Examples with RDDOptions org.locationtech.geowave.analytic.spark.RDDOptions used on opensource projects

Example 1 with RDDOptions

use of org.locationtech.geowave.analytic.spark.RDDOptions in project geowave by locationtech.

the class KMeansRunner method run.

public void run() throws IOException {
    initContext();
    // Validate inputs
    if (inputDataStore == null) {
        LOGGER.error("You must supply an input datastore!");
        throw new IOException("You must supply an input datastore!");
    }
    if (isUseTime()) {
        scaledRange = KMeansUtils.setRunnerTimeParams(this, inputDataStore, typeName);
        if (scaledRange == null) {
            LOGGER.error("Failed to set time params for kmeans. Please specify a valid feature type.");
            throw new ParameterException("--useTime option: Failed to set time params");
        }
    }
    // Retrieve the feature adapters
    final VectorQueryBuilder bldr = VectorQueryBuilder.newBuilder();
    List<String> featureTypeNames;
    // If provided, just use the one
    if (typeName != null) {
        featureTypeNames = new ArrayList<>();
        featureTypeNames.add(typeName);
    } else {
        // otherwise, grab all the feature adapters
        featureTypeNames = FeatureDataUtils.getFeatureTypeNames(inputDataStore);
    }
    bldr.setTypeNames(featureTypeNames.toArray(new String[0]));
    // This is required due to some funkiness in GeoWaveInputFormat
    final PersistentAdapterStore adapterStore = inputDataStore.createAdapterStore();
    final InternalAdapterStore internalAdapterStore = inputDataStore.createInternalAdapterStore();
    // Add a spatial filter if requested
    try {
        if (cqlFilter != null) {
            Geometry bbox = null;
            String cqlTypeName;
            if (typeName == null) {
                cqlTypeName = featureTypeNames.get(0);
            } else {
                cqlTypeName = typeName;
            }
            final short adapterId = internalAdapterStore.getAdapterId(cqlTypeName);
            final DataTypeAdapter<?> adapter = adapterStore.getAdapter(adapterId).getAdapter();
            if (adapter instanceof GeotoolsFeatureDataAdapter) {
                final String geometryAttribute = ((GeotoolsFeatureDataAdapter) adapter).getFeatureType().getGeometryDescriptor().getLocalName();
                Filter filter;
                filter = ECQL.toFilter(cqlFilter);
                final ExtractGeometryFilterVisitorResult geoAndCompareOpData = (ExtractGeometryFilterVisitorResult) filter.accept(new ExtractGeometryFilterVisitor(GeometryUtils.getDefaultCRS(), geometryAttribute), null);
                bbox = geoAndCompareOpData.getGeometry();
            }
            if ((bbox != null) && !bbox.equals(GeometryUtils.infinity())) {
                bldr.constraints(bldr.constraintsFactory().spatialTemporalConstraints().spatialConstraints(bbox).build());
            }
        }
    } catch (final CQLException e) {
        LOGGER.error("Unable to parse CQL: " + cqlFilter);
    }
    // Load RDD from datastore
    final RDDOptions kmeansOpts = new RDDOptions();
    kmeansOpts.setMinSplits(minSplits);
    kmeansOpts.setMaxSplits(maxSplits);
    kmeansOpts.setQuery(bldr.build());
    final GeoWaveRDD kmeansRDD = GeoWaveRDDLoader.loadRDD(session.sparkContext(), inputDataStore, kmeansOpts);
    // Retrieve the input centroids
    LOGGER.debug("Retrieving input centroids from RDD...");
    centroidVectors = RDDUtils.rddFeatureVectors(kmeansRDD, timeField, scaledTimeRange);
    centroidVectors.cache();
    // Init the algorithm
    final KMeans kmeans = new KMeans();
    kmeans.setInitializationMode("kmeans||");
    kmeans.setK(numClusters);
    kmeans.setMaxIterations(numIterations);
    if (epsilon > -1.0) {
        kmeans.setEpsilon(epsilon);
    }
    // Run KMeans
    LOGGER.debug("Running KMeans algorithm...");
    outputModel = kmeans.run(centroidVectors.rdd());
    LOGGER.debug("Writing results to output store...");
    writeToOutputStore();
    LOGGER.debug("Results successfully written!");
}

Example 2 with RDDOptions

use of org.locationtech.geowave.analytic.spark.RDDOptions in project geowave by locationtech.

the class RasterTileResizeSparkRunner method run.

public void run() throws IOException {
    initContext();
    // Validate inputs
    if (inputStoreOptions == null) {
        LOGGER.error("You must supply an input datastore!");
        throw new IOException("You must supply an input datastore!");
    }
    final InternalAdapterStore internalAdapterStore = inputStoreOptions.createInternalAdapterStore();
    final short internalAdapterId = internalAdapterStore.getAdapterId(rasterResizeOptions.getInputCoverageName());
    final DataTypeAdapter adapter = inputStoreOptions.createAdapterStore().getAdapter(internalAdapterId).getAdapter();
    if (adapter == null) {
        throw new IllegalArgumentException("Adapter for coverage '" + rasterResizeOptions.getInputCoverageName() + "' does not exist in namespace '" + inputStoreOptions.getGeoWaveNamespace() + "'");
    }
    Index index = null;
    final IndexStore indexStore = inputStoreOptions.createIndexStore();
    if (rasterResizeOptions.getIndexName() != null) {
        index = indexStore.getIndex(rasterResizeOptions.getIndexName());
    }
    if (index == null) {
        try (CloseableIterator<Index> indices = indexStore.getIndices()) {
            index = indices.next();
        }
        if (index == null) {
            throw new IllegalArgumentException("Index does not exist in namespace '" + inputStoreOptions.getGeoWaveNamespace() + "'");
        }
    }
    final RasterDataAdapter newAdapter = new RasterDataAdapter((RasterDataAdapter) adapter, rasterResizeOptions.getOutputCoverageName(), rasterResizeOptions.getOutputTileSize());
    final DataStore store = outputStoreOptions.createDataStore();
    store.addType(newAdapter, index);
    final short newInternalAdapterId = outputStoreOptions.createInternalAdapterStore().addTypeName(newAdapter.getTypeName());
    final RDDOptions options = new RDDOptions();
    if (rasterResizeOptions.getMinSplits() != null) {
        options.setMinSplits(rasterResizeOptions.getMinSplits());
    }
    if (rasterResizeOptions.getMaxSplits() != null) {
        options.setMaxSplits(rasterResizeOptions.getMaxSplits());
    }
    final JavaPairRDD<GeoWaveInputKey, GridCoverage> inputRDD = GeoWaveRDDLoader.loadRawRasterRDD(jsc.sc(), inputStoreOptions, index.getName(), rasterResizeOptions.getMinSplits(), rasterResizeOptions.getMaxSplits());
    LOGGER.debug("Writing results to output store...");
    RDDUtils.writeRasterToGeoWave(jsc.sc(), index, outputStoreOptions, newAdapter, inputRDD.flatMapToPair(new RasterResizeMappingFunction(internalAdapterId, newInternalAdapterId, newAdapter, index)).groupByKey().map(new MergeRasterFunction(internalAdapterId, newInternalAdapterId, newAdapter, index)));
    LOGGER.debug("Results successfully written!");
}

Example 3 with RDDOptions

use of org.locationtech.geowave.analytic.spark.RDDOptions in project geowave by locationtech.

the class KDERunner method run.

public void run() throws IOException {
    initContext();
    // Validate inputs
    if (inputDataStore == null) {
        LOGGER.error("You must supply an input datastore!");
        throw new IOException("You must supply an input datastore!");
    }
    // Retrieve the feature adapters
    final VectorQueryBuilder bldr = VectorQueryBuilder.newBuilder();
    List<String> featureTypeNames;
    // If provided, just use the one
    if (typeName != null) {
        featureTypeNames = new ArrayList<>();
        featureTypeNames.add(typeName);
    } else {
        // otherwise, grab all the feature adapters
        featureTypeNames = FeatureDataUtils.getFeatureTypeNames(inputDataStore);
    }
    bldr.setTypeNames(featureTypeNames.toArray(new String[0]));
    if (indexName != null) {
        bldr.indexName(indexName);
    }
    Index inputPrimaryIndex = null;
    final Index[] idxArray = inputDataStore.createDataStore().getIndices();
    for (final Index idx : idxArray) {
        if ((idx != null) && ((indexName == null) || indexName.equals(idx.getName()))) {
            inputPrimaryIndex = idx;
            break;
        }
    }
    final CoordinateReferenceSystem inputIndexCrs = GeometryUtils.getIndexCrs(inputPrimaryIndex);
    final String inputCrsCode = GeometryUtils.getCrsCode(inputIndexCrs);
    Index outputPrimaryIndex = outputIndex;
    CoordinateReferenceSystem outputIndexCrs = null;
    final String outputCrsCode;
    if (outputPrimaryIndex != null) {
        outputIndexCrs = GeometryUtils.getIndexCrs(outputPrimaryIndex);
        outputCrsCode = GeometryUtils.getCrsCode(outputIndexCrs);
    } else {
        final SpatialDimensionalityTypeProvider sdp = new SpatialDimensionalityTypeProvider();
        final SpatialOptions so = sdp.createOptions();
        so.setCrs(inputCrsCode);
        outputPrimaryIndex = SpatialDimensionalityTypeProvider.createIndexFromOptions(so);
        outputIndexCrs = inputIndexCrs;
        outputCrsCode = inputCrsCode;
    }
    final CoordinateSystem cs = outputIndexCrs.getCoordinateSystem();
    final CoordinateSystemAxis csx = cs.getAxis(0);
    final CoordinateSystemAxis csy = cs.getAxis(1);
    final double xMax = csx.getMaximumValue();
    final double xMin = csx.getMinimumValue();
    final double yMax = csy.getMaximumValue();
    final double yMin = csy.getMinimumValue();
    if ((xMax == Double.POSITIVE_INFINITY) || (xMin == Double.NEGATIVE_INFINITY) || (yMax == Double.POSITIVE_INFINITY) || (yMin == Double.NEGATIVE_INFINITY)) {
        LOGGER.error("Raster KDE resize with raster primary index CRS dimensions min/max equal to positive infinity or negative infinity is not supported");
        throw new RuntimeException("Raster KDE resize with raster primary index CRS dimensions min/max equal to positive infinity or negative infinity is not supported");
    }
    if (cqlFilter != null) {
        bldr.constraints(bldr.constraintsFactory().cqlConstraints(cqlFilter));
    }
    // Load RDD from datastore
    final RDDOptions kdeOpts = new RDDOptions();
    kdeOpts.setMinSplits(minSplits);
    kdeOpts.setMaxSplits(maxSplits);
    kdeOpts.setQuery(bldr.build());
    final Function<Double, Double> identity = x -> x;
    final Function2<Double, Double, Double> sum = (final Double x, final Double y) -> {
        return x + y;
    };
    final RasterDataAdapter adapter = RasterUtils.createDataAdapterTypeDouble(coverageName, KDEReducer.NUM_BANDS, tileSize, MINS_PER_BAND, MAXES_PER_BAND, NAME_PER_BAND, new NoDataMergeStrategy());
    outputDataStore.createDataStore().addType(adapter, outputPrimaryIndex);
    // The following "inner" variables are created to give access to member
    // variables within lambda
    // expressions
    // tileSize;
    final int innerTileSize = 1;
    final String innerCoverageName = coverageName;
    for (int level = minLevel; level <= maxLevel; level++) {
        final int numXTiles = (int) Math.pow(2, level + 1);
        final int numYTiles = (int) Math.pow(2, level);
        // * tileSize;
        final int numXPosts = numXTiles;
        // * tileSize;
        final int numYPosts = numYTiles;
        final GeoWaveRDD kdeRDD = GeoWaveRDDLoader.loadRDD(session.sparkContext(), inputDataStore, kdeOpts);
        JavaPairRDD<Double, Long> cells = kdeRDD.getRawRDD().flatMapToPair(new GeoWaveCellMapper(numXPosts, numYPosts, xMin, xMax, yMin, yMax, inputCrsCode, outputCrsCode)).combineByKey(identity, sum, sum).mapToPair(item -> item.swap());
        cells = cells.partitionBy(new RangePartitioner(cells.getNumPartitions(), cells.rdd(), true, scala.math.Ordering.Double$.MODULE$, scala.reflect.ClassTag$.MODULE$.apply(Double.class))).sortByKey(false).cache();
        final long count = cells.count();
        if (count == 0) {
            LOGGER.warn("No cells produced by KDE");
            continue;
        }
        final double max = cells.first()._1;
        JavaRDD<GridCoverage> rdd = cells.zipWithIndex().map(t -> {
            final TileInfo tileInfo = fromCellIndexToTileInfo(t._1._2, numXPosts, numYPosts, numXTiles, numYTiles, xMin, xMax, yMin, yMax, innerTileSize);
            final WritableRaster raster = RasterUtils.createRasterTypeDouble(NUM_BANDS, innerTileSize);
            final double normalizedValue = t._1._1 / max;
            // because we are using a Double as the key, the ordering
            // isn't always completely reproducible as Double equals does not
            // take into account an epsilon
            final double percentile = (count - t._2) / ((double) count);
            raster.setSample(tileInfo.x, tileInfo.y, 0, t._1._1);
            raster.setSample(tileInfo.x, tileInfo.y, 1, normalizedValue);
            raster.setSample(tileInfo.x, tileInfo.y, 2, percentile);
            return RasterUtils.createCoverageTypeDouble(innerCoverageName, tileInfo.tileWestLon, tileInfo.tileEastLon, tileInfo.tileSouthLat, tileInfo.tileNorthLat, MINS_PER_BAND, MAXES_PER_BAND, NAME_PER_BAND, raster, GeometryUtils.DEFAULT_CRS_STR);
        });
        LOGGER.debug("Writing results to output store...");
        if (tileSize > 1) {
            // byte[] adapterBytes = PersistenceUtils.toBinary(adapter);
            // byte[] indexBytes = PersistenceUtils.toBinary(outputPrimaryIndex);
            rdd = rdd.flatMapToPair(new TransformTileSize(adapter, outputPrimaryIndex)).groupByKey().map(new MergeOverlappingTiles(adapter, outputPrimaryIndex));
        }
        RDDUtils.writeRasterToGeoWave(jsc.sc(), outputPrimaryIndex, outputDataStore, adapter, rdd);
        LOGGER.debug("Results successfully written!");
    }
}

Example 4 with RDDOptions

use of org.locationtech.geowave.analytic.spark.RDDOptions in project geowave by locationtech.

the class SpatialJoinRunner method createRDDFromOptions.

private GeoWaveIndexedRDD createRDDFromOptions(final DataStorePluginOptions storeOptions, String adapterTypeName, final InternalAdapterStore internalAdapterStore, final IndexStore indexStore) throws IOException {
    // available.
    if (adapterTypeName == null) {
        final List<String> typeNames = FeatureDataUtils.getFeatureTypeNames(storeOptions);
        if (!typeNames.isEmpty()) {
            adapterTypeName = typeNames.get(0);
        } else {
            LOGGER.error("No valid adapter found in store to perform join.");
            return null;
        }
    }
    final RDDOptions rddOpts = new RDDOptions();
    rddOpts.setQuery(QueryBuilder.newBuilder().addTypeName(adapterTypeName).build());
    rddOpts.setMinSplits(partCount);
    rddOpts.setMaxSplits(partCount);
    NumericIndexStrategy rddStrategy = null;
    // Did the user provide a strategy for join?
    if (indexStrategy == null) {
        final Index[] rddIndices = getIndicesForAdapter(storeOptions, adapterTypeName, internalAdapterStore, indexStore);
        if (rddIndices.length > 0) {
            rddStrategy = rddIndices[0].getIndexStrategy();
        }
    } else {
        rddStrategy = indexStrategy;
    }
    return GeoWaveRDDLoader.loadIndexedRDD(sc, storeOptions, rddOpts, rddStrategy);
}

Example 5 with RDDOptions

use of org.locationtech.geowave.analytic.spark.RDDOptions in project geowave by locationtech.

the class SparkUtils method verifyQuery.

public static void verifyQuery(final DataStorePluginOptions dataStore, final SparkContext context, final URL filterFile, final URL[] expectedResultsFiles, final String name, final CoordinateReferenceSystem crsTransform, final Pair<String, String> optimalCqlQueryGeometryAndTimeFields, final boolean useDuring) {
    try {
        // get expected results
        final ExpectedResults expectedResults = TestUtils.getExpectedResults(expectedResultsFiles);
        QueryConstraints query;
        if (crsTransform != null) {
            final SimpleFeature feature = TestUtils.resourceToFeature(filterFile);
            query = TestUtils.featureToQuery(GeometryUtils.crsTransform(feature, SimpleFeatureTypeBuilder.retype(feature.getFeatureType(), crsTransform), CRS.findMathTransform(GeometryUtils.getDefaultCRS(), crsTransform, true)), null, GeometryUtils.getCrsCode(crsTransform), useDuring);
        } else {
            query = TestUtils.resourceToQuery(filterFile, optimalCqlQueryGeometryAndTimeFields, useDuring);
        }
        // Load RDD using spatial query (bbox)
        final RDDOptions queryOpts = new RDDOptions();
        queryOpts.setQuery(QueryBuilder.newBuilder().constraints(query).build());
        queryOpts.setMinSplits(DEFAULT_SPLITS_FOR_COUNT);
        queryOpts.setMaxSplits(DEFAULT_SPLITS_FOR_COUNT);
        final GeoWaveRDD newRDD = GeoWaveRDDLoader.loadRDD(context, dataStore, queryOpts);
        final JavaPairRDD<GeoWaveInputKey, SimpleFeature> javaRdd = newRDD.getRawRDD();
        final long count = getCount(javaRdd, dataStore.getType());
        LOGGER.warn("DataStore loaded into RDD with " + count + " features.");
        // Verify RDD count matches expected count
        Assert.assertEquals(expectedResults.count, count);
    } catch (final Exception e) {
        e.printStackTrace();
        TestUtils.deleteAll(dataStore);
        Assert.fail("Error occurred while testing '" + name + "'");
    }
}