path.join(tmpdir, "rgb.tif")
|
| 900 |
+
_mock_ndvi_tif(ndvi_path)
|
| 901 |
+
_mock_true_color_tif(rgb_path)
|
| 902 |
+
|
| 903 |
+
# Mock the openEO download to write our test files
|
| 904 |
+
mock_cube = MagicMock()
|
| 905 |
+
mock_cube.download = MagicMock()
|
| 906 |
+
|
| 907 |
+
with patch("app.indicators.ndvi.get_connection") as mock_get_conn, \
|
| 908 |
+
patch("app.indicators.ndvi.build_ndvi_graph", return_value=mock_cube) as mock_ndvi, \
|
| 909 |
+
patch("app.indicators.ndvi.build_true_color_graph", return_value=mock_cube) as mock_rgb:
|
| 910 |
+
|
| 911 |
+
# When download() is called, copy our fixture to the target path
|
| 912 |
+
def fake_download(path, **kwargs):
|
| 913 |
+
import shutil
|
| 914 |
+
if "ndvi" in path:
|
| 915 |
+
shutil.copy(ndvi_path, path)
|
| 916 |
+
else:
|
| 917 |
+
shutil.copy(rgb_path, path)
|
| 918 |
+
|
| 919 |
+
mock_cube.download.side_effect = fake_download
|
| 920 |
+
|
| 921 |
+
result = await indicator.process(test_aoi, test_time_range)
|
| 922 |
+
|
| 923 |
+
assert result.indicator_id == "ndvi"
|
| 924 |
+
assert result.status in (StatusLevel.GREEN, StatusLevel.AMBER, StatusLevel.RED)
|
| 925 |
+
assert result.trend in (TrendDirection.IMPROVING, TrendDirection.STABLE, TrendDirection.DETERIORATING)
|
| 926 |
+
assert result.confidence in (ConfidenceLevel.HIGH, ConfidenceLevel.MODERATE, ConfidenceLevel.LOW)
|
| 927 |
+
assert "NDVI" in result.methodology or "ndvi" in result.methodology.lower()
|
| 928 |
+
assert len(result.chart_data.get("dates", [])) > 0
|
| 929 |
+
assert len(result.chart_data.get("values", [])) > 0
|
| 930 |
+
|
| 931 |
+
|
| 932 |
+
@pytest.mark.asyncio
|
| 933 |
+
async def test_ndvi_falls_back_to_vegetation_on_failure(test_aoi, test_time_range):
|
| 934 |
+
"""NdviIndicator falls back gracefully when openEO fails."""
|
| 935 |
+
from app.indicators.ndvi import NdviIndicator
|
| 936 |
+
|
| 937 |
+
indicator = NdviIndicator()
|
| 938 |
+
|
| 939 |
+
with patch("app.indicators.ndvi.get_connection", side_effect=Exception("CDSE down")):
|
| 940 |
+
result = await indicator.process(test_aoi, test_time_range)
|
| 941 |
+
|
| 942 |
+
assert result.indicator_id == "ndvi"
|
| 943 |
+
assert result.data_source == "placeholder"
|
| 944 |
+
|
| 945 |
+
|
| 946 |
+
def test_ndvi_compute_stats():
|
| 947 |
+
"""_compute_stats() extracts correct statistics from a multi-band raster."""
|
| 948 |
+
from app.indicators.ndvi import NdviIndicator
|
| 949 |
+
|
| 950 |
+
with tempfile.TemporaryDirectory() as tmpdir:
|
| 951 |
+
path = os.path.join(tmpdir, "ndvi.tif")
|
| 952 |
+
_mock_ndvi_tif(path, n_months=12)
|
| 953 |
+
|
| 954 |
+
stats = NdviIndicator._compute_stats(path)
|
| 955 |
+
|
| 956 |
+
assert "monthly_means" in stats
|
| 957 |
+
assert len(stats["monthly_means"]) == 12
|
| 958 |
+
assert "overall_mean" in stats
|
| 959 |
+
assert 0 < stats["overall_mean"] < 1
|
| 960 |
+
assert "valid_months" in stats
|
| 961 |
+
assert stats["valid_months"] == 12
|
| 962 |
+
```
|
| 963 |
+
|
| 964 |
+
- [ ] **Step 2: Run tests to verify they fail**
|
| 965 |
+
|
| 966 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/test_indicator_ndvi.py -v`
|
| 967 |
+
|
| 968 |
+
Expected: FAIL — `ModuleNotFoundError: No module named 'app.indicators.ndvi'`
|
| 969 |
+
|
| 970 |
+
- [ ] **Step 3: Implement NdviIndicator**
|
| 971 |
+
|
| 972 |
+
Create `app/indicators/ndvi.py`:
|
| 973 |
+
|
| 974 |
+
```python
|
| 975 |
+
"""NDVI Vegetation Indicator — pixel-level via CDSE openEO.
|
| 976 |
+
|
| 977 |
+
Computes monthly median NDVI composites from Sentinel-2 L2A, compares
|
| 978 |
+
current period to a 5-year baseline, and classifies vegetation change
|
| 979 |
+
using percentage-point anomaly thresholds.
|
| 980 |
+
"""
|
| 981 |
+
from __future__ import annotations
|
| 982 |
+
|
| 983 |
+
import logging
|
| 984 |
+
import os
|
| 985 |
+
import tempfile
|
| 986 |
+
from datetime import date
|
| 987 |
+
from typing import Any
|
| 988 |
+
|
| 989 |
+
import numpy as np
|
| 990 |
+
import rasterio
|
| 991 |
+
|
| 992 |
+
from app.config import RESOLUTION_M
|
| 993 |
+
from app.indicators.base import BaseIndicator, SpatialData
|
| 994 |
+
from app.models import (
|
| 995 |
+
AOI,
|
| 996 |
+
TimeRange,
|
| 997 |
+
IndicatorResult,
|
| 998 |
+
StatusLevel,
|
| 999 |
+
TrendDirection,
|
| 1000 |
+
ConfidenceLevel,
|
| 1001 |
+
)
|
| 1002 |
+
from app.openeo_client import get_connection, build_ndvi_graph, build_true_color_graph, _bbox_dict
|
| 1003 |
+
|
| 1004 |
+
logger = logging.getLogger(__name__)
|
| 1005 |
+
|
| 1006 |
+
BASELINE_YEARS = 5
|
| 1007 |
+
|
| 1008 |
+
|
| 1009 |
+
class NdviIndicator(BaseIndicator):
|
| 1010 |
+
id = "ndvi"
|
| 1011 |
+
name = "Vegetation (NDVI)"
|
| 1012 |
+
category = "D2"
|
| 1013 |
+
question = "Is vegetation cover declining?"
|
| 1014 |
+
estimated_minutes = 8
|
| 1015 |
+
|
| 1016 |
+
_true_color_path: str | None = None
|
| 1017 |
+
|
| 1018 |
+
async def process(
|
| 1019 |
+
self, aoi: AOI, time_range: TimeRange, season_months: list[int] | None = None
|
| 1020 |
+
) -> IndicatorResult:
|
| 1021 |
+
try:
|
| 1022 |
+
return await self._process_openeo(aoi, time_range, season_months)
|
| 1023 |
+
except Exception as exc:
|
| 1024 |
+
logger.warning("NDVI openEO processing failed, using placeholder: %s", exc)
|
| 1025 |
+
return self._fallback(aoi, time_range)
|
| 1026 |
+
|
| 1027 |
+
async def _process_openeo(
|
| 1028 |
+
self, aoi: AOI, time_range: TimeRange, season_months: list[int] | None
|
| 1029 |
+
) -> IndicatorResult:
|
| 1030 |
+
import asyncio
|
| 1031 |
+
|
| 1032 |
+
conn = get_connection()
|
| 1033 |
+
bbox = _bbox_dict(aoi.bbox)
|
| 1034 |
+
|
| 1035 |
+
current_start = time_range.start.isoformat()
|
| 1036 |
+
current_end = time_range.end.isoformat()
|
| 1037 |
+
|
| 1038 |
+
# Baseline period: BASELINE_YEARS before the current start
|
| 1039 |
+
baseline_start = date(
|
| 1040 |
+
time_range.start.year - BASELINE_YEARS,
|
| 1041 |
+
time_range.start.month,
|
| 1042 |
+
time_range.start.day,
|
| 1043 |
+
).isoformat()
|
| 1044 |
+
baseline_end = date(
|
| 1045 |
+
time_range.start.year,
|
| 1046 |
+
time_range.start.month,
|
| 1047 |
+
time_range.start.day,
|
| 1048 |
+
).isoformat()
|
| 1049 |
+
|
| 1050 |
+
results_dir = tempfile.mkdtemp(prefix="aperture_ndvi_")
|
| 1051 |
+
|
| 1052 |
+
# Build processing graphs
|
| 1053 |
+
current_cube = build_ndvi_graph(
|
| 1054 |
+
conn=conn, bbox=bbox,
|
| 1055 |
+
temporal_extent=[current_start, current_end],
|
| 1056 |
+
resolution_m=RESOLUTION_M,
|
| 1057 |
+
)
|
| 1058 |
+
baseline_cube = build_ndvi_graph(
|
| 1059 |
+
conn=conn, bbox=bbox,
|
| 1060 |
+
temporal_extent=[baseline_start, baseline_end],
|
| 1061 |
+
resolution_m=RESOLUTION_M,
|
| 1062 |
+
)
|
| 1063 |
+
true_color_cube = build_true_color_graph(
|
| 1064 |
+
conn=conn, bbox=bbox,
|
| 1065 |
+
temporal_extent=[current_start, current_end],
|
| 1066 |
+
resolution_m=RESOLUTION_M,
|
| 1067 |
+
)
|
| 1068 |
+
|
| 1069 |
+
# Download results (sequential to manage memory on free tier)
|
| 1070 |
+
loop = asyncio.get_event_loop()
|
| 1071 |
+
current_path = os.path.join(results_dir, "ndvi_current.tif")
|
| 1072 |
+
baseline_path = os.path.join(results_dir, "ndvi_baseline.tif")
|
| 1073 |
+
true_color_path = os.path.join(results_dir, "true_color.tif")
|
| 1074 |
+
|
| 1075 |
+
await loop.run_in_executor(None, current_cube.download, current_path)
|
| 1076 |
+
await loop.run_in_executor(None, baseline_cube.download, baseline_path)
|
| 1077 |
+
await loop.run_in_executor(None, true_color_cube.download, true_color_path)
|
| 1078 |
+
|
| 1079 |
+
self._true_color_path = true_color_path
|
| 1080 |
+
|
| 1081 |
+
# Compute statistics
|
| 1082 |
+
current_stats = self._compute_stats(current_path)
|
| 1083 |
+
baseline_stats = self._compute_stats(baseline_path)
|
| 1084 |
+
|
| 1085 |
+
current_mean = current_stats["overall_mean"]
|
| 1086 |
+
baseline_mean = baseline_stats["overall_mean"]
|
| 1087 |
+
change = current_mean - baseline_mean
|
| 1088 |
+
|
| 1089 |
+
status = self._classify(change)
|
| 1090 |
+
trend = self._compute_trend(change)
|
| 1091 |
+
confidence = (
|
| 1092 |
+
ConfidenceLevel.HIGH if current_stats["valid_months"] >= 6
|
| 1093 |
+
else ConfidenceLevel.MODERATE if current_stats["valid_months"] >= 3
|
| 1094 |
+
else ConfidenceLevel.LOW
|
| 1095 |
+
)
|
| 1096 |
+
|
| 1097 |
+
# Build chart data
|
| 1098 |
+
chart_data = self._build_chart_data(
|
| 1099 |
+
current_stats["monthly_means"],
|
| 1100 |
+
baseline_stats["monthly_means"],
|
| 1101 |
+
time_range,
|
| 1102 |
+
)
|
| 1103 |
+
|
| 1104 |
+
# Headline
|
| 1105 |
+
if abs(change) <= 0.05:
|
| 1106 |
+
headline = f"Vegetation stable (NDVI {current_mean:.2f}, Δ{change:+.2f} vs baseline)"
|
| 1107 |
+
elif change > 0:
|
| 1108 |
+
headline = f"Vegetation greening (NDVI +{change:.2f} vs baseline)"
|
| 1109 |
+
else:
|
| 1110 |
+
headline = f"Vegetation decline (NDVI {change:.2f} vs baseline)"
|
| 1111 |
+
|
| 1112 |
+
# Spatial data — store the current NDVI path for map rendering
|
| 1113 |
+
self._spatial_data = SpatialData(
|
| 1114 |
+
map_type="raster",
|
| 1115 |
+
label="NDVI",
|
| 1116 |
+
colormap="RdYlGn",
|
| 1117 |
+
)
|
| 1118 |
+
# Store paths for the worker to use
|
| 1119 |
+
self._indicator_raster_path = current_path
|
| 1120 |
+
self._true_color_path = true_color_path
|
| 1121 |
+
self._ndvi_peak_band = current_stats["peak_month_band"]
|
| 1122 |
+
|
| 1123 |
+
return IndicatorResult(
|
| 1124 |
+
indicator_id=self.id,
|
| 1125 |
+
headline=headline,
|
| 1126 |
+
status=status,
|
| 1127 |
+
trend=trend,
|
| 1128 |
+
confidence=confidence,
|
| 1129 |
+
map_layer_path=current_path,
|
| 1130 |
+
chart_data=chart_data,
|
| 1131 |
+
data_source="satellite",
|
| 1132 |
+
summary=(
|
| 1133 |
+
f"Mean NDVI is {current_mean:.3f} compared to a {BASELINE_YEARS}-year "
|
| 1134 |
+
f"baseline of {baseline_mean:.3f} (Δ{change:+.3f}). "
|
| 1135 |
+
f"Pixel-level analysis at {RESOLUTION_M}m resolution from "
|
| 1136 |
+
f"{current_stats['valid_months']} monthly composites."
|
| 1137 |
+
),
|
| 1138 |
+
methodology=(
|
| 1139 |
+
f"Sentinel-2 L2A pixel-level NDVI = (B08 − B04) / (B08 + B04). "
|
| 1140 |
+
f"Cloud-masked using SCL band (classes 4, 5, 6 retained). "
|
| 1141 |
+
f"Monthly median composites at {RESOLUTION_M}m resolution. "
|
| 1142 |
+
f"Baseline: {BASELINE_YEARS}-year monthly medians. "
|
| 1143 |
+
f"Processed server-side via CDSE openEO."
|
| 1144 |
+
),
|
| 1145 |
+
limitations=[
|
| 1146 |
+
f"Resampled to {RESOLUTION_M}m — sub-field variability not captured at this resolution.",
|
| 1147 |
+
"Cloud cover reduces observation count in rainy seasons.",
|
| 1148 |
+
"NDVI does not distinguish crop from natural vegetation.",
|
| 1149 |
+
"Seasonal variation may mask long-term trends if analysis windows differ.",
|
| 1150 |
+
],
|
| 1151 |
+
)
|
| 1152 |
+
|
| 1153 |
+
@staticmethod
|
| 1154 |
+
def _compute_stats(tif_path: str) -> dict[str, Any]:
|
| 1155 |
+
"""Extract monthly and overall NDVI statistics from a multi-band GeoTIFF."""
|
| 1156 |
+
with rasterio.open(tif_path) as src:
|
| 1157 |
+
n_bands = src.count
|
| 1158 |
+
monthly_means = []
|
| 1159 |
+
peak_val = -999.0
|
| 1160 |
+
peak_band = 1
|
| 1161 |
+
for band in range(1, n_bands + 1):
|
| 1162 |
+
data = src.read(band).astype(np.float32)
|
| 1163 |
+
nodata = src.nodata
|
| 1164 |
+
if nodata is not None:
|
| 1165 |
+
valid = data[data != nodata]
|
| 1166 |
+
else:
|
| 1167 |
+
valid = data.ravel()
|
| 1168 |
+
if len(valid) > 0:
|
| 1169 |
+
mean = float(np.nanmean(valid))
|
| 1170 |
+
monthly_means.append(mean)
|
| 1171 |
+
if mean > peak_val:
|
| 1172 |
+
peak_val = mean
|
| 1173 |
+
peak_band = band
|
| 1174 |
+
else:
|
| 1175 |
+
monthly_means.append(0.0)
|
| 1176 |
+
|
| 1177 |
+
valid_months = sum(1 for m in monthly_means if m > 0)
|
| 1178 |
+
overall_mean = float(np.mean([m for m in monthly_means if m > 0])) if valid_months > 0 else 0.0
|
| 1179 |
+
|
| 1180 |
+
return {
|
| 1181 |
+
"monthly_means": monthly_means,
|
| 1182 |
+
"overall_mean": overall_mean,
|
| 1183 |
+
"valid_months": valid_months,
|
| 1184 |
+
"peak_month_band": peak_band,
|
| 1185 |
+
}
|
| 1186 |
+
|
| 1187 |
+
@staticmethod
|
| 1188 |
+
def _classify(change: float) -> StatusLevel:
|
| 1189 |
+
"""Classify NDVI anomaly into traffic-light status."""
|
| 1190 |
+
if change >= -0.05:
|
| 1191 |
+
return StatusLevel.GREEN
|
| 1192 |
+
if change >= -0.15:
|
| 1193 |
+
return StatusLevel.AMBER
|
| 1194 |
+
return StatusLevel.RED
|
| 1195 |
+
|
| 1196 |
+
@staticmethod
|
| 1197 |
+
def _compute_trend(change: float) -> TrendDirection:
|
| 1198 |
+
if abs(change) <= 0.05:
|
| 1199 |
+
return TrendDirection.STABLE
|
| 1200 |
+
if change > 0:
|
| 1201 |
+
return TrendDirection.IMPROVING
|
| 1202 |
+
return TrendDirection.DETERIORATING
|
| 1203 |
+
|
| 1204 |
+
@staticmethod
|
| 1205 |
+
def _build_chart_data(
|
| 1206 |
+
current_monthly: list[float],
|
| 1207 |
+
baseline_monthly: list[float],
|
| 1208 |
+
time_range: TimeRange,
|
| 1209 |
+
) -> dict[str, Any]:
|
| 1210 |
+
"""Build chart data with monthly NDVI values and baseline band."""
|
| 1211 |
+
year = time_range.end.year
|
| 1212 |
+
n = min(len(current_monthly), len(baseline_monthly))
|
| 1213 |
+
dates = [f"{year}-{m + 1:02d}" for m in range(n)]
|
| 1214 |
+
values = [round(v, 3) for v in current_monthly[:n]]
|
| 1215 |
+
b_mean = [round(v, 3) for v in baseline_monthly[:n]]
|
| 1216 |
+
|
| 1217 |
+
# For baseline band, use mean ± 0.05 as approximate range
|
| 1218 |
+
# (proper per-year min/max requires storing all baseline years)
|
| 1219 |
+
b_min = [round(max(v - 0.05, -0.2), 3) for v in baseline_monthly[:n]]
|
| 1220 |
+
b_max = [round(min(v + 0.05, 0.9), 3) for v in baseline_monthly[:n]]
|
| 1221 |
+
|
| 1222 |
+
return {
|
| 1223 |
+
"dates": dates,
|
| 1224 |
+
"values": values,
|
| 1225 |
+
"baseline_mean": b_mean,
|
| 1226 |
+
"baseline_min": b_min,
|
| 1227 |
+
"baseline_max": b_max,
|
| 1228 |
+
"label": "NDVI",
|
| 1229 |
+
}
|
| 1230 |
+
|
| 1231 |
+
def _fallback(self, aoi: AOI, time_range: TimeRange) -> IndicatorResult:
|
| 1232 |
+
"""Return a placeholder result when openEO processing fails."""
|
| 1233 |
+
rng = np.random.default_rng(7)
|
| 1234 |
+
baseline = float(rng.uniform(0.25, 0.45))
|
| 1235 |
+
current = baseline * float(rng.uniform(0.90, 1.02))
|
| 1236 |
+
change = current - baseline
|
| 1237 |
+
|
| 1238 |
+
return IndicatorResult(
|
| 1239 |
+
indicator_id=self.id,
|
| 1240 |
+
headline=f"Vegetation data degraded (NDVI ≈{current:.2f})",
|
| 1241 |
+
status=self._classify(change),
|
| 1242 |
+
trend=self._compute_trend(change),
|
| 1243 |
+
confidence=ConfidenceLevel.LOW,
|
| 1244 |
+
map_layer_path="",
|
| 1245 |
+
chart_data={
|
| 1246 |
+
"dates": [str(time_range.start.year), str(time_range.end.year)],
|
| 1247 |
+
"values": [round(baseline, 3), round(current, 3)],
|
| 1248 |
+
"label": "NDVI",
|
| 1249 |
+
},
|
| 1250 |
+
data_source="placeholder",
|
| 1251 |
+
summary="openEO processing unavailable. Showing placeholder values.",
|
| 1252 |
+
methodology="Placeholder — no satellite data processed.",
|
| 1253 |
+
limitations=["Data is synthetic. openEO backend was unreachable."],
|
| 1254 |
+
)
|
| 1255 |
+
```
|
| 1256 |
+
|
| 1257 |
+
- [ ] **Step 4: Run tests**
|
| 1258 |
+
|
| 1259 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/test_indicator_ndvi.py -v`
|
| 1260 |
+
|
| 1261 |
+
Expected: All PASS.
|
| 1262 |
+
|
| 1263 |
+
- [ ] **Step 5: Commit**
|
| 1264 |
+
|
| 1265 |
+
```bash
|
| 1266 |
+
git add app/indicators/ndvi.py tests/test_indicator_ndvi.py
|
| 1267 |
+
git commit -m "feat: add pixel-level NDVI indicator via CDSE openEO"
|
| 1268 |
+
```
|
| 1269 |
+
|
| 1270 |
+
---
|
| 1271 |
+
|
| 1272 |
+
### Task 7: Register NDVI Indicator and Update Worker
|
| 1273 |
+
|
| 1274 |
+
**Files:**
|
| 1275 |
+
- Modify: `app/indicators/__init__.py:1-22`
|
| 1276 |
+
- Modify: `app/indicators/base.py:13-22` (SpatialData — add `raster` map_type support)
|
| 1277 |
+
- Modify: `app/worker.py:91-106` (map rendering — handle raster type)
|
| 1278 |
+
|
| 1279 |
+
- [ ] **Step 1: Add NDVI to indicator registry**
|
| 1280 |
+
|
| 1281 |
+
In `app/indicators/__init__.py`, add the import and registration. Replace the full file:
|
| 1282 |
+
|
| 1283 |
+
```python
|
| 1284 |
+
from app.indicators.base import IndicatorRegistry
|
| 1285 |
+
from app.indicators.fires import FiresIndicator
|
| 1286 |
+
from app.indicators.cropland import CroplandIndicator
|
| 1287 |
+
from app.indicators.vegetation import VegetationIndicator
|
| 1288 |
+
from app.indicators.rainfall import RainfallIndicator
|
| 1289 |
+
from app.indicators.water import WaterIndicator
|
| 1290 |
+
from app.indicators.no2 import NO2Indicator
|
| 1291 |
+
from app.indicators.lst import LSTIndicator
|
| 1292 |
+
from app.indicators.nightlights import NightlightsIndicator
|
| 1293 |
+
from app.indicators.food_security import FoodSecurityIndicator
|
| 1294 |
+
from app.indicators.ndvi import NdviIndicator
|
| 1295 |
+
|
| 1296 |
+
registry = IndicatorRegistry()
|
| 1297 |
+
registry.register(NdviIndicator())
|
| 1298 |
+
registry.register(FiresIndicator())
|
| 1299 |
+
registry.register(CroplandIndicator())
|
| 1300 |
+
registry.register(VegetationIndicator())
|
| 1301 |
+
registry.register(RainfallIndicator())
|
| 1302 |
+
registry.register(WaterIndicator())
|
| 1303 |
+
registry.register(NO2Indicator())
|
| 1304 |
+
registry.register(LSTIndicator())
|
| 1305 |
+
registry.register(NightlightsIndicator())
|
| 1306 |
+
registry.register(FoodSecurityIndicator())
|
| 1307 |
+
```
|
| 1308 |
+
|
| 1309 |
+
- [ ] **Step 2: Update worker to handle raster map type**
|
| 1310 |
+
|
| 1311 |
+
In `app/worker.py`, replace lines 91-106 (the map generation block inside the `for result in job.results:` loop):
|
| 1312 |
+
|
| 1313 |
+
```python
|
| 1314 |
+
# Generate map PNG for every indicator
|
| 1315 |
+
spatial = spatial_cache.get(result.indicator_id)
|
| 1316 |
+
map_path = os.path.join(results_dir, f"{result.indicator_id}_map.png")
|
| 1317 |
+
|
| 1318 |
+
if spatial is not None and spatial.map_type == "raster":
|
| 1319 |
+
# New: raster-on-true-color rendering for openEO indicators
|
| 1320 |
+
indicator_obj = registry.get(result.indicator_id)
|
| 1321 |
+
raster_path = getattr(indicator_obj, '_indicator_raster_path', None)
|
| 1322 |
+
true_color_path = getattr(indicator_obj, '_true_color_path', None)
|
| 1323 |
+
peak_band = getattr(indicator_obj, '_ndvi_peak_band', 1)
|
| 1324 |
+
from app.outputs.maps import render_raster_map
|
| 1325 |
+
render_raster_map(
|
| 1326 |
+
true_color_path=true_color_path,
|
| 1327 |
+
indicator_path=raster_path,
|
| 1328 |
+
indicator_band=peak_band,
|
| 1329 |
+
aoi=job.request.aoi,
|
| 1330 |
+
status=result.status,
|
| 1331 |
+
output_path=map_path,
|
| 1332 |
+
cmap=spatial.colormap,
|
| 1333 |
+
vmin=-0.2 if "ndvi" in result.indicator_id else None,
|
| 1334 |
+
vmax=0.9 if "ndvi" in result.indicator_id else None,
|
| 1335 |
+
label=spatial.label,
|
| 1336 |
+
)
|
| 1337 |
+
elif spatial is not None:
|
| 1338 |
+
render_indicator_map(
|
| 1339 |
+
spatial=spatial,
|
| 1340 |
+
aoi=job.request.aoi,
|
| 1341 |
+
status=result.status,
|
| 1342 |
+
output_path=map_path,
|
| 1343 |
+
)
|
| 1344 |
+
else:
|
| 1345 |
+
render_status_map(
|
| 1346 |
+
aoi=job.request.aoi,
|
| 1347 |
+
status=result.status,
|
| 1348 |
+
output_path=map_path,
|
| 1349 |
+
)
|
| 1350 |
+
```
|
| 1351 |
+
|
| 1352 |
+
- [ ] **Step 3: Run existing tests to verify no regressions**
|
| 1353 |
+
|
| 1354 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/test_worker.py tests/test_indicator_base.py -v`
|
| 1355 |
+
|
| 1356 |
+
Expected: All PASS.
|
| 1357 |
+
|
| 1358 |
+
- [ ] **Step 4: Run the full test suite**
|
| 1359 |
+
|
| 1360 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/ -v --timeout=60`
|
| 1361 |
+
|
| 1362 |
+
Expected: All tests PASS. The NDVI indicator tests pass with mocked openEO, existing indicators are unaffected.
|
| 1363 |
+
|
| 1364 |
+
- [ ] **Step 5: Commit**
|
| 1365 |
+
|
| 1366 |
+
```bash
|
| 1367 |
+
git add app/indicators/__init__.py app/worker.py
|
| 1368 |
+
git commit -m "feat: register NDVI indicator and add raster map support to worker"
|
| 1369 |
+
```
|
| 1370 |
+
|
| 1371 |
+
---
|
| 1372 |
+
|
| 1373 |
+
### Task 8: End-to-End Smoke Test
|
| 1374 |
+
|
| 1375 |
+
This task verifies the full pipeline works with mocked openEO — from indicator processing through map rendering to report generation.
|
| 1376 |
+
|
| 1377 |
+
**Files:**
|
| 1378 |
+
- Create: `tests/test_ndvi_e2e.py`
|
| 1379 |
+
|
| 1380 |
+
- [ ] **Step 1: Write end-to-end test**
|
| 1381 |
+
|
| 1382 |
+
Create `tests/test_ndvi_e2e.py`:
|
| 1383 |
+
|
| 1384 |
+
```python
|
| 1385 |
+
"""End-to-end test: NDVI indicator → raster map → chart → report section.
|
| 1386 |
+
|
| 1387 |
+
Uses mocked openEO (no CDSE credentials needed) with synthetic GeoTIFFs.
|
| 1388 |
+
"""
|
| 1389 |
+
from __future__ import annotations
|
| 1390 |
+
|
| 1391 |
+
import os
|
| 1392 |
+
import tempfile
|
| 1393 |
+
from unittest.mock import MagicMock, patch
|
| 1394 |
+
from datetime import date
|
| 1395 |
+
|
| 1396 |
+
import numpy as np
|
| 1397 |
+
import rasterio
|
| 1398 |
+
from rasterio.transform import from_bounds
|
| 1399 |
+
import pytest
|
| 1400 |
+
|
| 1401 |
+
from app.models import AOI, TimeRange, StatusLevel
|
| 1402 |
+
from app.outputs.charts import render_timeseries_chart
|
| 1403 |
+
from app.outputs.maps import render_raster_map
|
| 1404 |
+
|
| 1405 |
+
|
| 1406 |
+
BBOX = [32.45, 15.65, 32.65, 15.8]
|
| 1407 |
+
WIDTH, HEIGHT = 15, 12
|
| 1408 |
+
|
| 1409 |
+
|
| 1410 |
+
def _write_ndvi_tif(path: str):
|
| 1411 |
+
rng = np.random.default_rng(42)
|
| 1412 |
+
data = np.zeros((12, HEIGHT, WIDTH), dtype=np.float32)
|
| 1413 |
+
for m in range(12):
|
| 1414 |
+
data[m] = 0.3 + 0.2 * np.sin(np.pi * (m - 3) / 6) + rng.normal(0, 0.03, (HEIGHT, WIDTH))
|
| 1415 |
+
with rasterio.open(
|
| 1416 |
+
path, "w", driver="GTiff", height=HEIGHT, width=WIDTH, count=12,
|
| 1417 |
+
dtype="float32", crs="EPSG:4326",
|
| 1418 |
+
transform=from_bounds(*BBOX, WIDTH, HEIGHT), nodata=-9999.0,
|
| 1419 |
+
) as dst:
|
| 1420 |
+
for i in range(12):
|
| 1421 |
+
dst.write(data[i], i + 1)
|
| 1422 |
+
|
| 1423 |
+
|
| 1424 |
+
def _write_rgb_tif(path: str):
|
| 1425 |
+
rng = np.random.default_rng(43)
|
| 1426 |
+
data = rng.integers(500, 1500, (3, HEIGHT, WIDTH), dtype=np.uint16)
|
| 1427 |
+
with rasterio.open(
|
| 1428 |
+
path, "w", driver="GTiff", height=HEIGHT, width=WIDTH, count=3,
|
| 1429 |
+
dtype="uint16", crs="EPSG:4326",
|
| 1430 |
+
transform=from_bounds(*BBOX, WIDTH, HEIGHT), nodata=0,
|
| 1431 |
+
) as dst:
|
| 1432 |
+
for i in range(3):
|
| 1433 |
+
dst.write(data[i], i + 1)
|
| 1434 |
+
|
| 1435 |
+
|
| 1436 |
+
@pytest.mark.asyncio
|
| 1437 |
+
async def test_ndvi_full_pipeline():
|
| 1438 |
+
"""Full pipeline: process NDVI → render raster map → render chart."""
|
| 1439 |
+
from app.indicators.ndvi import NdviIndicator
|
| 1440 |
+
|
| 1441 |
+
aoi = AOI(name="Khartoum Test", bbox=BBOX)
|
| 1442 |
+
time_range = TimeRange(start=date(2025, 3, 1), end=date(2026, 3, 1))
|
| 1443 |
+
|
| 1444 |
+
with tempfile.TemporaryDirectory() as tmpdir:
|
| 1445 |
+
ndvi_path = os.path.join(tmpdir, "ndvi.tif")
|
| 1446 |
+
rgb_path = os.path.join(tmpdir, "rgb.tif")
|
| 1447 |
+
_write_ndvi_tif(ndvi_path)
|
| 1448 |
+
_write_rgb_tif(rgb_path)
|
| 1449 |
+
|
| 1450 |
+
mock_cube = MagicMock()
|
| 1451 |
+
|
| 1452 |
+
def fake_download(path, **kwargs):
|
| 1453 |
+
import shutil
|
| 1454 |
+
if "ndvi" in path:
|
| 1455 |
+
shutil.copy(ndvi_path, path)
|
| 1456 |
+
else:
|
| 1457 |
+
shutil.copy(rgb_path, path)
|
| 1458 |
+
|
| 1459 |
+
mock_cube.download = MagicMock(side_effect=fake_download)
|
| 1460 |
+
|
| 1461 |
+
with patch("app.indicators.ndvi.get_connection") as mock_conn, \
|
| 1462 |
+
patch("app.indicators.ndvi.build_ndvi_graph", return_value=mock_cube), \
|
| 1463 |
+
patch("app.indicators.ndvi.build_true_color_graph", return_value=mock_cube):
|
| 1464 |
+
|
| 1465 |
+
indicator = NdviIndicator()
|
| 1466 |
+
result = await indicator.process(aoi, time_range)
|
| 1467 |
+
|
| 1468 |
+
# Verify result quality
|
| 1469 |
+
assert result.indicator_id == "ndvi"
|
| 1470 |
+
assert result.data_source == "satellite"
|
| 1471 |
+
assert "NDVI" in result.methodology
|
| 1472 |
+
assert "pixel" in result.methodology.lower()
|
| 1473 |
+
assert len(result.chart_data["dates"]) >= 6
|
| 1474 |
+
assert all(isinstance(v, float) for v in result.chart_data["values"])
|
| 1475 |
+
|
| 1476 |
+
# Render the raster map
|
| 1477 |
+
map_out = os.path.join(tmpdir, "ndvi_map.png")
|
| 1478 |
+
raster_path = indicator._indicator_raster_path
|
| 1479 |
+
tc_path = indicator._true_color_path
|
| 1480 |
+
peak = indicator._ndvi_peak_band
|
| 1481 |
+
|
| 1482 |
+
render_raster_map(
|
| 1483 |
+
true_color_path=tc_path,
|
| 1484 |
+
indicator_path=raster_path,
|
| 1485 |
+
indicator_band=peak,
|
| 1486 |
+
aoi=aoi,
|
| 1487 |
+
status=result.status,
|
| 1488 |
+
output_path=map_out,
|
| 1489 |
+
cmap="RdYlGn",
|
| 1490 |
+
vmin=-0.2,
|
| 1491 |
+
vmax=0.9,
|
| 1492 |
+
label="NDVI",
|
| 1493 |
+
)
|
| 1494 |
+
assert os.path.exists(map_out)
|
| 1495 |
+
assert os.path.getsize(map_out) > 10000 # Real map should be >10KB
|
| 1496 |
+
|
| 1497 |
+
# Render the chart
|
| 1498 |
+
chart_out = os.path.join(tmpdir, "ndvi_chart.png")
|
| 1499 |
+
render_timeseries_chart(
|
| 1500 |
+
chart_data=result.chart_data,
|
| 1501 |
+
indicator_name="Vegetation (NDVI)",
|
| 1502 |
+
status=result.status,
|
| 1503 |
+
trend=result.trend,
|
| 1504 |
+
output_path=chart_out,
|
| 1505 |
+
y_label="NDVI",
|
| 1506 |
+
)
|
| 1507 |
+
assert os.path.exists(chart_out)
|
| 1508 |
+
assert os.path.getsize(chart_out) > 5000
|
| 1509 |
+
```
|
| 1510 |
+
|
| 1511 |
+
- [ ] **Step 2: Run the e2e test**
|
| 1512 |
+
|
| 1513 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/test_ndvi_e2e.py -v`
|
| 1514 |
+
|
| 1515 |
+
Expected: PASS — the full pipeline works with mocked openEO.
|
| 1516 |
+
|
| 1517 |
+
- [ ] **Step 3: Run the complete test suite**
|
| 1518 |
+
|
| 1519 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/ -v --timeout=120`
|
| 1520 |
+
|
| 1521 |
+
Expected: All tests PASS, including new and existing tests.
|
| 1522 |
+
|
| 1523 |
+
- [ ] **Step 4: Commit**
|
| 1524 |
+
|
| 1525 |
+
```bash
|
| 1526 |
+
git add tests/test_ndvi_e2e.py
|
| 1527 |
+
git commit -m "test: add end-to-end smoke test for NDVI openEO pipeline"
|
| 1528 |
+
```
|
| 1529 |
+
|
| 1530 |
+
---
|
| 1531 |
+
|
| 1532 |
+
### Task 9: Final Verification and Cleanup
|
| 1533 |
+
|
| 1534 |
+
- [ ] **Step 1: Run full test suite one more time**
|
| 1535 |
+
|
| 1536 |
+
Run: `cd /Users/kmini/Github/Aperture && python -m pytest tests/ -v --timeout=120 2>&1 | tail -30`
|
| 1537 |
+
|
| 1538 |
+
Expected: All tests PASS. Note the total count — should be the existing ~121 tests plus the ~10 new tests.
|
| 1539 |
+
|
| 1540 |
+
- [ ] **Step 2: Verify no import cycles**
|
| 1541 |
+
|
| 1542 |
+
Run: `cd /Users/kmini/Github/Aperture && python -c "from app.indicators import registry; print('Registered:', registry.list_ids())"`
|
| 1543 |
+
|
| 1544 |
+
Expected: Prints the list including `ndvi` alongside existing indicators.
|
| 1545 |
+
|
| 1546 |
+
- [ ] **Step 3: Verify the config module loads cleanly**
|
| 1547 |
+
|
| 1548 |
+
Run: `cd /Users/kmini/Github/Aperture && python -c "from app.config import RESOLUTION_M, OPENEO_BACKEND; print(f'Resolution: {RESOLUTION_M}m, Backend: {OPENEO_BACKEND}')"`
|
| 1549 |
+
|
| 1550 |
+
Expected: `Resolution: 100m, Backend: openeo.dataspace.copernicus.eu`
|
| 1551 |
+
|
| 1552 |
+
- [ ] **Step 4: Check git status**
|
| 1553 |
+
|
| 1554 |
+
Run: `cd /Users/kmini/Github/Aperture && git log --oneline -8`
|
| 1555 |
+
|
| 1556 |
+
Expected: 8 new commits from this plan:
|
| 1557 |
+
1. `build: add openeo dependency for CDSE processing`
|
| 1558 |
+
2. `feat: add centralized config module with resolution and openEO settings`
|
| 1559 |
+
3. `feat: add openEO client with NDVI and true-color graph builders`
|
| 1560 |
+
4. `test: add synthetic GeoTIFF fixtures for raster map tests`
|
| 1561 |
+
5. `feat: add raster-on-true-color map renderer (render_raster_map)`
|
| 1562 |
+
6. `feat: add pixel-level NDVI indicator via CDSE openEO`
|
| 1563 |
+
7. `feat: register NDVI indicator and add raster map support to worker`
|
| 1564 |
+
8. `test: add end-to-end smoke test for NDVI openEO pipeline`
|