diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 5e4b1cca..fcf1fb0d 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -22,4 +22,24 @@ repos: files: ^space2stats_api/ exclude: ^space2stats/env/ additional_dependencies: - - types-requests \ No newline at end of file + - types-requests + + - repo: https://github.com/nbQA-dev/nbQA + rev: 1.8.7 + hooks: + - id: nbqa-ruff + args: ["--fix"] + # Match all `.ipynb` files under `notebooks/user-docs/` + files: ^notebooks/user-docs/.*\.ipynb$ + - id: nbqa-isort + args: ["--profile=black"] + additional_dependencies: [isort==5.6.4] + # Match all `.ipynb` files under `notebooks/user-docs/` + files: ^notebooks/user-docs/.*\.ipynb$ + - id: nbqa-black + # Match all `.ipynb` files under `notebooks/user-docs/` + files: ^notebooks/user-docs/.*\.ipynb$ + - id: nbqa-pyupgrade + args: ["--py37-plus"] + # Match all `.ipynb` files under `notebooks/user-docs/` + files: ^notebooks/user-docs/.*\.ipynb$ \ No newline at end of file diff --git a/notebooks/user-docs/s2s_python_lib.ipynb b/notebooks/user-docs/s2s_python_lib.ipynb new file mode 100644 index 00000000..ced1148d --- /dev/null +++ b/notebooks/user-docs/s2s_python_lib.ipynb @@ -0,0 +1,895 @@ +{ + "cells": [ + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "# Access S2S via Python Library" + ] + }, + { + "cell_type": "code", + "execution_count": 1, + "metadata": {}, + "outputs": [], + "source": [ + "%%capture\n", + "%pip install \"git+https://github.com/worldbank/DECAT_Space2Stats.git#subdirectory=space2stats_api/src\"" + ] + }, + { + "cell_type": "code", + "execution_count": 10, + "metadata": {}, + "outputs": [], + "source": [ + "import json\n", + "from typing import Dict\n", + "\n", + "import geopandas as gpd\n", + "import numpy as np\n", + "import pandas as pd\n", + "from dotenv import load_dotenv\n", + "from geojson_pydantic import Feature, Polygon\n", + "from lonboard import Map, ScatterplotLayer\n", + "from shapely.geometry import shape\n", + "from space2stats import StatsTable" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "__Expected environment variables to be set__ from dotenv file\n", + "\n", + "\n", + "```.env\n", + "PGHOST=\n", + "PGPORT=\n", + "PGDATABASE=\n", + "PGUSER=\n", + "PGPASSWORD=\n", + "PGTABLENAME=space2stats\n", + "```" + ] + }, + { + "cell_type": "code", + "execution_count": 4, + "metadata": {}, + "outputs": [ + { + "data": { + "text/plain": [ + "True" + ] + }, + "execution_count": 4, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "load_dotenv(\"../../space2stats_api/db.env\")" + ] + }, + { + "cell_type": "code", + "execution_count": 5, + "metadata": {}, + "outputs": [ + { + "data": { + "text/plain": [ + "['sum_pop_2020',\n", + " 'ogc_fid',\n", + " 'sum_pop_f_0_2020',\n", + " 'sum_pop_f_10_2020',\n", + " 'sum_pop_f_15_2020',\n", + " 'sum_pop_f_1_2020',\n", + " 'sum_pop_f_20_2020',\n", + " 'sum_pop_f_25_2020',\n", + " 'sum_pop_f_30_2020',\n", + " 'sum_pop_f_35_2020',\n", + " 'sum_pop_f_40_2020',\n", + " 'sum_pop_f_45_2020',\n", + " 'sum_pop_f_50_2020',\n", + " 'sum_pop_f_55_2020',\n", + " 'sum_pop_f_5_2020',\n", + " 'sum_pop_f_60_2020',\n", + " 'sum_pop_f_65_2020',\n", + " 'sum_pop_f_70_2020',\n", + " 'sum_pop_f_75_2020',\n", + " 'sum_pop_f_80_2020',\n", + " 'sum_pop_m_0_2020',\n", + " 'sum_pop_m_10_2020',\n", + " 'sum_pop_m_15_2020',\n", + " 'sum_pop_m_1_2020',\n", + " 'sum_pop_m_20_2020',\n", + " 'sum_pop_m_25_2020',\n", + " 'sum_pop_m_30_2020',\n", + " 'sum_pop_m_35_2020',\n", + " 'sum_pop_m_40_2020',\n", + " 'sum_pop_m_45_2020',\n", + " 'sum_pop_m_50_2020',\n", + " 'sum_pop_m_55_2020',\n", + " 'sum_pop_m_5_2020',\n", + " 'sum_pop_m_60_2020',\n", + " 'sum_pop_m_65_2020',\n", + " 'sum_pop_m_70_2020',\n", + " 'sum_pop_m_75_2020',\n", + " 'sum_pop_m_80_2020',\n", + " 'sum_pop_m_2020',\n", + " 'sum_pop_f_2020']" + ] + }, + "execution_count": 5, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "with StatsTable.connect() as stats_table:\n", + " fields = stats_table.fields()\n", + "\n", + "fields" + ] + }, + { + "cell_type": "code", + "execution_count": 6, + "metadata": {}, + "outputs": [], + "source": [ + "AOIModel = Feature[Polygon, Dict]\n", + "\n", + "# ~kenya\n", + "aoi = {\n", + " \"type\": \"Feature\",\n", + " \"geometry\": {\n", + " \"type\": \"Polygon\",\n", + " \"coordinates\": [\n", + " [\n", + " [33.78593974945852, 5.115816884114494],\n", + " [33.78593974945852, -4.725410543134203],\n", + " [41.94362577283266, -4.725410543134203],\n", + " [41.94362577283266, 5.115816884114494],\n", + " [33.78593974945852, 5.115816884114494],\n", + " ]\n", + " ],\n", + " },\n", + " \"properties\": {\"name\": \"Updated AOI\"},\n", + "}\n", + "\n", + "\n", + "feat = AOIModel(**aoi)" + ] + }, + { + "cell_type": "code", + "execution_count": 13, + "metadata": {}, + "outputs": [ + { + "data": { + "text/html": [ + "
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"496338079450487fbcf9db5fbd702c87", + "version_major": 2, + "version_minor": 1 + }, + "text/plain": [ + "Map(custom_attribution='', layers=(ScatterplotLayer(get_fill_color=arro3.core.ChunkedArray gpd.GeoDataFrame:\n", + " \"\"\"Fetch administrative boundaries from GeoBoundaries API.\"\"\"\n", + " url = f\"https://www.geoboundaries.org/api/current/gbOpen/{iso3}/{adm}/\"\n", + " res = requests.get(url).json()\n", + " return gpd.read_file(res[\"gjDownloadURL\"])\n", + "\n", + "\n", + "def fetch_summary_data(feature: Dict) -> pd.DataFrame:\n", + " \"\"\"Fetch summary data for each administrative feature.\"\"\"\n", + " request_payload = {\n", + " \"aoi\": feature,\n", + " \"spatial_join_method\": \"touches\",\n", + " \"fields\": [\"sum_pop_2020\"],\n", + " \"geometry\": \"point\",\n", + " }\n", + " response = requests.post(SUMMARY_ENDPOINT, json=request_payload)\n", + " if response.status_code != 200:\n", + " raise Exception(f\"Failed to get summary: {response.text}\")\n", + "\n", + " summary_data = response.json()\n", + " if not summary_data:\n", + " print(f\"Failed to get summary for {feature['id']}\")\n", + " return pd.DataFrame() # Return an empty DataFrame if no data\n", + "\n", + " df = pd.DataFrame(summary_data)\n", + " df[\"adm_id\"] = int(feature[\"id\"])\n", + " df[\"adm_name\"] = feature[\"properties\"][\"shapeName\"]\n", + " df[\"geometry\"] = df[\"geometry\"].apply(lambda geom: from_geojson(geom))\n", + " return df" + ] + }, + { + "cell_type": "code", + "execution_count": 4, + "metadata": {}, + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "Turkana 0\n", + "Marsabit 1\n", + "Mandera 2\n", + "Wajir 3\n", + "West Pokot 4\n", + "Samburu 5\n", + "Isiolo 6\n", + "Baringo 7\n", + "Elgeyo-Marakwet 8\n", + "Trans Nzoia 9\n", + "Bungoma 10\n", + "Garissa 11\n", + "Uasin Gishu 12\n", + "Kakamega 13\n", + "Laikipia 14\n", + "Busia 15\n", + "Meru 16\n", + "Nandi 17\n", + "Siaya 18\n", + "Nakuru 19\n", + "Vihiga 20\n", + "Nyandarua 21\n", + "Tharaka 22\n", + "Kericho 23\n", + "Kisumu 24\n", + "Nyeri 25\n", + "Tana River 26\n", + "Kitui 27\n", + "Kirinyaga 28\n", + "Embu 29\n", + "Homa Bay 30\n", + "Bomet 31\n", + "Nyamira 32\n", + "Narok 33\n", + "Kisii 34\n", + "Murang'a 35\n", + "Migori 36\n", + "Kiambu 37\n", + "Machakos 38\n", + "Kajiado 39\n", + "Nairobi 40\n", + "Makueni 41\n", + "Lamu 42\n", + "Kilifi 43\n", + "Taita Taveta 44\n", + "Kwale 45\n", + "Mombasa 46\n" + ] + }, + { + "data": { + "text/html": [ + "
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hex_idgeometrysum_pop_2020adm_idadm_name
0866a4a407ffffffPOINT (35.80117 4.9048)554.6550210Turkana
1866a4a417ffffffPOINT (35.75483 4.8701)207.9770460Turkana
2866a4a41fffffffPOINT (35.81106 4.84803)637.2188170Turkana
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4866a4a437ffffffPOINT (35.74495 4.92687)112.8057800Turkana
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" + ], + "text/plain": [ + " hex_id geometry sum_pop_2020 adm_id adm_name\n", + "0 866a4a407ffffff POINT (35.80117 4.9048) 554.655021 0 Turkana\n", + "1 866a4a417ffffff POINT (35.75483 4.8701) 207.977046 0 Turkana\n", + "2 866a4a41fffffff POINT (35.81106 4.84803) 637.218817 0 Turkana\n", + "3 866a4a427ffffff POINT (35.79128 4.96154) 948.876730 0 Turkana\n", + "4 866a4a437ffffff POINT (35.74495 4.92687) 112.805780 0 Turkana" + ] + }, + "execution_count": 4, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "ISO3 = \"KEN\"\n", + "ADM = \"ADM1\"\n", + "adm_boundaries = fetch_admin_boundaries(ISO3, ADM)\n", + "geojson_str = adm_boundaries.to_json()\n", + "adm_geojson = json.loads(geojson_str)\n", + "adm_features = adm_geojson[\"features\"]\n", + "\n", + "gdfs = []\n", + "for i, feature in enumerate(adm_features):\n", + " df = fetch_summary_data(feature)\n", + " if not df.empty:\n", + " gdfs.append(gpd.GeoDataFrame(df, geometry=\"geometry\", crs=\"EPSG:4326\"))\n", + " print(feature[\"properties\"][\"shapeName\"], i)\n", + "\n", + "# Concatenate all GeoDataFrames into a single GeoDataFrame\n", + "gdf = pd.concat(gdfs, ignore_index=True)\n", + "\n", + "# Display the GeoDataFrame structure\n", + "gdf.head()" + ] + }, + { + "cell_type": "code", + "execution_count": 5, + "metadata": {}, + "outputs": [], + "source": [ + "# Define custom breaks and corresponding RGBA colors for visualization\n", + "breaks = [\n", + " gdf[\"sum_pop_2020\"].min(),\n", + " 1,\n", + " 1000,\n", + " 10000,\n", + " 50000,\n", + " 100000,\n", + " 200000,\n", + " gdf[\"sum_pop_2020\"].max(),\n", + "]\n", + "colors = np.array(\n", + " [\n", + " [211, 211, 211, 255], # Light gray for 0\n", + " [255, 255, 0, 255], # Yellow for 1-1000\n", + " [255, 165, 0, 255], # Orange for 1000-10000\n", + " [255, 0, 0, 255], # Red for 10000-50000\n", + " [128, 0, 128, 255], # Purple for 50000-100000\n", + " [0, 0, 255, 255], # Blue for 100000-200000\n", + " [0, 0, 139, 255], # Dark blue for 200000+\n", + " ]\n", + ")\n", + "\n", + "\n", + "def assign_color(value: float) -> list:\n", + " \"\"\"Assign colors based on population value.\"\"\"\n", + " for i in range(len(breaks) - 1):\n", + " if breaks[i] <= value < breaks[i + 1]:\n", + " return colors[i].tolist() # Convert to list\n", + " return colors[-1].tolist() # In case value exceeds all breaks" + ] + }, + { + "cell_type": "code", + "execution_count": 6, + "metadata": {}, + "outputs": [ + { + "data": { + "application/vnd.jupyter.widget-view+json": { + "model_id": "fcab8e1932cd43d49f23111a0f39c97b", + "version_major": 2, + "version_minor": 1 + }, + "text/plain": [ + "Map(layers=[ScatterplotLayer(get_fill_color=\n", + "[\n", + " [\n", + " 2…" + ] + }, + "execution_count": 6, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "# Map sum_pop_2020 values to colors using the custom function\n", + "gdf[\"color\"] = gdf[\"sum_pop_2020\"].apply(assign_color)\n", + "\n", + "# Flatten the color list into a 2D array for ScatterplotLayer\n", + "color_list = np.array(gdf[\"color\"].tolist(), dtype=np.uint8)\n", + "\n", + "# Create the scatterplot layer with the assigned colors\n", + "layer = ScatterplotLayer.from_geopandas(gdf, get_radius=2000, get_fill_color=color_list)\n", + "\n", + "# Create the map with the scatterplot layer\n", + "m = Map(layer)\n", + "m" + ] + }, + { + "cell_type": "code", + "execution_count": 7, + "metadata": {}, + "outputs": [], + "source": [ + "def fetch_aggregated_population(row):\n", + " request_payload = {\n", + " \"aoi\": {\n", + " \"type\": \"Feature\",\n", + " \"geometry\": row.geometry.__geo_interface__,\n", + " \"properties\": {},\n", + " },\n", + " \"spatial_join_method\": \"touches\",\n", + " \"fields\": [\"sum_pop_2020\"],\n", + " \"aggregation_type\": \"sum\",\n", + " }\n", + "\n", + " response = requests.post(AGGREGATION_ENDPOINT, json=request_payload)\n", + "\n", + " if response.status_code == 200:\n", + " result = response.json()\n", + " return result.get(\"sum_pop_2020\", 0)\n", + " else:\n", + " print(response.content)\n", + " return 0" + ] + }, + { + "cell_type": "code", + "execution_count": 8, + "metadata": {}, + "outputs": [ + { + "data": { + "text/html": [ + "
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geometryshapeNameshapeISOshapeIDshapeGroupshapeTypesum_pop_2020
0POLYGON ((36.05061 4.45622, 35.94395 4.54803, ...TurkanaKE-4332016919B72266624462344KENADM11.374176e+06
1POLYGON ((36.60089 2.40574, 36.60138 2.4053, 3...MarsabitKE-2532016919B63496705134089KENADM14.460342e+05
2POLYGON ((40.99195 2.17919, 40.99245 2.25188, ...ManderaKE-2432016919B2031803566233KENADM12.815273e+06
3POLYGON ((38.96255 2.09739, 38.96272 2.09718, ...WajirKE-4632016919B89873713911655KENADM11.930365e+06
4POLYGON ((34.94278 2.45547, 34.93892 2.45551, ...West PokotKE-4732016919B96045830258165KENADM19.429576e+05
\n", + "
" + ], + "text/plain": [ + " geometry shapeName shapeISO \\\n", + "0 POLYGON ((36.05061 4.45622, 35.94395 4.54803, ... Turkana KE-43 \n", + "1 POLYGON ((36.60089 2.40574, 36.60138 2.4053, 3... Marsabit KE-25 \n", + "2 POLYGON ((40.99195 2.17919, 40.99245 2.25188, ... Mandera KE-24 \n", + "3 POLYGON ((38.96255 2.09739, 38.96272 2.09718, ... Wajir KE-46 \n", + "4 POLYGON ((34.94278 2.45547, 34.93892 2.45551, ... West Pokot KE-47 \n", + "\n", + " shapeID shapeGroup shapeType sum_pop_2020 \n", + "0 32016919B72266624462344 KEN ADM1 1.374176e+06 \n", + "1 32016919B63496705134089 KEN ADM1 4.460342e+05 \n", + "2 32016919B2031803566233 KEN ADM1 2.815273e+06 \n", + "3 32016919B89873713911655 KEN ADM1 1.930365e+06 \n", + "4 32016919B96045830258165 KEN ADM1 9.429576e+05 " + ] + }, + "execution_count": 8, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "adm_gdf = gpd.GeoDataFrame.from_features(adm_features)\n", + "adm_gdf[\"sum_pop_2020\"] = adm_gdf.apply(fetch_aggregated_population, axis=1)\n", + "adm_gdf.head()" + ] + }, + { + "cell_type": "code", + "execution_count": 9, + "metadata": {}, + "outputs": [], + "source": [ + "breaks = [\n", + " adm_gdf[\"sum_pop_2020\"].min(),\n", + " 10_000,\n", + " 100_000,\n", + " 1_000_000,\n", + " 5_000_000,\n", + " 10_000_000,\n", + " 20_000_000,\n", + " gdf[\"sum_pop_2020\"].max(),\n", + "]\n", + "colors = np.array(\n", + " [\n", + " [211, 211, 211, 125], # Light gray with transparency for 0 - 10,000\n", + " [255, 255, 0, 125], # Yellow with transparency for 10,000 - 100,000\n", + " [255, 165, 0, 125], # Orange with transparency for 100,000 - 1,000,000\n", + " [255, 0, 0, 125], # Red with transparency for 1,000,000 - 5,000,000\n", + " [128, 0, 128, 125], # Purple with transparency for 5,000,000 - 10,000,000\n", + " [0, 0, 255, 125], # Blue with transparency for 10,000,000 - 20,000,000\n", + " [0, 0, 139, 125], # Dark blue with transparency for 20,000,000 - max\n", + " ]\n", + ")\n", + "\n", + "\n", + "def assign_color(value: float) -> list:\n", + " \"\"\"Assign colors based on population value, including transparency.\"\"\"\n", + " for i in range(len(breaks) - 1):\n", + " if breaks[i] <= value < breaks[i + 1]:\n", + " return colors[i].tolist() # Convert to list\n", + " return colors[-1].tolist()" + ] + }, + { + "cell_type": "code", + "execution_count": 10, + "metadata": {}, + "outputs": [ + { + "name": "stderr", + "output_type": "stream", + "text": [ + "/opt/anaconda3/envs/spacestats/lib/python3.11/site-packages/lonboard/_geoarrow/ops/reproject.py:23: UserWarning: No CRS exists on data. If no data is shown on the map, double check that your CRS is WGS84.\n", + " warn(\n" + ] + }, + { + "data": { + "application/vnd.jupyter.widget-view+json": { + "model_id": "94fb588e3bdc4ba99ccd323f7aec0889", + "version_major": 2, + "version_minor": 1 + }, + "text/plain": [ + "Map(layers=[PolygonLayer(get_fill_color=\n", + "[\n", + " [\n", + " 255,\n", + "…" + ] + }, + "execution_count": 10, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "# Assign colors to each row in gdf based on sum_pop_2020\n", + "adm_gdf[\"color\"] = adm_gdf[\"sum_pop_2020\"].apply(assign_color)\n", + "\n", + "# Convert the list of colors into a 2D numpy array of uint8\n", + "color_array = np.array(adm_gdf[\"color\"].tolist(), dtype=np.uint8)\n", + "\n", + "# Create the polygon layer using PolygonLayer, referencing the color_array\n", + "layer = PolygonLayer.from_geopandas(\n", + " adm_gdf,\n", + " get_fill_color=color_array, # Pass the 2D numpy array for the colors\n", + " get_line_color=[0, 0, 0, 255], # Optional: Black outline\n", + " line_width_min_pixels=1,\n", + ")\n", + "\n", + "# Create the map with the polygon layer\n", + "m = Map(layer)\n", + "m" + ] + } + ], + "metadata": { + "kernelspec": { + "display_name": "spacestats", + "language": "python", + "name": "python3" + }, + "language_info": { + "codemirror_mode": { + "name": "ipython", + "version": 3 + }, + "file_extension": ".py", + "mimetype": "text/x-python", + "name": "python", + "nbconvert_exporter": "python", + "pygments_lexer": "ipython3", + "version": "3.11.9" + } + }, + "nbformat": 4, + "nbformat_minor": 2 +} diff --git a/notebooks/user-docs/space2stats_api_demo.ipynb b/notebooks/user-docs/space2stats_api_demo.ipynb index bd8e6295..e81c875b 100644 --- a/notebooks/user-docs/space2stats_api_demo.ipynb +++ b/notebooks/user-docs/space2stats_api_demo.ipynb @@ -11,35 +11,35 @@ }, { "cell_type": "code", - "execution_count": 1, + "execution_count": 9, "metadata": {}, "outputs": [], "source": [ "from typing import Dict\n", "\n", + "import geopandas as gpd\n", "import numpy as np\n", - "import requests\n", "import pandas as pd\n", - "import geopandas as gpd\n", - "from shapely.geometry import shape\n", + "import requests\n", + "from geojson_pydantic import Feature, Polygon\n", "from lonboard import Map, ScatterplotLayer\n", - "from geojson_pydantic import Feature, Polygon" + "from shapely import from_geojson" ] }, { "cell_type": "code", - "execution_count": 2, + "execution_count": 10, "metadata": {}, "outputs": [], "source": [ - "BASE_URL = \"https://space2stats.ds.io\"\n", + "BASE_URL = \"http://localhost:8000\"\n", "FIELDS_ENDPOINT = f\"{BASE_URL}/fields\"\n", "SUMMARY_ENDPOINT = f\"{BASE_URL}/summary\"" ] }, { "cell_type": "code", - "execution_count": 3, + "execution_count": 11, "metadata": {}, "outputs": [ { @@ -61,7 +61,7 @@ }, { "cell_type": "code", - "execution_count": 4, + "execution_count": 12, "metadata": {}, "outputs": [], "source": [ @@ -78,32 +78,29 @@ " [33.78593974945852, -4.725410543134203],\n", " [41.94362577283266, -4.725410543134203],\n", " [41.94362577283266, 5.115816884114494],\n", - " [33.78593974945852, 5.115816884114494]\n", + " [33.78593974945852, 5.115816884114494],\n", " ]\n", - " ]\n", + " ],\n", " },\n", - " \"properties\": {\n", - " \"name\": \"Updated AOI\"\n", - " }\n", + " \"properties\": {\"name\": \"Updated AOI\"},\n", "}\n", - " \n", - " \n", + "\n", "\n", "feat = AOIModel(**aoi)" ] }, { "cell_type": "code", - "execution_count": 5, + "execution_count": 13, "metadata": {}, "outputs": [], "source": [ "# Define the Request Payload\n", "request_payload = {\n", " \"aoi\": aoi,\n", - " \"spatial_join_method\": \"centroid\",\n", - " \"fields\": [\"sum_pop_2020\"], \n", - " \"geometry\": \"point\"\n", + " \"spatial_join_method\": \"touches\",\n", + " \"fields\": [\"sum_pop_2020\"],\n", + " \"geometry\": \"point\",\n", "}\n", "\n", "# Get Summary Data\n", @@ -117,7 +114,7 @@ }, { "cell_type": "code", - "execution_count": 6, + "execution_count": 14, "metadata": {}, "outputs": [ { @@ -149,33 +146,175 @@ " \n", " \n", " 0\n", + " 866a4a00fffffff\n", + " {\"type\":\"Point\",\"coordinates\":[36.180976490229...\n", + " 476.538185\n", + " \n", + " \n", + " 1\n", " 866a4a017ffffff\n", - 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"[25806 rows x 3 columns]" + "[26189 rows x 3 columns]" ] }, - "execution_count": 6, + "execution_count": 15, "metadata": {}, "output_type": "execute_result" } ], "source": [ - "df['geometry'] = df['geometry'].apply(lambda geom: shape(geom))\n", - "gdf = gpd.GeoDataFrame(df, geometry='geometry', crs='EPSG:4326')\n", + "df[\"geometry\"] = df[\"geometry\"].apply(lambda geom: from_geojson(geom))\n", + "gdf = gpd.GeoDataFrame(df, geometry=\"geometry\", crs=\"EPSG:4326\")\n", "gdf" ] }, { "cell_type": "code", - "execution_count": 7, + "execution_count": 16, "metadata": {}, "outputs": [ { "data": { "application/vnd.jupyter.widget-view+json": { - "model_id": "fc98ebd574fd4a989e4040baf6218300", + "model_id": "897d8bcee7ee4431893b3ba08ee67363", "version_major": 2, - "version_minor": 0 + "version_minor": 1 }, "text/plain": [ - "Map(layers=[ScatterplotLayer(get_fill_color=\n", + "Map(layers=[ScatterplotLayer(get_fill_color=\n", "[\n", " [\n", " 2…" ] }, - "execution_count": 7, + "execution_count": 16, "metadata": {}, "output_type": "execute_result" } ], "source": [ "# Define custom breaks and corresponding RGBA colors\n", - "breaks = [0, 1, 1000, 10000, 50000, 100000, 200000, gdf[\"sum_pop_2020\"].max()]\n", - "colors = np.array([\n", - " [211, 211, 211, 255], # Light gray for 0\n", - " [255, 255, 0, 255], # Yellow for 1-1000\n", - " [255, 165, 0, 255], # Orange for 1000-10000\n", - " [255, 0, 0, 255], # Red for 10000-50000\n", - " [128, 0, 128, 255], # Purple for 50000-100000\n", - " [0, 0, 255, 255], # Blue for 100000-200000\n", - " [0, 0, 139, 255], # Dark blue for 200000+\n", - "])\n", + "breaks = [\n", + " gdf[\"sum_pop_2020\"].min(),\n", + " 1,\n", + " 1000,\n", + " 10000,\n", + " 50000,\n", + " 100000,\n", + " 200000,\n", + " gdf[\"sum_pop_2020\"].max(),\n", + "]\n", + "colors = np.array(\n", + " [\n", + " [211, 211, 211, 255], # Light gray for 0\n", + " [255, 255, 0, 255], # Yellow for 1-1000\n", + " [255, 165, 0, 255], # Orange for 1000-10000\n", + " [255, 0, 0, 255], # Red for 10000-50000\n", + " [128, 0, 128, 255], # Purple for 50000-100000\n", + " [0, 0, 255, 255], # Blue for 100000-200000\n", + " [0, 0, 139, 255], # Dark blue for 200000+\n", + " ]\n", + ")\n", "\n", "# Function to assign colors based on custom bins\n", + "\n", + "\n", "def assign_color(value, breaks, colors):\n", " for i in range(len(breaks) - 1):\n", " if breaks[i] <= value < breaks[i + 1]:\n", " return colors[i]\n", " return colors[-1] # In case value exceeds all breaks\n", "\n", + "\n", "# Map sum_pop_2020 values to colors using the custom function\n", - "gdf['color'] = gdf[\"sum_pop_2020\"].apply(lambda x: assign_color(x, breaks, colors))\n", - "colors = np.uint8(gdf['color'].tolist())\n", + "gdf[\"color\"] = gdf[\"sum_pop_2020\"].apply(lambda x: assign_color(x, breaks, colors))\n", + "colors = np.uint8(gdf[\"color\"].tolist())\n", "\n", "# Create the scatterplot layer with the assigned colors\n", "layer = ScatterplotLayer.from_geopandas(gdf, get_radius=2000, get_fill_color=colors)\n", @@ -304,7 +457,7 @@ ], "metadata": { "kernelspec": { - "display_name": "Python 3 (ipykernel)", + "display_name": "spacestats", "language": "python", "name": "python3" }, @@ -318,7 +471,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.12.4" + "version": "3.11.9" } }, "nbformat": 4, diff --git a/notebooks/user-docs/space2stats_py_package_demo.ipynb b/notebooks/user-docs/space2stats_py_package_demo.ipynb index 0e9abfd8..dce9e9c8 100644 --- a/notebooks/user-docs/space2stats_py_package_demo.ipynb +++ b/notebooks/user-docs/space2stats_py_package_demo.ipynb @@ -9,30 +9,19 @@ }, { "cell_type": "code", - "execution_count": 39, - "metadata": {}, - "outputs": [], - "source": [ - "%%capture\n", - "%pip install \"git+https://github.com/worldbank/DECAT_Space2Stats.git#subdirectory=space2stats_api/src\"" - ] - }, - { - "cell_type": "code", - "execution_count": 40, + "execution_count": 1, "metadata": {}, "outputs": [], "source": [ "from typing import Dict\n", "\n", + "import geopandas as gpd\n", "import numpy as np\n", - "from dotenv import load_dotenv\n", "import pandas as pd\n", - "import geopandas as gpd\n", - "from shapely.geometry import shape\n", - "from lonboard import Map, ScatterplotLayer\n", + "from dotenv import load_dotenv\n", "from geojson_pydantic import Feature, Polygon\n", - "\n", + "from lonboard import Map, ScatterplotLayer\n", + "from shapely import from_geojson\n", "from space2stats import StatsTable" ] }, @@ -55,7 +44,7 @@ }, { "cell_type": "code", - "execution_count": 45, + "execution_count": 2, "metadata": {}, "outputs": [ { @@ -64,7 +53,7 @@ "True" ] }, - "execution_count": 45, + "execution_count": 2, "metadata": {}, "output_type": "execute_result" } @@ -75,7 +64,7 @@ }, { "cell_type": "code", - "execution_count": 42, + "execution_count": 3, "metadata": {}, "outputs": [ { @@ -123,7 +112,7 @@ " 'sum_pop_f_2020']" ] }, - "execution_count": 42, + "execution_count": 3, "metadata": {}, "output_type": "execute_result" } @@ -137,7 +126,7 @@ }, { "cell_type": "code", - "execution_count": 43, + "execution_count": 4, "metadata": {}, "outputs": [], "source": [ @@ -154,23 +143,120 @@ " [33.78593974945852, -4.725410543134203],\n", " [41.94362577283266, -4.725410543134203],\n", " [41.94362577283266, 5.115816884114494],\n", - " [33.78593974945852, 5.115816884114494]\n", + " [33.78593974945852, 5.115816884114494],\n", " ]\n", - " ]\n", + " ],\n", " },\n", - " \"properties\": {\n", - " \"name\": \"Updated AOI\"\n", - " }\n", + " \"properties\": {\"name\": \"Updated AOI\"},\n", "}\n", - " \n", - " \n", + "\n", "\n", "feat = AOIModel(**aoi)" ] }, { "cell_type": "code", - "execution_count": 44, + "execution_count": 5, + "metadata": {}, + "outputs": [ + { + "data": { + "text/html": [ + "
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hex_idgeometrysum_pop_2020
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" + ], + "text/plain": [ + " hex_id geometry \\\n", + "0 866a4a00fffffff {\"type\":\"Point\",\"coordinates\":[36.180976490229... \n", + "1 866a4a017ffffff {\"type\":\"Point\",\"coordinates\":[36.078694056627... \n", + "2 866a4a01fffffff {\"type\":\"Point\",\"coordinates\":[36.134817927246... \n", + "3 866a4a047ffffff {\"type\":\"Point\",\"coordinates\":[36.283201202805... \n", + "4 866a4a04fffffff {\"type\":\"Point\",\"coordinates\":[36.339286712001... \n", + "\n", + " sum_pop_2020 \n", + "0 476.538185 \n", + "1 676.912804 \n", + "2 347.182722 \n", + "3 380.988678 \n", + "4 285.943490 " + ] + }, + "execution_count": 5, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "with StatsTable.connect() as stats_table:\n", + " data = stats_table.summaries(\n", + " aoi=feat,\n", + " spatial_join_method=\"touches\",\n", + " fields=[\"sum_pop_2020\"],\n", + " geometry=\"point\",\n", + " )\n", + " df = pd.DataFrame(data)\n", + "\n", + "df.head()" + ] + }, + { + "cell_type": "code", + "execution_count": 7, "metadata": {}, "outputs": [ { @@ -220,8 +306,32 @@ " \n", " \n", " 0\n", + " 866a4a00fffffff\n", + " {\"type\":\"Point\",\"coordinates\":[36.180976490229...\n", + " 476.538185\n", + " 6157253\n", + " 6.070529\n", + " 32.703007\n", + " 27.829216\n", + " 22.437599\n", + " 23.757664\n", + " 20.835018\n", + " ...\n", + " 4.712565\n", + " 5.091442\n", + " 31.273582\n", + " 2.852396\n", + " 2.619311\n", + " 1.270194\n", + " 0.888411\n", + " 0.582864\n", + " 234.480238\n", + " 242.057947\n", + " \n", + " \n", + " 1\n", " 866a4a017ffffff\n", - " {'type': 'Point', 'coordinates': (38.494790325...\n", + " {\"type\":\"Point\",\"coordinates\":[36.078694056627...\n", " 676.912804\n", " 6157254\n", " 8.924362\n", @@ -243,9 +353,9 @@ " 340.830624\n", " \n", " \n", - " 1\n", + " 2\n", " 866a4a01fffffff\n", - " {'type': 'Point', 'coordinates': (40.094390450...\n", + " {\"type\":\"Point\",\"coordinates\":[36.134817927246...\n", " 347.182722\n", " 6157255\n", " 4.515680\n", @@ -267,9 +377,33 @@ " 175.423497\n", " \n", " \n", - " 2\n", + " 3\n", + " 866a4a047ffffff\n", + " {\"type\":\"Point\",\"coordinates\":[36.283201202805...\n", + " 380.988678\n", + " 6157259\n", + " 4.853342\n", + " 26.145809\n", + " 22.249249\n", + " 17.938692\n", + " 18.994072\n", + " 16.657440\n", + " ...\n", + " 3.767660\n", + " 4.070570\n", + " 25.002991\n", + " 2.280469\n", + " 2.094120\n", + " 1.015510\n", + " 0.710278\n", + " 0.465995\n", + " 187.465175\n", + " 193.523504\n", + " \n", + " \n", + " 4\n", " 866a4a04fffffff\n", - " {'type': 'Point', 'coordinates': (34.462341228...\n", + " {\"type\":\"Point\",\"coordinates\":[36.339286712001...\n", " 285.943490\n", " 6157260\n", " 3.642580\n", @@ -291,120 +425,267 @@ " 145.245222\n", " \n", " \n", - " 3\n", - " 866a4a057ffffff\n", - " {'type': 'Point', 'coordinates': (41.436122880...\n", - " 279.463912\n", - " 6157261\n", - " 3.560037\n", - " 19.178549\n", - " 16.320332\n", - " 13.158442\n", - " 13.932587\n", - " 12.218613\n", - " ...\n", - " 2.763665\n", - " 2.985856\n", - " 18.340267\n", - " 1.672776\n", - " 1.536084\n", - " 0.744900\n", - " 0.521005\n", - " 0.341818\n", - " 137.509998\n", - " 141.953914\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", + " ...\n", " \n", " \n", - " 4\n", - " 866a4a05fffffff\n", - " {'type': 'Point', 'coordinates': (41.251660148...\n", - " 235.258474\n", - " 6157262\n", - " 2.996913\n", - " 16.144897\n", - " 13.738791\n", - " 11.077046\n", - " 11.728739\n", - " 10.285879\n", - " ...\n", - " 2.326510\n", - " 2.513555\n", - " 15.439214\n", - " 1.408177\n", - " 1.293108\n", - " 0.627072\n", - " 0.438593\n", - " 0.287750\n", - " 115.758746\n", - " 119.499727\n", + " 26184\n", + " 86969ed97ffffff\n", + " {\"type\":\"Point\",\"coordinates\":[34.808746693532...\n", + " 196.448391\n", + " 8710025\n", + " 4.108127\n", + " 14.176966\n", + " 11.835453\n", + " 15.015658\n", + " 8.398741\n", + " 6.313566\n", + " ...\n", + " 1.962373\n", + " 1.294143\n", + " 16.514441\n", + " 1.084920\n", + " 0.696495\n", + " 0.607390\n", + " 0.353109\n", + " 0.295762\n", + " 96.252689\n", + " 100.195702\n", + " \n", + " \n", + " 26185\n", + " 86969ed9fffffff\n", + " {\"type\":\"Point\",\"coordinates\":[34.750412026186...\n", + " 296.740893\n", + " 8710026\n", + " 6.205442\n", + " 21.414711\n", + " 17.877789\n", + " 22.681580\n", + " 12.686538\n", + " 9.536821\n", + " ...\n", + " 2.964221\n", + " 1.954840\n", + " 24.945534\n", + " 1.638802\n", + " 1.052075\n", + " 0.917481\n", + " 0.533381\n", + " 0.446756\n", + " 145.392433\n", + " 151.348460\n", + " \n", + " \n", + " 26186\n", + " 86969eda7ffffff\n", + " {\"type\":\"Point\",\"coordinates\":[34.770464787099...\n", + " 154.818453\n", + " 8710027\n", + " 3.237562\n", + " 11.172684\n", + " 9.327369\n", + " 11.833648\n", + " 6.618940\n", + " 4.975640\n", + " ...\n", + " 1.546521\n", + " 1.019898\n", + " 13.014819\n", + " 0.855011\n", + " 0.548899\n", + " 0.478677\n", + " 0.278281\n", + " 0.233086\n", + " 75.855508\n", + " 78.962945\n", + " \n", + " \n", + " 26187\n", + " 86969edafffffff\n", + " {\"type\":\"Point\",\"coordinates\":[34.712102323801...\n", + " 157.875350\n", + " 8710028\n", + " 3.301488\n", + " 11.393290\n", + " 9.511538\n", + " 12.067303\n", + " 6.749631\n", + " 5.073884\n", + " ...\n", + " 1.577057\n", + " 1.040035\n", + " 13.271797\n", + " 0.871894\n", + " 0.559737\n", + " 0.488128\n", + " 0.283775\n", + " 0.237688\n", + " 77.353279\n", + " 80.522071\n", + " \n", + " \n", + " 26188\n", + " 86969edb7ffffff\n", + " {\"type\":\"Point\",\"coordinates\":[34.818784182799...\n", + " 236.127331\n", + " 8710029\n", + " 4.937892\n", + " 17.040451\n", + " 14.225995\n", + " 18.048544\n", + " 10.095131\n", + " 7.588790\n", + " ...\n", + " 2.358737\n", + " 1.555536\n", + " 19.850052\n", + " 1.304053\n", + " 0.837174\n", + " 0.730072\n", + " 0.424430\n", + " 0.355500\n", + " 115.693951\n", + " 120.433380\n", " \n", " \n", "\n", - "

5 rows × 42 columns

\n", + "

26189 rows × 42 columns

\n", "" ], "text/plain": [ - " hex_id geometry \\\n", - "0 866a4a017ffffff {'type': 'Point', 'coordinates': (38.494790325... \n", - "1 866a4a01fffffff {'type': 'Point', 'coordinates': (40.094390450... \n", - "2 866a4a04fffffff {'type': 'Point', 'coordinates': (34.462341228... \n", - "3 866a4a057ffffff {'type': 'Point', 'coordinates': (41.436122880... \n", - "4 866a4a05fffffff {'type': 'Point', 'coordinates': (41.251660148... \n", + " hex_id geometry \\\n", + "0 866a4a00fffffff {\"type\":\"Point\",\"coordinates\":[36.180976490229... \n", + "1 866a4a017ffffff {\"type\":\"Point\",\"coordinates\":[36.078694056627... \n", + "2 866a4a01fffffff {\"type\":\"Point\",\"coordinates\":[36.134817927246... \n", + "3 866a4a047ffffff {\"type\":\"Point\",\"coordinates\":[36.283201202805... \n", + "4 866a4a04fffffff {\"type\":\"Point\",\"coordinates\":[36.339286712001... \n", + "... ... ... \n", + "26184 86969ed97ffffff {\"type\":\"Point\",\"coordinates\":[34.808746693532... \n", + "26185 86969ed9fffffff {\"type\":\"Point\",\"coordinates\":[34.750412026186... \n", + "26186 86969eda7ffffff {\"type\":\"Point\",\"coordinates\":[34.770464787099... \n", + "26187 86969edafffffff {\"type\":\"Point\",\"coordinates\":[34.712102323801... \n", + "26188 86969edb7ffffff {\"type\":\"Point\",\"coordinates\":[34.818784182799... \n", + "\n", + " sum_pop_2020 ogc_fid sum_pop_f_0_2020 sum_pop_f_10_2020 \\\n", + "0 476.538185 6157253 6.070529 32.703007 \n", + "1 676.912804 6157254 8.924362 49.524105 \n", + "2 347.182722 6157255 4.515680 24.773327 \n", + "3 380.988678 6157259 4.853342 26.145809 \n", + "4 285.943490 6157260 3.642580 19.623219 \n", + "... ... ... ... ... \n", + "26184 196.448391 8710025 4.108127 14.176966 \n", + "26185 296.740893 8710026 6.205442 21.414711 \n", + "26186 154.818453 8710027 3.237562 11.172684 \n", + "26187 157.875350 8710028 3.301488 11.393290 \n", + "26188 236.127331 8710029 4.937892 17.040451 \n", "\n", - " sum_pop_2020 ogc_fid sum_pop_f_0_2020 sum_pop_f_10_2020 \\\n", - "0 676.912804 6157254 8.924362 49.524105 \n", - "1 347.182722 6157255 4.515680 24.773327 \n", - "2 285.943490 6157260 3.642580 19.623219 \n", - "3 279.463912 6157261 3.560037 19.178549 \n", - "4 235.258474 6157262 2.996913 16.144897 \n", + " sum_pop_f_15_2020 sum_pop_f_1_2020 sum_pop_f_20_2020 \\\n", + "0 27.829216 22.437599 23.757664 \n", + "1 36.898296 32.985901 28.963400 \n", + "2 19.462585 16.690670 15.832314 \n", + "3 22.249249 17.938692 18.994072 \n", + "4 16.698730 13.463530 14.255625 \n", + "... ... ... ... \n", + "26184 11.835453 15.015658 8.398741 \n", + "26185 17.877789 22.681580 12.686538 \n", + "26186 9.327369 11.833648 6.618940 \n", + "26187 9.511538 12.067303 6.749631 \n", + "26188 14.225995 18.048544 10.095131 \n", "\n", - " sum_pop_f_15_2020 sum_pop_f_1_2020 sum_pop_f_20_2020 sum_pop_f_25_2020 \\\n", - "0 36.898296 32.985901 28.963400 33.645473 \n", - "1 19.462585 16.690670 15.832314 16.429201 \n", - "2 16.698730 13.463530 14.255625 12.501910 \n", - "3 16.320332 13.158442 13.932587 12.218613 \n", - "4 13.738791 11.077046 11.728739 10.285879 \n", + " sum_pop_f_25_2020 ... sum_pop_m_50_2020 sum_pop_m_55_2020 \\\n", + "0 20.835018 ... 4.712565 5.091442 \n", + "1 33.645473 ... 6.732327 4.131749 \n", + "2 16.429201 ... 3.445144 2.752507 \n", + "3 16.657440 ... 3.767660 4.070570 \n", + "4 12.501910 ... 2.827743 3.055085 \n", + "... ... ... ... ... \n", + "26184 6.313566 ... 1.962373 1.294143 \n", + "26185 9.536821 ... 2.964221 1.954840 \n", + "26186 4.975640 ... 1.546521 1.019898 \n", + "26187 5.073884 ... 1.577057 1.040035 \n", + "26188 7.588790 ... 2.358737 1.555536 \n", "\n", - " ... sum_pop_m_50_2020 sum_pop_m_55_2020 sum_pop_m_5_2020 \\\n", - "0 ... 6.732327 4.131749 53.380043 \n", - "1 ... 3.445144 2.752507 25.548544 \n", - "2 ... 2.827743 3.055085 18.765499 \n", - "3 ... 2.763665 2.985856 18.340267 \n", - "4 ... 2.326510 2.513555 15.439214 \n", + " sum_pop_m_5_2020 sum_pop_m_60_2020 sum_pop_m_65_2020 \\\n", + "0 31.273582 2.852396 2.619311 \n", + "1 53.380043 3.240541 2.475817 \n", + "2 25.548544 1.827761 1.524122 \n", + "3 25.002991 2.280469 2.094120 \n", + "4 18.765499 1.711561 1.571700 \n", + "... ... ... ... \n", + "26184 16.514441 1.084920 0.696495 \n", + "26185 24.945534 1.638802 1.052075 \n", + "26186 13.014819 0.855011 0.548899 \n", + "26187 13.271797 0.871894 0.559737 \n", + "26188 19.850052 1.304053 0.837174 \n", "\n", - " sum_pop_m_60_2020 sum_pop_m_65_2020 sum_pop_m_70_2020 sum_pop_m_75_2020 \\\n", - "0 3.240541 2.475817 0.702667 0.399492 \n", - "1 1.827761 1.524122 0.585427 0.381080 \n", - "2 1.711561 1.571700 0.762171 0.533085 \n", - "3 1.672776 1.536084 0.744900 0.521005 \n", - "4 1.408177 1.293108 0.627072 0.438593 \n", + " sum_pop_m_70_2020 sum_pop_m_75_2020 sum_pop_m_80_2020 \\\n", + "0 1.270194 0.888411 0.582864 \n", + "1 0.702667 0.399492 0.129285 \n", + "2 0.585427 0.381080 0.209030 \n", + "3 1.015510 0.710278 0.465995 \n", + "4 0.762171 0.533085 0.349744 \n", + "... ... ... ... \n", + "26184 0.607390 0.353109 0.295762 \n", + "26185 0.917481 0.533381 0.446756 \n", + "26186 0.478677 0.278281 0.233086 \n", + "26187 0.488128 0.283775 0.237688 \n", + "26188 0.730072 0.424430 0.355500 \n", "\n", - " sum_pop_m_80_2020 sum_pop_m_2020 sum_pop_f_2020 \n", - "0 0.129285 336.082180 340.830624 \n", - "1 0.209030 171.759225 175.423497 \n", - "2 0.349744 140.698267 145.245222 \n", - "3 0.341818 137.509998 141.953914 \n", - "4 0.287750 115.758746 119.499727 \n", + " sum_pop_m_2020 sum_pop_f_2020 \n", + "0 234.480238 242.057947 \n", + "1 336.082180 340.830624 \n", + "2 171.759225 175.423497 \n", + "3 187.465175 193.523504 \n", + "4 140.698267 145.245222 \n", + "... ... ... \n", + "26184 96.252689 100.195702 \n", + "26185 145.392433 151.348460 \n", + "26186 75.855508 78.962945 \n", + "26187 77.353279 80.522071 \n", + "26188 115.693951 120.433380 \n", "\n", - "[5 rows x 42 columns]" + "[26189 rows x 42 columns]" ] }, - "execution_count": 44, + "execution_count": 7, "metadata": {}, "output_type": "execute_result" } ], "source": [ "with StatsTable.connect() as stats_table:\n", - " data = stats_table.summaries(aoi=feat, spatial_join_method=\"centroid\", fields=fields, geometry=\"point\")\n", + " data = stats_table.summaries(\n", + " aoi=feat, spatial_join_method=\"touches\", fields=fields, geometry=\"point\"\n", + " )\n", " df = pd.DataFrame(data)\n", "\n", - "df.head()" + "df" ] }, { "cell_type": "code", - "execution_count": 26, + "execution_count": 8, "metadata": {}, "outputs": [ { @@ -454,8 +735,32 @@ " \n", " \n", " 0\n", + " 866a4a00fffffff\n", + " POINT (36.18098 5.12501)\n", + " 476.538185\n", + " 6157253\n", + " 6.070529\n", + " 32.703007\n", + " 27.829216\n", + " 22.437599\n", + " 23.757664\n", + " 20.835018\n", + " ...\n", + " 4.712565\n", + " 5.091442\n", + " 31.273582\n", + " 2.852396\n", + " 2.619311\n", + " 1.270194\n", + " 0.888411\n", + " 0.582864\n", + " 234.480238\n", + " 242.057947\n", + " \n", + " \n", + " 1\n", " 866a4a017ffffff\n", - " POINT (38.49479 -0.20685)\n", + " POINT (36.07869 5.11252)\n", " 676.912804\n", " 6157254\n", " 8.924362\n", @@ -477,9 +782,9 @@ " 340.830624\n", " \n", " \n", - " 1\n", + " 2\n", " 866a4a01fffffff\n", - " POINT (40.09439 0.52663)\n", + " POINT (36.13482 5.09047)\n", " 347.182722\n", " 6157255\n", " 4.515680\n", @@ -501,9 +806,33 @@ " 175.423497\n", " \n", " \n", - " 2\n", + " 3\n", + " 866a4a047ffffff\n", + " POINT (36.2832 5.13748)\n", + " 380.988678\n", + " 6157259\n", + " 4.853342\n", + " 26.145809\n", + " 22.249249\n", + " 17.938692\n", + " 18.994072\n", + " 16.657440\n", + " ...\n", + " 3.767660\n", + " 4.070570\n", + " 25.002991\n", + " 2.280469\n", + " 2.094120\n", + " 1.015510\n", + " 0.710278\n", + " 0.465995\n", + " 187.465175\n", + " 193.523504\n", + " \n", + " \n", + " 4\n", " 866a4a04fffffff\n", - " POINT (34.46234 5.05804)\n", + " POINT (36.33929 5.11542)\n", " 285.943490\n", " 6157260\n", " 3.642580\n", @@ -525,54 +854,6 @@ " 145.245222\n", " \n", " \n", - " 3\n", - " 866a4a057ffffff\n", - " POINT (41.43612 -4.68139)\n", - " 279.463912\n", - " 6157261\n", - " 3.560037\n", - " 19.178549\n", - " 16.320332\n", - " 13.158442\n", - " 13.932587\n", - " 12.218613\n", - " ...\n", - " 2.763665\n", - " 2.985856\n", - " 18.340267\n", - " 1.672776\n", - " 1.536084\n", - " 0.744900\n", - " 0.521005\n", - " 0.341818\n", - " 137.509998\n", - " 141.953914\n", - " \n", - " \n", - " 4\n", - " 866a4a05fffffff\n", - " POINT (41.25166 -0.09407)\n", - " 235.258474\n", - " 6157262\n", - " 2.996913\n", - " 16.144897\n", - " 13.738791\n", - " 11.077046\n", - " 11.728739\n", - " 10.285879\n", - " ...\n", - " 2.326510\n", - " 2.513555\n", - " 15.439214\n", - " 1.408177\n", - " 1.293108\n", - " 0.627072\n", - " 0.438593\n", - " 0.287750\n", - " 115.758746\n", - " 119.499727\n", - " \n", - " \n", " ...\n", " ...\n", " ...\n", @@ -597,9 +878,9 @@ " ...\n", " \n", " \n", - " 25801\n", + " 26184\n", " 86969ed97ffffff\n", - " POINT (36.22291 0.63262)\n", + " POINT (34.80875 -3.47225)\n", " 196.448391\n", " 8710025\n", " 4.108127\n", @@ -621,9 +902,9 @@ " 100.195702\n", " \n", " \n", - " 25802\n", + " 26185\n", " 86969ed9fffffff\n", - " POINT (36.93237 -1.31051)\n", + " POINT (34.75041 -3.44944)\n", " 296.740893\n", " 8710026\n", " 6.205442\n", @@ -645,9 +926,9 @@ " 151.348460\n", " \n", " \n", - " 25803\n", + " 26186\n", " 86969eda7ffffff\n", - " POINT (37.92797 0.89329)\n", + " POINT (34.77046 -3.5715)\n", " 154.818453\n", " 8710027\n", " 3.237562\n", @@ -669,9 +950,9 @@ " 78.962945\n", " \n", " \n", - " 25804\n", + " 26187\n", " 86969edafffffff\n", - " POINT (39.02185 -1.07532)\n", + " POINT (34.7121 -3.54868)\n", " 157.875350\n", " 8710028\n", " 3.301488\n", @@ -693,9 +974,9 @@ " 80.522071\n", " \n", " \n", - " 25805\n", + " 26188\n", " 86969edb7ffffff\n", - " POINT (36.5281 3.44777)\n", + " POINT (34.81878 -3.53328)\n", " 236.127331\n", " 8710029\n", " 4.937892\n", @@ -718,149 +999,160 @@ " \n", " \n", "\n", - "

25806 rows × 42 columns

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26189 rows × 42 columns

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+19,8 @@ starlette-cramjam = ">=0.3,<0.4" mangum = "*" asgi-s3-response-middleware = "^0.0.4" boto3 = "^1.35.11" -numpy = "^2.1.1" +numpy = "^1.24.0" +h3ronpy = { url = "https://temp-wheels-cdk.s3.us-east-1.amazonaws.com/h3ronpy-0.21.1-cp39-abi3-linux_x86_64.whl" } [tool.poetry.group.lambda.dependencies] mangum = "*" @@ -37,6 +36,13 @@ adbc-driver-postgresql = "^1.2.0" tqdm = "^4.66.5" pystac = "^1.11.0" +[tool.poetry.group.notebook.dependencies] +pandas = "*" +jupyter = "*" +geopandas = "*" +shapely = "*" +lonboard = "*" + [tool.poetry.group.test.dependencies] pre-commit = "*" pytest = "*" diff --git a/space2stats_api/src/space2stats/api/app.py b/space2stats_api/src/space2stats/api/app.py index 182d7a1a..1556543a 100644 --- a/space2stats_api/src/space2stats/api/app.py +++ b/space2stats_api/src/space2stats/api/app.py @@ -62,8 +62,8 @@ def get_summary(body: SummaryRequest, table: StatsTable = Depends(stats_table)): body.fields, body.geometry, ) - except pg.errors.UndefinedColumn as e: - raise HTTPException(status_code=400, detail=e.diag.message_primary) from e + except ValueError as e: + raise HTTPException(status_code=400, detail=str(e)) from e @app.post("/aggregate", response_model=Dict[str, float]) def get_aggregate(body: AggregateRequest, table: StatsTable = Depends(stats_table)): diff --git a/space2stats_api/src/space2stats/h3_utils.py b/space2stats_api/src/space2stats/h3_utils.py index de597c48..98a0f63e 100644 --- a/space2stats_api/src/space2stats/h3_utils.py +++ b/space2stats_api/src/space2stats/h3_utils.py @@ -1,145 +1,51 @@ -from typing import Any, Dict, Iterable, List, Literal, Optional, Set +from typing import Any, Dict, List, Literal -import h3 -from shapely.geometry import MultiPolygon, Point, Polygon, mapping, shape +from arro3.core import Array +from h3ronpy import ContainmentMode +from h3ronpy.vector import cells_to_wkb_points, cells_to_wkb_polygons, geometry_to_cells +from shapely import from_wkb, to_geojson +from shapely.geometry import shape -# https://h3geo.org/docs/core-library/restable -MAX_RESOLUTION = 15 - - -def _recursive_polyfill( - aoi_geojson: Dict[str, Any], resolution: int, original_resolution: int -) -> Set[str]: - # Attempt to get H3 IDs at the current resolution - h3_ids = h3.polyfill(aoi_geojson, resolution, geo_json_conformant=True) - - # If valid H3 IDs are found, return them - if h3_ids: - return {h3.h3_to_parent(h3_id, original_resolution) for h3_id in h3_ids} - - # If we haven't reached the maximum resolution, try the next higher resolution - if resolution < MAX_RESOLUTION: - return _recursive_polyfill(aoi_geojson, resolution + 1, original_resolution) - - return set() - - -def _find_within(aoi_geojson: Dict[str, Any], h3_ids: Iterable[str]) -> Set[str]: - # Convert AOI GeoJSON to Shapely geometry - aoi_shape = shape(aoi_geojson) - - # Find H3 IDs that are within the polygon - contained_h3_ids = [ - h3_id - for h3_id in h3_ids - if aoi_shape.contains(Polygon(h3.h3_to_geo_boundary(h3_id, geo_json=True))) - ] - - return set(contained_h3_ids) - - -def _find_touches(aoi_geojson: Dict[str, Any], h3_ids: Iterable[str]) -> Set[str]: - aoi_shape = shape(aoi_geojson) - - neighbors = set() - for h3_id in h3_ids: - parent_id = h3.h3_to_parent(h3_id, h3.h3_get_resolution(h3_id) - 1) - - for n_h3_id in h3.h3_to_children( - parent_id, h3.h3_get_resolution(parent_id) + 1 - ): - boundary = Polygon(h3.h3_to_geo_boundary(n_h3_id, geo_json=True)) - if h3.h3_indexes_are_neighbors(h3_id, n_h3_id) and aoi_shape.intersects( - boundary - ): - neighbors.add(n_h3_id) - - return neighbors.union(h3_ids) - - -def _generate_h3_ids( - aoi_geojson: Dict[str, Any], - resolution: int, - spatial_join_method: Literal["touches", "within", "centroid"], -) -> Set[str]: - if spatial_join_method not in ["touches", "within", "centroid"]: - raise ValueError(f"Invalid spatial join method: {spatial_join_method}") - - # Generate H3 hexagons covering the AOI - # Polyfill defines containment based on centroid: - # https://h3geo.org/docs/3.x/api/regions/#polyfill - h3_ids = _recursive_polyfill(aoi_geojson, resolution, resolution) - - if spatial_join_method == "within": - h3_ids = _find_within(aoi_geojson, h3_ids) - - if spatial_join_method == "touches": - h3_ids = _find_touches(aoi_geojson, h3_ids) - - return h3_ids +CONTAINMENT_MODE_MAP = { + "centroid": ContainmentMode.ContainsCentroid, + "touches": ContainmentMode.IntersectsBoundary, + "within": ContainmentMode.ContainsBoundary, +} def generate_h3_ids( aoi_geojson: Dict[str, Any], resolution: int, - spatial_join_method: Literal["touches", "within", "centroid"], -) -> Set[str]: + spatial_join_method: Literal["touches", "within", "centroid"] = "centroid", +) -> Array: """ - Generate H3 hexagon IDs for a given AOI GeoJSON object, supporting both Polygon and MultiPolygon. - - Parameters: - aoi_geojson (Dict[str, Any]): The AOI GeoJSON object. - resolution (int): The H3 resolution. - spatial_join_method (str): The spatial join method to use. - - Returns: - Set[str]: A set of H3 hexagon IDs. + Generate H3 IDs using h3ronpy's geometry_to_cells with the correct containment mode. + Returns the H3 IDs in uint64 format for geometry creation. """ - if spatial_join_method not in ["touches", "within", "centroid"]: - raise ValueError("Invalid spatial join method") + geom = shape(aoi_geojson) + containment_mode = CONTAINMENT_MODE_MAP.get(spatial_join_method) - aoi_shape = shape(aoi_geojson) + if containment_mode is None: + raise ValueError(f"Invalid spatial join method: {spatial_join_method}") - if isinstance(aoi_shape, MultiPolygon): - h3_ids = set() - for geom in aoi_shape.geoms: - # Convert each geometry to GeoJSON - geom_geojson = mapping(geom) - h3_ids.update( - _generate_h3_ids(geom_geojson, resolution, spatial_join_method) - ) - else: - # Single polygon case - h3_ids = _generate_h3_ids(aoi_geojson, resolution, spatial_join_method) + # Generate H3 IDs as uint64 + h3_ids_uint64 = geometry_to_cells( + geom, resolution, containment_mode=containment_mode + ) - return h3_ids + return h3_ids_uint64 def generate_h3_geometries( - h3_ids: List[str], geometry_type: Optional[str] -) -> List[Dict[str, Any]]: - """ - Generate geometries (polygon or point) for a list of H3 hexagon IDs. - - Parameters: - h3_ids (List[str]): A list of H3 hexagon IDs. - geometry_type (Optional[str]): - The type of geometry to generate ('polygon' or 'point'). - - Returns: - List[Dict[str, Any]]: A list of geometries in GeoJSON format. - """ - if geometry_type not in ["polygon", "point"]: - raise ValueError("Invalid geometry type") - - geometries = [] - for h3_id in h3_ids: - if geometry_type == "polygon": - hex_boundary = h3.h3_to_geo_boundary(h3_id, geo_json=True) - geometries.append(mapping(Polygon(hex_boundary))) - elif geometry_type == "point": - # h3_to_geo does not have geo_json parameter to invert order of coords - x, y = h3.h3_to_geo(h3_id) - geometries.append(mapping(Point(y, x))) + h3_ids_uint64: List[int], geometry_type: Literal["polygon", "point"] = "polygon" +) -> List[Dict]: + if geometry_type == "polygon": + wkb_geometries = cells_to_wkb_polygons(h3_ids_uint64) + elif geometry_type == "point": + wkb_geometries = cells_to_wkb_points(h3_ids_uint64) + else: + raise ValueError( + f"Invalid geometry type. Use 'polygon' or 'point', not {geometry_type}" + ) - return geometries + return to_geojson(from_wkb(wkb_geometries)) diff --git a/space2stats_api/src/space2stats/lib.py b/space2stats_api/src/space2stats/lib.py index 6b8e4eb7..68e424d3 100644 --- a/space2stats_api/src/space2stats/lib.py +++ b/space2stats_api/src/space2stats/lib.py @@ -3,6 +3,7 @@ import psycopg as pg from geojson_pydantic import Feature +from h3ronpy.arrow import cells_to_string from psycopg import Connection from .h3_utils import generate_h3_geometries, generate_h3_ids @@ -36,7 +37,7 @@ def __exit__(self, exc_type, exc_value, traceback) -> None: if self.conn: self.conn.close() - def _get_summaries(self, fields: List[str], h3_ids: List[str]): + def _get_summaries(self, fields: List[str], h3_ids: List[int]): colnames = ["hex_id"] + fields cols = [pg.sql.Identifier(c) for c in colnames] sql_query = pg.sql.SQL( @@ -47,13 +48,16 @@ def _get_summaries(self, fields: List[str], h3_ids: List[str]): """ ).format(pg.sql.SQL(", ").join(cols), pg.sql.Identifier(self.table_name)) - # Convert h3_ids to a list to ensure compatibility with psycopg - h3_ids = list(h3_ids) + # Convert h3_ids to integers to ensure compatibility with psycopg + h3_ids = [ + scalar.as_py() if hasattr(scalar, "as_py") else scalar for scalar in h3_ids + ] + with self.conn.cursor() as cur: cur.execute( sql_query, [ - h3_ids, + cells_to_string(h3_ids).to_pylist(), ], ) rows = cur.fetchall() @@ -72,6 +76,10 @@ def summaries( if not isinstance(aoi, Feature): aoi = AoiModel.model_validate(aoi) + invalid_fields = [field for field in fields if field not in self.fields()] + if invalid_fields: + raise ValueError(f"Invalid fields: {invalid_fields}") + # Get H3 ids from geometry resolution = 6 h3_ids = generate_h3_ids( @@ -84,19 +92,17 @@ def summaries( return [] # Get Summaries from H3 ids - rows, colnames = self._get_summaries(fields=fields, h3_ids=list(h3_ids)) + rows, colnames = self._get_summaries(fields=fields, h3_ids=h3_ids) if not rows: return [] # Format Summaries summaries: List[Dict] = [] - geometries = ( - generate_h3_geometries(list(h3_ids), geometry) if geometry else None - ) + geometries = generate_h3_geometries(h3_ids, geometry) if geometry else None for idx, row in enumerate(rows): summary = {"hex_id": row[0]} - if geometry and geometries: + if geometry and geometries is not None: summary["geometry"] = geometries[idx] summary.update( @@ -137,6 +143,10 @@ def aggregate( if not isinstance(aoi, Feature): aoi = AoiModel.model_validate(aoi) + invalid_fields = [field for field in fields if field not in self.fields()] + if invalid_fields: + raise ValueError(f"Invalid fields: {invalid_fields}") + # Get H3 ids from geometry resolution = 6 h3_ids = list( @@ -147,6 +157,11 @@ def aggregate( ) ) + # Convert H3 scalar objects to integers + h3_ids = [ + scalar.as_py() if hasattr(scalar, "as_py") else scalar for scalar in h3_ids + ] + if not h3_ids: return {} @@ -163,12 +178,10 @@ def aggregate( pg.sql.Identifier(self.table_name), ) - # Convert h3_ids to a list to ensure compatibility with psycopg - h3_ids = list(h3_ids) with self.conn.cursor() as cur: cur.execute( sql_query, - [h3_ids], + [cells_to_string(h3_ids).to_pylist()], ) row = cur.fetchone() # Get a single row of results colnames = [desc[0] for desc in cur.description] diff --git a/space2stats_api/src/tests/test_api.py b/space2stats_api/src/tests/test_api.py index b1e6d68a..f57abf31 100644 --- a/space2stats_api/src/tests/test_api.py +++ b/space2stats_api/src/tests/test_api.py @@ -1,4 +1,5 @@ import pytest +from shapely import from_geojson aoi = { "type": "Feature", @@ -53,7 +54,7 @@ def test_bad_fields_validated(client): response = client.post("/summary", json=request_payload) assert response.status_code == 400 - assert response.json() == {"error": 'column "a_non_existent_field" does not exist'} + assert response.json() == {"error": "Invalid fields: ['a_non_existent_field']"} @pytest.mark.parametrize("aggregation_type", ["sum", "avg", "count", "max", "min"]) @@ -114,7 +115,8 @@ def test_get_summary_with_geometry_multipolygon(client): for summary in response_json: assert "hex_id" in summary assert "geometry" in summary - assert summary["geometry"]["type"] == "Polygon" + geometry = from_geojson(summary["geometry"]) + assert geometry.geom_type == "Polygon" assert len(summary) == len(request_payload["fields"]) + 2 @@ -135,7 +137,8 @@ def test_get_summary_with_geometry_polygon(client): for summary in response_json: assert "hex_id" in summary assert "geometry" in summary - assert summary["geometry"]["type"] == "Polygon" + geometry = from_geojson(summary["geometry"]) + assert geometry.geom_type == "Polygon" assert len(summary) == len(request_payload["fields"]) + 2 @@ -148,6 +151,7 @@ def test_get_summary_with_geometry_point(client): } response = client.post("/summary", json=request_payload) + print(response.json()) assert response.status_code == 200 response_json = response.json() assert len(response_json) > 0, "Test query failed to return any summaries" @@ -156,7 +160,8 @@ def test_get_summary_with_geometry_point(client): for summary in response_json: assert "hex_id" in summary assert "geometry" in summary - assert summary["geometry"]["type"] == "Point" + geometry = from_geojson(summary["geometry"]) + assert geometry.geom_type == "Point" assert len(summary) == len(request_payload["fields"]) + 2 diff --git a/space2stats_api/src/tests/test_h3_utils.py b/space2stats_api/src/tests/test_h3_utils.py index 86031780..163d5d0b 100644 --- a/space2stats_api/src/tests/test_h3_utils.py +++ b/space2stats_api/src/tests/test_h3_utils.py @@ -1,4 +1,6 @@ import pytest +from h3ronpy.arrow import cells_parse +from shapely import from_geojson from shapely.geometry import MultiPolygon, Polygon, mapping from space2stats.h3_utils import generate_h3_geometries, generate_h3_ids @@ -49,11 +51,15 @@ def test_generate_h3_ids_centroid_multipolygon(): def test_generate_h3_geometries_polygon_multipolygon(): h3_ids = generate_h3_ids(aoi_geojson_multi, resolution, "touches") geometries = generate_h3_geometries(h3_ids, "polygon") + print(geometries) assert len(geometries) == len( h3_ids ), "Expected the same number of geometries as H3 IDs" for geom in geometries: - assert geom["type"] == "Polygon", "Expected Polygon geometry for MultiPolygon" + geojson = from_geojson(geom) + assert ( + geojson.geom_type == "Polygon" + ), "Expected Polygon geometry for MultiPolygon" def test_generate_h3_geometries_point_multipolygon(): @@ -62,8 +68,14 @@ def test_generate_h3_geometries_point_multipolygon(): assert len(geometries) == len( h3_ids ), "Expected the same number of geometries as H3 IDs" - for geom in geometries: - assert geom["type"] == "Point", "Expected Point geometry for MultiPolygon" + print(geometries) + for g in geometries: + geojson = from_geojson(g) + print(dir(geojson)) + assert geojson.geom_type == "Point" + assert len(geojson.coords) == 1 + assert len(geojson.coords[0]) == 2 + assert geojson.coords[0][0] != geojson.coords[0][1] def test_generate_h3_sliver_polygon_touches(): @@ -83,7 +95,7 @@ def test_generate_h3_sliver_polygon_touches(): "touches", ) - for h in ["867a74817ffffff", "867a74807ffffff"]: + for h in cells_parse(["867a74817ffffff", "867a74807ffffff"]): assert h in data, f"Missing {h} in generated hexagons" assert len(data) == 2 @@ -123,9 +135,7 @@ def test_generate_h3_sliver_polygon_centroid(): 6, "centroid", ) - h = "867a74817ffffff" - assert "867a74817ffffff" in data, f"{h} not in generated hexagons" - assert len(data) == 1 + assert len(data) == 0 if __name__ == "__main__": diff --git a/space2stats_api/src/tests/test_module.py b/space2stats_api/src/tests/test_module.py index 4e2be5ee..1e61ac1f 100644 --- a/space2stats_api/src/tests/test_module.py +++ b/space2stats_api/src/tests/test_module.py @@ -1,4 +1,3 @@ -import psycopg as pg import pytest from geojson_pydantic import Feature from space2stats.lib import Settings, StatsTable @@ -151,7 +150,7 @@ def test_aggregate_invalid_field(mock_env, database, aoi_example): ) with StatsTable.connect(settings) as stats_table: - with pytest.raises(pg.errors.UndefinedColumn): + with pytest.raises(ValueError): stats_table.aggregate( aoi=aoi_example, spatial_join_method="centroid",