diff --git a/city_metrix/layers/__init__.py b/city_metrix/layers/__init__.py index bef56c3..1ca7443 100644 --- a/city_metrix/layers/__init__.py +++ b/city_metrix/layers/__init__.py @@ -3,7 +3,7 @@ from .land_surface_temperature import LandSurfaceTemperature from .tree_cover import TreeCover from .high_land_surface_temperature import HighLandSurfaceTemperature -from .smart_cities_lulc import SmartCitiesLULC +from .smart_surface_lulc import SmartSurfaceLULC from .open_street_map import OpenStreetMap, OpenStreetMapClass from .urban_land_use import UrbanLandUse from .natural_areas import NaturalAreas @@ -14,5 +14,5 @@ from .built_up_height import BuiltUpHeight from .average_net_building_height import AverageNetBuildingHeight from .open_buildings import OpenBuildings -from .tree_canopy_hight import TreeCanopyHeight +from .tree_canopy_height import TreeCanopyHeight from .alos_dsm import AlosDSM diff --git a/city_metrix/layers/building_classifier/V2-building-class-data.geojson 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diff --git a/city_metrix/layers/building_classifier/building_classifier.pkl b/city_metrix/layers/building_classifier/building_classifier.pkl new file mode 100644 index 0000000..d1cee21 Binary files /dev/null and b/city_metrix/layers/building_classifier/building_classifier.pkl differ diff --git a/city_metrix/layers/building_classifier/building_classifier.py b/city_metrix/layers/building_classifier/building_classifier.py new file mode 100644 index 0000000..5865a0f --- /dev/null +++ b/city_metrix/layers/building_classifier/building_classifier.py @@ -0,0 +1,197 @@ +import xarray as xr +import ee +import numpy as np +from rasterio.enums import Resampling +from geocube.api.core import make_geocube +import pandas as pd +import geopandas as gpd +from sklearn.tree import DecisionTreeClassifier, plot_tree +from sklearn.metrics import accuracy_score +import matplotlib.pyplot as plt +from xrspatial.classify import reclassify +from exactextract import exact_extract +import pickle + +from ..layer import Layer, get_utm_zone_epsg +from ..esa_world_cover import EsaWorldCover, EsaWorldCoverClass +from ..urban_land_use import UrbanLandUse +from ..average_net_building_height import AverageNetBuildingHeight +from ..open_street_map import OpenStreetMap, OpenStreetMapClass +from ..open_buildings import OpenBuildings + + +class BuildingClassifier(Layer): + def __init__(self, geo_file='V2-building-class-data.geojson', **kwargs): + super().__init__(**kwargs) + self.geo_file = geo_file + + def get_data_geo(self): + buildings_sample = gpd.read_file(self.geo_file) + buildings_sample.to_crs(epsg=4326, inplace=True) + + return buildings_sample + + def get_data_esa_reclass(self, bbox, crs): + # ESA reclass and upsample + esa_world_cover = EsaWorldCover(year=2021).get_data(bbox) + + reclass_map = { + EsaWorldCoverClass.TREE_COVER.value: 1, + EsaWorldCoverClass.SHRUBLAND.value: 1, + EsaWorldCoverClass.GRASSLAND.value: 1, + EsaWorldCoverClass.CROPLAND.value: 1, + EsaWorldCoverClass.BUILT_UP.value: 2, + EsaWorldCoverClass.BARE_OR_SPARSE_VEGETATION.value: 3, + EsaWorldCoverClass.SNOW_AND_ICE.value: 20, + EsaWorldCoverClass.PERMANENT_WATER_BODIES.value: 20, + EsaWorldCoverClass.HERBACEOUS_WET_LAND.value: 20, + EsaWorldCoverClass.MANGROVES.value: 20, + EsaWorldCoverClass.MOSS_AND_LICHEN.value: 3 + } + + # Perform the reclassification + reclassified_esa = reclassify(esa_world_cover, bins=list(reclass_map.keys()), new_values=list(reclass_map.values())) + + # Convert to int8 and chunk the data for Dask processing + reclassified_esa = reclassified_esa.astype(np.int8).chunk({'x': 512, 'y': 512}) + + reclassified_esa = reclassified_esa.rio.write_crs(esa_world_cover.rio.crs, inplace=True) + + esa_1m = reclassified_esa.rio.reproject( + dst_crs=crs, + resolution=1, + resampling=Resampling.nearest + ) + + return esa_1m + + def get_data_ulu(self, bbox, crs, snap_to): + # Read ULU land cover, filter to city, select lulc band + ulu_lulc = UrbanLandUse(band='lulc').get_data(bbox) + ###### ulu_roads = UrbanLandUse(band='road').get_data(bbox) + ####### Create road mask of 50 + ####### Typical threshold for creating road mask + ####### road_mask = ulu_roads >= 50 + ####### ulu_lulc = ulu_lulc.where(~road_mask, 6) + # 0-Unclassified: 0 (open space) + # 1-Non-residential: 0 (open space), 1 (non-res) + # 2-Residential: 2 (Atomistic), 3 (Informal), 4 (Formal), 5 (Housing project) + ####### 3-Roads: 6 (Roads) + mapping = {0: 0, 1: 1, 2: 2, 3: 2, 4: 2, 5: 2} + for from_val, to_val in mapping.items(): + ulu_lulc = ulu_lulc.where(ulu_lulc != from_val, to_val) + + # Convert to int8 and chunk the data for Dask processing + ulu_lulc = ulu_lulc.astype(np.int8).chunk({'x': 512, 'y': 512}) + + ####### 1-Non-residential as default + # 0-Unclassified as nodata + ulu_lulc_1m = ulu_lulc.rio.reproject( + dst_crs=crs, + shape=snap_to.shape, + resampling=Resampling.nearest, + nodata=0 + ) + + return ulu_lulc_1m + + def get_data_anbh(self, bbox, snap_to): + # Load ANBH layer + anbh_data = AverageNetBuildingHeight().get_data(bbox) + + # Chunk the data for Dask processing + anbh_data = anbh_data.chunk({'x': 512, 'y': 512}) + + # Use reproject_match, because reproject would raise OneDimensionalRaster with shape (1,1) + anbh_1m = anbh_data.rio.reproject_match( + match_data_array=snap_to, + resampling=Resampling.nearest, + nodata=0 + ) + + return anbh_1m + + def get_data_buildings(self, bbox, crs): + # OSM buildings + building_osm = OpenStreetMap(osm_class=OpenStreetMapClass.BUILDING).get_data(bbox).to_crs(crs).reset_index(drop=True) + # Google-Microsoft Open Buildings Dataset buildings + openbuilds = OpenBuildings(country='USA').get_data(bbox).to_crs(crs).reset_index(drop=True) + + # Intersect buildings and keep the open buildings that don't intersect OSM buildings + intersect_buildings = gpd.sjoin(building_osm, openbuilds, how='inner', predicate='intersects') + openbuilds_non_intersect = openbuilds.loc[~openbuilds.index.isin(intersect_buildings.index)] + + buildings = pd.concat([building_osm['geometry'], openbuilds_non_intersect['geometry']], ignore_index=True).reset_index() + # Get rid of any 3d geometries that cause a problem + buildings = buildings[~buildings['geometry'].apply(lambda geom: 'Z' in geom.geom_type)] + + # Value not start with 0 + buildings['Value'] = buildings['index'] + 1 + + return buildings + + def rasterize_polygon(self, gdf, snap_to): + if gdf.empty: + raster = np.full(snap_to.shape, 0, dtype=np.int8) + raster = xr.DataArray(raster, dims=snap_to.dims, coords=snap_to.coords) + + return raster.rio.write_crs(snap_to.rio.crs, inplace=True) + + raster = make_geocube( + vector_data=gdf, + measurements=["Value"], + like=snap_to, + fill=np.int8(0) + ).Value + + return raster.rio.reproject_match(snap_to) + + + def building_classifier_tree(self): + buildings_sample = self.get_data_geo() + + # # Building sample 'V2-building-class-data.geojson' has extracted data and saved in geojson, + # # so no need for steps below + # # Step 1: Get raster data + # bbox = buildings_sample.reset_index().total_bounds + # crs = get_utm_zone_epsg(bbox) + # esa_1m = BuildingClassifier().get_data_esa_reclass(bbox, crs) + # ulu_lulc_1m = self.get_data_ulu(bbox, crs, esa_1m) + # anbh_1m = self.get_data_anbh(bbox, esa_1m) + # # Step 2: Extract 3 features for buildings: + # # 2.1 majority of Urban Land Use(ULU) class + # # 2.2 mean Average Net Building Height(ANBH) + # # 2.3 area of the building + # buildings_sample['ULU'] = exact_extract(ulu_lulc_1m, buildings_sample, ["majority"], output='pandas')['majority'] + # buildings_sample['ANBH'] = exact_extract(anbh_1m, buildings_sample, ["mean"], output='pandas')['mean'] + # buildings_sample['Area_m'] = buildings_sample.geometry.area + + # TODO: classifier parameters + clf = DecisionTreeClassifier(max_depth=5) + # encode labels + buildings_sample['Slope_encoded'] = buildings_sample['Slope'].map({'low': np.int8(42), 'high': np.int8(40)}) + + # Select these rows for the training set + build_train = buildings_sample[buildings_sample['Model']=='training'] + + clf.fit(build_train[['ULU', 'ANBH', 'Area_m']], build_train['Slope_encoded']) + + # save decision tree classifier + with open('building_classifier.pkl','wb') as f: + pickle.dump(clf, f) + + # # Check decision tree and accuracy + # # Select the remaining rows for the testing set + # build_test = buildings_sample[buildings_sample['Model']=='testing'] + # plt.figure(figsize=(20, 10)) + # plot_tree(clf, feature_names=['ULU', 'ANBH', 'Area_m'], class_names=['low','high'], filled=True) + # plt.show() + # # Predict and evaluate + # y_pred = clf.predict(build_train[['ULU', 'ANBH', 'Area_m']]) + # accuracy = accuracy_score(build_train['Slope_encoded'], y_pred) + # print(f"Training Accuracy: {accuracy}") + # len(build_train[build_train['Slope']==build_train['pred']])/len(build_train) + # y_pred = clf.predict(build_test[['ULU', 'ANBH', 'Area_m']]) + # accuracy = accuracy_score(build_test['Slope_encoded'], y_pred) + # print(f"Test Accuracy: {accuracy}") + # len(build_test[build_test['Slope']==build_test['pred']])/len(build_test) diff --git a/city_metrix/layers/smart_cities_lulc.py b/city_metrix/layers/smart_cities_lulc.py deleted file mode 100644 index 425cee5..0000000 --- a/city_metrix/layers/smart_cities_lulc.py +++ /dev/null @@ -1,21 +0,0 @@ -from pystac_client import Client -import rioxarray -import xarray as xr - -from .layer import Layer - - -class SmartCitiesLULC(Layer): - def __init__(self, land_cover_class=None, **kwargs): - super().__init__(**kwargs) - self.land_cover_class = land_cover_class - - def get_data(self, bbox): - raise NotImplementedError() - - - - - - - diff --git a/city_metrix/layers/smart_surface_lulc.py b/city_metrix/layers/smart_surface_lulc.py new file mode 100644 index 0000000..4e35976 --- /dev/null +++ b/city_metrix/layers/smart_surface_lulc.py @@ -0,0 +1,130 @@ +import xarray as xr +import numpy as np +import pandas as pd +import geopandas as gpd +from shapely.geometry import CAP_STYLE, JOIN_STYLE +from shapely.geometry import box +import psutil +from exactextract import exact_extract +import pickle +import warnings +warnings.filterwarnings('ignore',category=UserWarning) + +from .layer import Layer, get_utm_zone_epsg, create_fishnet_grid, MAX_TILE_SIZE +from .open_street_map import OpenStreetMap, OpenStreetMapClass +from .building_classifier.building_classifier import BuildingClassifier + + +class SmartSurfaceLULC(Layer): + def __init__(self, land_cover_class=None, **kwargs): + super().__init__(**kwargs) + self.land_cover_class = land_cover_class + + def get_data(self, bbox): + crs = get_utm_zone_epsg(bbox) + + # load building roof slope classifier + with open('city_metrix/layers/building_classifier/building_classifier.pkl', 'rb') as f: + clf = pickle.load(f) + + # ESA world cover + esa_1m = BuildingClassifier().get_data_esa_reclass(bbox, crs) + + # Open space + open_space_osm = OpenStreetMap(osm_class=OpenStreetMapClass.OPEN_SPACE_HEAT).get_data(bbox).to_crs(crs).reset_index() + open_space_osm['Value'] = np.int8(10) + + + # Water + water_osm = OpenStreetMap(osm_class=OpenStreetMapClass.WATER).get_data(bbox).to_crs(crs).reset_index() + water_osm['Value'] = np.int8(20) + + + # Roads + roads_osm = OpenStreetMap(osm_class=OpenStreetMapClass.ROAD).get_data(bbox).to_crs(crs).reset_index() + if len(roads_osm) > 0: + roads_osm['lanes'] = pd.to_numeric(roads_osm['lanes'], errors='coerce') + # Get the average number of lanes per highway class + lanes = (roads_osm.drop(columns='geometry') + .groupby('highway') + # Calculate average and round up + .agg(avg_lanes=('lanes', lambda x: np.ceil(np.nanmean(x)) if not np.isnan(x).all() else np.NaN)) + ) + # Handle NaN values in avg_lanes + lanes['avg_lanes'] = lanes['avg_lanes'].fillna(2) + + # Fill lanes with avg lane value when missing + roads_osm = roads_osm.merge(lanes, on='highway', how='left') + roads_osm['lanes'] = roads_osm['lanes'].fillna(roads_osm['avg_lanes']) + + # Add value field (30) + roads_osm['Value'] = np.int8(30) + + # Buffer roads by lanes * 10 ft (3.048 m) + # https://nacto.org/publication/urban-street-design-guide/street-design-elements/lane-width/#:~:text=wider%20lane%20widths.-,Lane%20widths%20of%2010%20feet%20are%20appropriate%20in%20urban%20areas,be%20used%20in%20each%20direction + # cap is flat to the terminus of the road + # join style is mitred so intersections are squared + roads_osm['geometry'] = roads_osm.apply(lambda row: row['geometry'].buffer( + row['lanes'] * 3.048, + cap_style=CAP_STYLE.flat, + join_style=JOIN_STYLE.mitre), + axis=1 + ) + else: + # Add value field (30) + roads_osm['Value'] = np.int8(30) + + + # Building + ulu_lulc_1m = BuildingClassifier().get_data_ulu(bbox, crs, esa_1m) + anbh_1m = BuildingClassifier().get_data_anbh(bbox, esa_1m) + # get building features + buildings = BuildingClassifier().get_data_buildings(bbox, crs) + # extract ULU, ANBH, and Area_m + buildings['ULU'] = exact_extract(ulu_lulc_1m, buildings, ["majority"], output='pandas')['majority'] + buildings['ANBH'] = exact_extract(anbh_1m, buildings, ["mean"], output='pandas')['mean'] + buildings['Area_m'] = buildings.geometry.area + # classify buildings + unclassed_buildings = buildings[buildings['ULU'] == 0] + classed_buildings = buildings[buildings['ULU'] != 0] + + if len(classed_buildings) > 0: + classed_buildings['Value'] = clf.predict(classed_buildings[['ULU', 'ANBH', 'Area_m']]) + # Define conditions and choices + case_when_class = [ + # "residential" & "high" + (classed_buildings['Value'] == 40) & (classed_buildings['ULU'] == 2), + # "non-residential" & "high" + (classed_buildings['Value'] == 40) & (classed_buildings['ULU'] == 1), + # "residential" & "low" + (classed_buildings['Value'] == 42) & (classed_buildings['ULU'] == 2), + # "non-residential" & "low" + (classed_buildings['Value'] == 42) & (classed_buildings['ULU'] == 1) + ] + case_when_value = [40, 41, 42, 43] + classed_buildings['Value'] = np.select(case_when_class, case_when_value, default=44) + unclassed_buildings['Value'] = 44 + buildings = pd.concat([classed_buildings, unclassed_buildings]) + else: + buildings['Value'] = 44 + + + # Parking + parking_osm = OpenStreetMap(osm_class=OpenStreetMapClass.PARKING).get_data(bbox).to_crs(crs).reset_index() + parking_osm['Value'] = np.int8(50) + + + # combine features: open space, water, road, building, parking + feature_df = pd.concat([open_space_osm[['geometry','Value']], water_osm[['geometry','Value']], roads_osm[['geometry','Value']], buildings[['geometry','Value']], parking_osm[['geometry','Value']]], axis=0) + feature_1m = BuildingClassifier().rasterize_polygon(feature_df, esa_1m) + + # Combine rasters + datasets = [esa_1m, feature_1m] + # not all raster has 'time', concatenate without 'time' dimension + aligned_datasets = [ds.drop_vars('time', errors='ignore') for ds in datasets] + # use chunk 512x512 + aligned_datasets = [ds.chunk({'x': 512, 'y': 512}) for ds in aligned_datasets] + lulc = xr.concat(aligned_datasets, dim='Value').max(dim='Value') + lulc = lulc.compute() + + return lulc diff --git a/city_metrix/layers/tree_canopy_hight.py b/city_metrix/layers/tree_canopy_height.py similarity index 89% rename from city_metrix/layers/tree_canopy_hight.py rename to city_metrix/layers/tree_canopy_height.py index 464c7cf..2785272 100644 --- a/city_metrix/layers/tree_canopy_hight.py +++ b/city_metrix/layers/tree_canopy_height.py @@ -7,9 +7,7 @@ class TreeCanopyHeight(Layer): - - name = "tree_canopy_hight" - + name = "tree_canopy_height" NO_DATA_VALUE = 0 def __init__(self, **kwargs): @@ -20,10 +18,6 @@ def get_data(self, bbox): # aggregate time series into a single image canopy_ht = canopy_ht.reduce(ee.Reducer.mean()).rename("cover_code") - - - - data = get_image_collection(ee.ImageCollection(canopy_ht), bbox, 1, "tree canopy hight") + data = get_image_collection(ee.ImageCollection(canopy_ht), bbox, 1, "tree canopy height") return data.cover_code - diff --git a/environment.yml b/environment.yml index 4f00317..21b5e16 100644 --- a/environment.yml +++ b/environment.yml @@ -21,5 +21,7 @@ dependencies: - geemap=0.32.0 - pip=23.3.1 - boto3=1.34.124 + - scikit-learn=1.5.0 - pip: - cartoframes==1.2.5 + - git+https://github.com/isciences/exactextract diff --git a/notebooks/tutorial/get layers.ipynb b/notebooks/tutorial/get layers.ipynb index e67ce8a..67107f8 100644 --- a/notebooks/tutorial/get layers.ipynb +++ b/notebooks/tutorial/get layers.ipynb @@ -26,7 +26,7 @@ "| Layer name | class name | Parameter defaults | Layer metadata |\n", "| ---- | ---- | ---- | ---- |\n", "| Tropical Tree Cover | `TreeCover()` | `min_tree_cover=None`: a threshold to use to filter the minimum percent of tree cover| |\n", - "| EsaWorldCover | `EsaWorldCover()` | `land_cover_class=None`; `EsaWorldCoverClass`: a specific class of land cover| |\n", + "| EsaWorldCover | `EsaWorldCover()` | `land_cover_class=None`; `EsaWorldCoverClass`: a specific class of land cover; `year=2020`| |\n", "| Land Surface Temeprature | `LandSurfaceTemperature()` | `start_date=\"2013-01-01\", end_date=\"2023-01-01\"` | |\n", "| Albedo | `Albedo()` | `start_date=\"2021-01-01\", end_date=\"2022-01-01\"` | |\n", "| Natural Areas | `NaturalAreas()` | `none` | |\n", @@ -34,7 +34,8 @@ "| Building Hight | `AverageNetBuildingHeight()` | `none` | |\n", "| Building Footprints | `OpenBuildings()` | `country='USA'` | |\n", "| 1m Global Tree Canopy Height | `TreeCanopyHeight()` | | |\n", - "| ALOS DSM | `AlosDSM()`| | |" + "| ALOS DSM | `AlosDSM()`| | |\n", + "| Smart Surface LULC| `SmartSurfaceLULC()`| | |" ] }, { @@ -86,24 +87,7 @@ }, { "cell_type": "markdown", - "id": "5c506fca", - "metadata": {}, - "source": [] - }, - { - "cell_type": "code", - "execution_count": 5, - "id": "286103d4", - "metadata": {}, - "outputs": [], - "source": [ - "import boto3" - ] - }, - { - "cell_type": "code", - "execution_count": 3, - "id": "d4f01f2f-5164-4a05-9997-f70b2abe6b37", + "id": "6280fc2f", "metadata": {}, "source": [ "In most cases you shouldn't need to set these. GEE will open your browser to authenticate. " @@ -257,7 +241,7 @@ }, { "cell_type": "code", - "execution_count": 5, + "execution_count": 7, "id": "5eb883fd-c533-47b7-8735-65393afca89d", "metadata": {}, "outputs": [], @@ -267,7 +251,7 @@ }, { "cell_type": "code", - "execution_count": 6, + "execution_count": 8, "id": "0703cfe0-201d-4cae-ab43-7a4d0e5082cf", "metadata": {}, "outputs": [ @@ -275,8 +259,8 @@ "name": "stdout", "output_type": "stream", "text": [ - "Extracting layer tree cover from Google Earth Engine:\n", - "[########################################] | 100% Completed | 9.24 ss\n" + "Extracting tree cover layer:\n", + "[########################################] | 100% Completed | 19.58 s\n" ] }, { @@ -645,40 +629,40 @@ " stroke: currentColor;\n", " fill: currentColor;\n", "}\n", - "
<xarray.DataArray 'ttc' (y: 2878, x: 3722)>\n", - "array([[ nan, nan, nan, ..., 100., 90., 90.],\n", + "<xarray.DataArray 'ttc' (y: 2878, x: 3721)>\n", + "array([[ nan, nan, nan, ..., 100., 100., 90.],\n", + " [ nan, nan, nan, ..., 90., 90., 90.],\n", " [ nan, nan, nan, ..., 90., 90., 90.],\n", - " [ nan, nan, nan, ..., 90., 90., 80.],\n", " ...,\n", " [ nan, nan, nan, ..., nan, nan, nan],\n", " [ nan, nan, nan, ..., nan, nan, nan],\n", " [ nan, nan, nan, ..., nan, nan, nan]])\n", "Coordinates:\n", - " time int64 0\n", + " time int32 0\n", " * x (x) float32 -38.65 -38.65 -38.65 -38.65 ... -38.3 -38.3 -38.3 -38.3\n", " * y (y) float32 -12.76 -12.76 -12.76 -12.76 ... -13.02 -13.02 -13.02\n", "Attributes:\n", " id: ttc\n", " data_type: {'type': 'PixelType', 'precision': 'double', 'min': 0, 'm...\n", " crs: EPSG:4326\n", - " crs_transform: [1, 0, 0, 0, 1, 0]
<xarray.DataArray 'reclassify' (y: 2210, x: 2170)> Size: 38MB\n", + "array([[ 1, 1, 1, ..., 1, 1, 1],\n", + " [ 1, 1, 1, ..., 1, 1, 1],\n", + " [ 1, 1, 1, ..., 1, 1, 1],\n", + " ...,\n", + " [ 2, 2, 2, ..., 30, 30, 2],\n", + " [ 2, 2, 2, ..., 2, 2, 2],\n", + " [ 2, 2, 2, ..., 2, 2, 2]])\n", + "Coordinates:\n", + " * x (x) float64 17kB 5.607e+05 5.608e+05 ... 5.629e+05 5.629e+05\n", + " * y (y) float64 18kB 8.573e+06 8.573e+06 ... 8.571e+06 8.571e+06\n", + " spatial_ref int64 8B 0