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OffsetTrackingOp.java
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OffsetTrackingOp.java
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/*
* Copyright (C) 2016 by Array Systems Computing Inc. http://www.array.ca
*
* This program is free software; you can redistribute it and/or modify it
* under the terms of the GNU General Public License as published by the Free
* Software Foundation; either version 3 of the License, or (at your option)
* any later version.
* This program is distributed in the hope that it will be useful, but WITHOUT
* ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
* FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for
* more details.
*
* You should have received a copy of the GNU General Public License along
* with this program; if not, see http://www.gnu.org/licenses/
*/
package org.esa.s1tbx.insar.gpf;
import com.bc.ceres.core.ProgressMonitor;
import com.vividsolutions.jts.geom.Coordinate;
import com.vividsolutions.jts.geom.GeometryFactory;
import com.vividsolutions.jts.geom.Point;
import org.esa.s1tbx.insar.gpf.coregistration.CrossCorrelationOp;
import org.esa.snap.core.datamodel.*;
import org.esa.snap.core.dataop.downloadable.StatusProgressMonitor;
import org.esa.snap.core.dataop.resamp.Resampling;
import org.esa.snap.core.dataop.resamp.ResamplingFactory;
import org.esa.snap.core.gpf.Operator;
import org.esa.snap.core.gpf.OperatorException;
import org.esa.snap.core.gpf.OperatorSpi;
import org.esa.snap.core.gpf.Tile;
import org.esa.snap.core.gpf.annotations.OperatorMetadata;
import org.esa.snap.core.gpf.annotations.Parameter;
import org.esa.snap.core.gpf.annotations.SourceProduct;
import org.esa.snap.core.gpf.annotations.TargetProduct;
import org.esa.snap.core.util.ProductUtils;
import org.esa.snap.core.util.SystemUtils;
import org.esa.snap.engine_utilities.datamodel.AbstractMetadata;
import org.esa.snap.engine_utilities.datamodel.Unit;
import org.esa.snap.engine_utilities.eo.GeoUtils;
import org.esa.snap.engine_utilities.gpf.OperatorUtils;
import org.esa.snap.engine_utilities.gpf.StackUtils;
import org.esa.snap.engine_utilities.gpf.ThreadManager;
import org.esa.snap.engine_utilities.gpf.TileIndex;
import org.esa.snap.engine_utilities.util.VectorUtils;
import org.geotools.feature.DefaultFeatureCollection;
import org.jblas.ComplexDouble;
import org.jblas.ComplexDoubleMatrix;
import org.jlinda.core.coregistration.utils.CoregistrationUtils;
import org.jlinda.core.utils.TileUtilsDoris;
import org.opengis.feature.simple.SimpleFeature;
import org.opengis.feature.simple.SimpleFeatureType;
import org.opengis.feature.type.AttributeDescriptor;
import java.awt.*;
import java.util.ArrayList;
import java.util.List;
import java.util.Map;
/**
* This operator performs cross-correlation on selected GCP-patches in master and slave images, and computes
* glacier velocities based on the shift computed for each GCP. Then velocities for the whole image is computed
* through interpolation of the velocities computed for GCPs.
*/
@OperatorMetadata(alias = "Offset-Tracking",
category = "Radar/SAR Applications",
authors = "Jun Lu, Luis Veci",
version = "1.0",
copyright = "Copyright (C) 2016 by Array Systems Computing Inc.",
description = "Create velocity vectors from offset tracking")
public class OffsetTrackingOp extends Operator {
@SourceProduct
private Product sourceProduct;
@TargetProduct
private Product targetProduct;
@Parameter(description = "The output grid azimuth spacing in pixels", interval = "(1, *)", defaultValue = "40",
label = "Grid Azimuth Spacing in Pixels")
private int gridAzimuthSpacing = 40;
@Parameter(description = "The output grid range spacing in pixels", interval = "(1, *)", defaultValue = "40",
label = "Grid Range Spacing in Pixels")
private int gridRangeSpacing = 40;
@Parameter(valueSet = {"32", "64", "128", "256", "512", "1024", "2048"}, defaultValue = "128",
label = "Registration Window Width")
private String registrationWindowWidth = "128";
@Parameter(valueSet = {"32", "64", "128", "256", "512", "1024", "2048"}, defaultValue = "128",
label = "Registration Window Height")
private String registrationWindowHeight = "128";
@Parameter(description = "The cross-correlation threshold", interval = "(0, *)", defaultValue = "0.1",
label = "Cross-Correlation Threshold")
private double xCorrThreshold = 0.1;
//@Parameter(valueSet = {"2", "4", "8", "16", "32", "64", "128", "256"},
// defaultValue = "16", label = "Search Window Accuracy in Azimuth Direction")
private String registrationWindowAccAzimuth = "16";
//@Parameter(valueSet = {"2", "4", "8", "16", "32", "64", "128", "256"},
// defaultValue = "16", label = "Search Window Accuracy in Range Direction")
private String registrationWindowAccRange = "16";
@Parameter(valueSet = {"2", "4", "8", "16", "32", "64", "128", "256", "512"}, defaultValue = "16",
label = "Window oversampling factor")
private String registrationOversampling = "16";
@Parameter(valueSet = {"3", "5", "9", "11"}, defaultValue = "5",
label = "Averaging Box Size")
private String averageBoxSize = "5";
@Parameter(description = "The threshold for eliminating invalid GCPs", interval = "(0, *)", defaultValue = "5.0",
label = "Max Velocity (m/day)")
private double maxVelocity = 5.0;
@Parameter(description = "Radius for Hole-Filling", interval = "(0, *)", defaultValue = "4",
label = "Radius for Hole-Filling")
private int radius = 4;
@Parameter(valueSet = {ResamplingFactory.NEAREST_NEIGHBOUR_NAME, ResamplingFactory.BILINEAR_INTERPOLATION_NAME,
ResamplingFactory.BICUBIC_INTERPOLATION_NAME, ResamplingFactory.BISINC_5_POINT_INTERPOLATION_NAME,
ResamplingFactory.CUBIC_CONVOLUTION_NAME}, defaultValue = ResamplingFactory.BICUBIC_INTERPOLATION_NAME,
description = "Methods for velocity interpolation.", label = "Resampling Type")
private String resamplingType = ResamplingFactory.BICUBIC_INTERPOLATION_NAME;
@Parameter(defaultValue = "true", label = "Spatial Average")
private boolean spatialAverage = true;
@Parameter(defaultValue = "true", label = "Fill Holes")
private boolean fillHoles = true;
@Parameter(label = "ROI Vector", defaultValue = "")
private String roiVector = "";
private boolean outputDebuggingBands = false;
private int cHalfWindowWidth = 0;
private int cHalfWindowHeight = 0;
private int halfAvgWindowSize = 0;
private CrossCorrelationOp.CorrelationWindow corrWin = null;
private Band masterBand = null;
private Band slaveBand = null;
private int sourceImageWidth = 0;
private int sourceImageHeight = 0;
private int numGCPsPerAzLine = 0;
private int numGCPsPerRgLine = 0;
private int spacingX = 0;
private int spacingY = 0;
private int halfSpacingX = 0;
private int halfSpacingY = 0;
private double acquisitionTimeInterval = 0.0;
private double rangeSpacing = 0.0;
private double azimuthSpacing = 0.0;
private double maxOffset = 0.0;
private boolean velocityAvailable = false;
private VelocityData velocityData = null;
private Resampling selectedResampling = null;
private MetadataElement mstAbsRoot = null;
private final static double invalidIndex = -9999.0;
private final static String PRODUCT_SUFFIX = "_Vel";
private final static String VELOCITY = "Velocity";
private final static String POINTS = "Points";
private final static String RANGE_SHIFT = "Range_Shift";
private final static String AZIMUTH_SHIFT = "Azimuth_Shift";
private SimpleFeatureType windFeatureType;
private static final String VECTOR_NODE_NAME = VELOCITY;
private static final String STYLE_FORMAT = "fill:#0000ff; fill-opacity:0.2; stroke:#ff0000; stroke-opacity:1.0; stroke-width:1.0; symbol:plus";
private static final String ATTRIB_MST_LAT = "mst_lat";
private static final String ATTRIB_MST_LON = "mst_lon";
private static final String ATTRIB_SLV_LAT = "slv_lat";
private static final String ATTRIB_SLV_LON = "slv_lon";
private static final String ATTRIB_DISTANCE = "distance";
private static final String ATTRIB_VELOCITY = "velocity";
private static final String ATTRIB_HEADING = "heading";
private static final String ATTRIB_RANGE_SHIFT = "range_shift";
private static final String ATTRIB_AZIMUTH_SHIFT = "azimuth_shift";
private static final String ATTRIB_STYLE_CSS = "style_css";
/**
* Default constructor. The graph processing framework
* requires that an operator has a default constructor.
*/
public OffsetTrackingOp() {
}
/**
* Initializes this operator and sets the one and only target product.
* <p>The target product can be either defined by a field of type {@link Product} annotated with the
* {@link TargetProduct TargetProduct} annotation or
* by calling {@link #setTargetProduct} method.</p>
* <p>The framework calls this method after it has created this operator.
* Any client code that must be performed before computation of tile data
* should be placed here.</p>
*
* @throws OperatorException If an error occurs during operator initialisation.
* @see #getTargetProduct()
*/
@Override
public void initialize() throws OperatorException {
try {
mstAbsRoot = AbstractMetadata.getAbstractedMetadata(sourceProduct);
if (mstAbsRoot != null && mstAbsRoot.getAttributeInt(AbstractMetadata.coregistered_stack, 0) != 1) {
throw new OperatorException(
"Source product should be a coregistered stack created by DEM-Assisted Coregistration");
}
selectedResampling = ResamplingFactory.createResampling(resamplingType);
if(selectedResampling == null) {
throw new OperatorException("Resampling method "+ resamplingType + " is invalid");
}
int avgWindowSize = Integer.parseInt(averageBoxSize);
halfAvgWindowSize = avgWindowSize / 2;
setRegistrationWindows();
getMetadata();
getMasterSlaveBands();
createTargetProduct();
createGCPGrid();
updateTargetProductMetadata();
windFeatureType = createFeatureType();
} catch (Throwable e) {
OperatorUtils.catchOperatorException(getId(), e);
}
}
private void setRegistrationWindows() {
int cWindowWidth = Integer.parseInt(registrationWindowWidth);
int cWindowHeight = Integer.parseInt(registrationWindowHeight);
cHalfWindowWidth = cWindowWidth / 2;
cHalfWindowHeight = cWindowHeight / 2;
corrWin = new CrossCorrelationOp.CorrelationWindow(
Integer.parseInt(registrationWindowWidth),
Integer.parseInt(registrationWindowHeight),
Integer.parseInt(registrationWindowAccAzimuth),
Integer.parseInt(registrationWindowAccRange),
Integer.parseInt(registrationOversampling));
}
private void getMetadata() throws Exception {
final MetadataElement slvAbsRoot = AbstractMetadata.getSlaveMetadata(sourceProduct.getMetadataRoot()).getElementAt(0);
final double mstFirstLineTime = AbstractMetadata.parseUTC(
mstAbsRoot.getAttributeString(AbstractMetadata.first_line_time)).getMJD(); // in days
rangeSpacing = AbstractMetadata.getAttributeDouble(mstAbsRoot, AbstractMetadata.range_spacing);
azimuthSpacing = AbstractMetadata.getAttributeDouble(mstAbsRoot, AbstractMetadata.azimuth_spacing);
final double slvFirstLineTime = AbstractMetadata.parseUTC(
slvAbsRoot.getAttributeString(AbstractMetadata.first_line_time)).getMJD(); // in days
acquisitionTimeInterval = Math.abs(slvFirstLineTime - mstFirstLineTime); // in days
maxOffset = maxVelocity * acquisitionTimeInterval; // in m
}
private void getMasterSlaveBands() {
masterBand = getSourceBand(sourceProduct, StackUtils.MST);
slaveBand = getSourceBand(sourceProduct, StackUtils.SLV);
if (masterBand == null || slaveBand == null) {
throw new OperatorException("Cannot find master or slave amplitude or intensity band");
}
}
private static Band getSourceBand(final Product sourceProduct, final String tag) {
String[] bandNames;
if (tag.equals(StackUtils.MST)) {
bandNames = StackUtils.getMasterBandNames(sourceProduct);
} else {
final String[] slvProductNames = StackUtils.getSlaveProductNames(sourceProduct);
bandNames = StackUtils.getSlaveBandNames(sourceProduct, slvProductNames[0]);
}
for (String bandName : bandNames) {
final Band band = sourceProduct.getBand(bandName);
if (band.getUnit().contains(Unit.AMPLITUDE) || band.getUnit().contains(Unit.INTENSITY)) {
return band;
}
}
return null;
}
/**
* Create target product.
*/
private void createTargetProduct() {
sourceImageWidth = sourceProduct.getSceneRasterWidth();
sourceImageHeight = sourceProduct.getSceneRasterHeight();
targetProduct = new Product(sourceProduct.getName() + PRODUCT_SUFFIX,
sourceProduct.getProductType(),
sourceImageWidth,
sourceImageHeight);
Band targetBand;
final String suffix = StackUtils.getBandSuffix(slaveBand.getName());
final String velocityBandName = VELOCITY + suffix;
if (targetProduct.getBand(velocityBandName) == null) {
targetBand = targetProduct.addBand(velocityBandName, ProductData.TYPE_FLOAT32);
targetBand.setUnit(Unit.METERS_PER_DAY);
targetBand.setDescription("Velocity");
targetProduct.setQuicklookBandName(targetBand.getName());
}
if (outputDebuggingBands) {
final String gcpPositionBandName = POINTS + suffix;
if (targetProduct.getBand(gcpPositionBandName) == null) {
targetBand = targetProduct.addBand(gcpPositionBandName, ProductData.TYPE_FLOAT32);
targetBand.setUnit(Unit.METERS_PER_DAY);
targetBand.setDescription("Velocity Points");
}
final String rangeShiftBandName = RANGE_SHIFT + suffix;
if (targetProduct.getBand(rangeShiftBandName) == null) {
targetBand = targetProduct.addBand(rangeShiftBandName, ProductData.TYPE_FLOAT32);
targetBand.setUnit(Unit.METERS_PER_DAY);
targetBand.setDescription("Range Shift");
}
final String azimuthShiftBandName = AZIMUTH_SHIFT + suffix;
if (targetProduct.getBand(azimuthShiftBandName) == null) {
targetBand = targetProduct.addBand(azimuthShiftBandName, ProductData.TYPE_FLOAT32);
targetBand.setUnit(Unit.METERS_PER_DAY);
targetBand.setDescription("Azimuth Shift");
}
}
// co-registered image should have the same geo-coding as the master image
ProductUtils.copyProductNodes(sourceProduct, targetProduct);
}
private void createGCPGrid() {
numGCPsPerAzLine = sourceImageHeight / gridAzimuthSpacing;
numGCPsPerRgLine = sourceImageWidth / gridRangeSpacing;
spacingX = gridRangeSpacing;
spacingY = gridAzimuthSpacing;
halfSpacingX = spacingX / 2;
halfSpacingY = spacingY / 2;
velocityData = new VelocityData(numGCPsPerAzLine, numGCPsPerRgLine);
for (int i = 0; i < numGCPsPerAzLine; i++) {
final int y = halfSpacingY + i * spacingY;
for (int j = 0; j < numGCPsPerRgLine; j++) {
final int x = halfSpacingX + j * spacingX;
velocityData.mstGCPx[i][j] = x;
velocityData.mstGCPy[i][j] = y;
velocityData.slvGCPx[i][j] = invalidIndex;
velocityData.slvGCPy[i][j] = invalidIndex;
}
}
}
/**
* Update metadata in the target product.
*/
private void updateTargetProductMetadata() {
final MetadataElement absTgt = AbstractMetadata.getAbstractedMetadata(targetProduct);
AbstractMetadata.setAttribute(absTgt, AbstractMetadata.coregistered_stack, 1);
}
/**
* Called by the framework in order to compute a tile for the given target band.
* <p>The default implementation throws a runtime exception with the message "not implemented".</p>
*
* @param targetTileMap The target tiles associated with all target bands to be computed.
* @param targetRectangle The rectangle of target tile.
* @param pm A progress monitor which should be used to determine computation cancelation requests.
* @throws OperatorException If an error occurs during computation of the target raster.
*/
@Override
public void computeTileStack(Map<Band, Tile> targetTileMap, Rectangle targetRectangle, ProgressMonitor pm)
throws OperatorException {
final int x0 = targetRectangle.x;
final int y0 = targetRectangle.y;
final int w = targetRectangle.width;
final int h = targetRectangle.height;
final int xMax = x0 + w;
final int yMax = y0 + h;
//System.out.println("OffsetTrackingOp: x0 = " + x0 + ", y0 = " + y0 + ", w = " + w + ", h = " + h);
try {
if (pm.isCanceled())
return;
if (!velocityAvailable) {
computeVelocity();
}
Tile tgtRangeShiftTile = null;
Tile tgtAzimuthShiftTile = null;
Tile tgtVelocityTile = null;
Tile tgtGCPPositionTile = null;
ProductData tgtRangeShiftBuffer = null;
ProductData tgtAzimuthShiftBuffer = null;
ProductData tgtVelocityBuffer = null;
ProductData tgtGCPPositionBuffer = null;
final Band[] targetBands = targetProduct.getBands();
for (Band tgtBand : targetBands) {
final String tgtBandName = tgtBand.getName();
if (tgtBandName.contains(RANGE_SHIFT)) {
tgtRangeShiftTile = targetTileMap.get(tgtBand);
tgtRangeShiftBuffer = tgtRangeShiftTile.getDataBuffer();
} else if (tgtBandName.contains(AZIMUTH_SHIFT)) {
tgtAzimuthShiftTile = targetTileMap.get(tgtBand);
tgtAzimuthShiftBuffer = tgtAzimuthShiftTile.getDataBuffer();
} else if (tgtBandName.contains(VELOCITY)) {
tgtVelocityTile = targetTileMap.get(tgtBand);
tgtVelocityBuffer = tgtVelocityTile.getDataBuffer();
} else if (tgtBandName.contains(POINTS)) {
tgtGCPPositionTile = targetTileMap.get(tgtBand);
tgtGCPPositionBuffer = tgtGCPPositionTile.getDataBuffer();
}
}
if (tgtVelocityBuffer == null || outputDebuggingBands &&
(tgtGCPPositionBuffer == null || tgtRangeShiftBuffer == null || tgtAzimuthShiftBuffer == null)) {
throw new OperatorException("Cannot find desired target bands");
}
final TileIndex tgtIndex = new TileIndex(tgtVelocityTile);
final ResamplingRaster resamplingRasterVelocity = new ResamplingRaster(tgtVelocityTile, velocityData.velocity);
ResamplingRaster resamplingRasterRangeShift = null;
ResamplingRaster resamplingRasterAzimuthShift = null;
if (outputDebuggingBands) {
resamplingRasterRangeShift = new ResamplingRaster(tgtRangeShiftTile, velocityData.rangeShift);
resamplingRasterAzimuthShift = new ResamplingRaster(tgtAzimuthShiftTile, velocityData.azimuthShift);
}
final Resampling.Index resamplingIndex = selectedResampling.createIndex();
for (int y = y0; y < yMax; y++) {
tgtIndex.calculateStride(y);
final double i = (double) (y - halfSpacingY) / (double) spacingY;
for (int x = x0; x < xMax; x++) {
final int tgtIdx = tgtIndex.getIndex(x);
final double j = (double) (x - halfSpacingX) / (double) spacingX;
selectedResampling.computeCornerBasedIndex(j, i, numGCPsPerRgLine, numGCPsPerAzLine, resamplingIndex);
tgtVelocityBuffer.setElemFloatAt(tgtIdx,
(float) selectedResampling.resample(resamplingRasterVelocity, resamplingIndex));
if (outputDebuggingBands) {
tgtRangeShiftBuffer.setElemFloatAt(tgtIdx,
(float) selectedResampling.resample(resamplingRasterRangeShift, resamplingIndex));
tgtAzimuthShiftBuffer.setElemFloatAt(tgtIdx,
(float) selectedResampling.resample(resamplingRasterAzimuthShift, resamplingIndex));
}
}
}
// output GCP positions
if (outputDebuggingBands && tgtGCPPositionBuffer != null) {
for (int i = 0; i < numGCPsPerAzLine; i++) {
for (int j = 0; j < numGCPsPerRgLine; j++) {
final int x = (int) velocityData.mstGCPx[i][j];
final int y = (int) velocityData.mstGCPy[i][j];
if (velocityData.slvGCPx[i][j] != invalidIndex && velocityData.slvGCPy[i][j] != invalidIndex
&& x >= x0 && x < xMax && y >= y0 && y < yMax) {
tgtGCPPositionBuffer.setElemFloatAt(
tgtGCPPositionTile.getDataBufferIndex(x, y), (float) velocityData.velocity[i][j]);
/*
tgtGCPPositionBuffer.setElemFloatAt(tgtGCPPositionTile.getDataBufferIndex(x, y), 100.0f);
tgtGCPPositionBuffer.setElemFloatAt(tgtGCPPositionTile.getDataBufferIndex(x-2, y), 100.0f);
tgtGCPPositionBuffer.setElemFloatAt(tgtGCPPositionTile.getDataBufferIndex(x-1, y), 100.0f);
tgtGCPPositionBuffer.setElemFloatAt(tgtGCPPositionTile.getDataBufferIndex(x+1, y), 100.0f);
tgtGCPPositionBuffer.setElemFloatAt(tgtGCPPositionTile.getDataBufferIndex(x+2, y), 100.0f);
tgtGCPPositionBuffer.setElemFloatAt(tgtGCPPositionTile.getDataBufferIndex(x, y-2), 100.0f);
tgtGCPPositionBuffer.setElemFloatAt(tgtGCPPositionTile.getDataBufferIndex(x, y-1), 100.0f);
tgtGCPPositionBuffer.setElemFloatAt(tgtGCPPositionTile.getDataBufferIndex(x, y+1), 100.0f);
tgtGCPPositionBuffer.setElemFloatAt(tgtGCPPositionTile.getDataBufferIndex(x, y+2), 100.0f);
*/
}
}
}
}
} catch (Throwable e) {
OperatorUtils.catchOperatorException(getId(), e);
} finally {
pm.done();
}
}
private synchronized void computeVelocity() {
if (velocityAvailable) return;
computeSlaveGCPs();
computeGCPOffsets();
if (spatialAverage) {
averageOffsets();
}
if (fillHoles) {
fillHoles();
}
computeGCPVelocities();
AddVelocitiesAsVectors();
writeGCPsToMetadata();
velocityAvailable = true;
}
private static class GCPData {
final PixelPos mGCP;
final int i, j;
GCPData(PixelPos gcp, int i, int j) {
this.mGCP = gcp;
this.i = i;
this.j = j;
}
}
private void computeSlaveGCPs() {
try {
final List<GCPData> gcpList = new ArrayList<>();
for (int i = 0; i < numGCPsPerAzLine; i++) {
for (int j = 0; j < numGCPsPerRgLine; j++) {
final PixelPos mGCP = new PixelPos(velocityData.mstGCPx[i][j], velocityData.mstGCPy[i][j]);
if (!checkGCPValidity(mGCP)) {
continue;
}
gcpList.add(new GCPData(mGCP, i, j));
}
}
final StatusProgressMonitor status = new StatusProgressMonitor(StatusProgressMonitor.TYPE.SUBTASK);
status.beginTask("Computing slave GCPs... ", gcpList.size());
final ThreadManager threadManager = new ThreadManager();
for (GCPData gcpData : gcpList) {
checkForCancellation();
final Thread worker = new Thread() {
@Override
public void run() {
final PixelPos sGCP = new PixelPos(gcpData.mGCP.x, gcpData.mGCP.y);
boolean getSlaveGCP = getOffsets(gcpData.mGCP, sGCP);
if (getSlaveGCP) {
saveSlaveGCP(sGCP);
}
}
private synchronized void saveSlaveGCP(final PixelPos sGCP) {
velocityData.slvGCPx[gcpData.i][gcpData.j] = sGCP.x;
velocityData.slvGCPy[gcpData.i][gcpData.j] = sGCP.y;
}
};
threadManager.add(worker);
status.worked(1);
}
status.done();
threadManager.finish();
} catch (Throwable e) {
OperatorUtils.catchOperatorException("computeGCPsByXCorrelation", e);
}
}
private void computeGCPOffsets() {
final StatusProgressMonitor status = new StatusProgressMonitor(StatusProgressMonitor.TYPE.SUBTASK);
status.beginTask("Compute Offsets... ", numGCPsPerAzLine * numGCPsPerRgLine);
final ThreadManager threadManager = new ThreadManager();
try {
for (int i = 0; i < numGCPsPerAzLine; i++) {
for (int j = 0; j < numGCPsPerRgLine; j++) {
checkForCancellation();
final int iIdx = i;
final int jIdx = j;
if (velocityData.slvGCPx[i][j] == invalidIndex || velocityData.slvGCPy[i][j] == invalidIndex) {
continue;
}
final Thread worker = new Thread() {
@Override
public void run() {
final double xShift =
(velocityData.mstGCPx[iIdx][jIdx] - velocityData.slvGCPx[iIdx][jIdx]) * rangeSpacing;
final double yShift =
(velocityData.mstGCPy[iIdx][jIdx] - velocityData.slvGCPy[iIdx][jIdx]) * azimuthSpacing;
final double offset = Math.sqrt(xShift * xShift + yShift * yShift);
if (offset <= maxOffset) {
saveOffset(xShift, yShift);
} else { // outliers
synchronized (velocityData.slvGCPx) {
velocityData.slvGCPx[iIdx][jIdx] = invalidIndex;
velocityData.slvGCPy[iIdx][jIdx] = invalidIndex;
}
}
}
private synchronized void saveOffset(final double xShift, final double yShift) {
velocityData.rangeShift[iIdx][jIdx] = xShift;
velocityData.azimuthShift[iIdx][jIdx] = yShift;
}
};
threadManager.add(worker);
status.worked(1);
}
}
status.done();
threadManager.finish();
} catch (Throwable e) {
OperatorUtils.catchOperatorException("computeGCPOffsets", e);
}
}
private void averageOffsets() {
final StatusProgressMonitor status = new StatusProgressMonitor(StatusProgressMonitor.TYPE.SUBTASK);
status.beginTask("Average Offsets... ", numGCPsPerAzLine * numGCPsPerRgLine);
final ThreadManager threadManager = new ThreadManager();
try {
for (int i = 0; i < numGCPsPerAzLine; i++) {
for (int j = 0; j < numGCPsPerRgLine; j++) {
checkForCancellation();
final int iIdx = i;
final int jIdx = j;
if (velocityData.slvGCPx[i][j] == invalidIndex || velocityData.slvGCPy[i][j] == invalidIndex) {
continue;
}
final Thread worker = new Thread() {
@Override
public void run() {
final int i0 = Math.max(iIdx - halfAvgWindowSize, 0);
final int iN = Math.min(iIdx + halfAvgWindowSize, numGCPsPerAzLine - 1);
final int j0 = Math.max(jIdx - halfAvgWindowSize, 0);
final int jN = Math.min(jIdx + halfAvgWindowSize, numGCPsPerRgLine - 1);
int count = 0;
double rangeShiftSum = 0.0, azimuthShiftSum = 0.0;
for (int ii = i0; ii <= iN; ii++) {
for (int jj = j0; jj <= jN; jj++) {
if (velocityData.slvGCPx[ii][jj] != invalidIndex &&
velocityData.slvGCPy[ii][jj] != invalidIndex) {
rangeShiftSum += velocityData.rangeShift[ii][jj];
azimuthShiftSum += velocityData.azimuthShift[ii][jj];
count++;
}
}
}
if (count > 0) {
final double xShift = rangeShiftSum / count;
final double yShift = azimuthShiftSum / count;
final double slvGCPx = velocityData.mstGCPx[iIdx][jIdx] - xShift / rangeSpacing;
final double slvGCPy = velocityData.mstGCPy[iIdx][jIdx] - yShift / azimuthSpacing;
saveOffset(xShift, yShift, slvGCPx, slvGCPy);
}
}
private synchronized void saveOffset(
final double xShift, final double yShift, final double slvGCPx, final double slvGCPy) {
velocityData.rangeShift[iIdx][jIdx] = xShift;
velocityData.azimuthShift[iIdx][jIdx] = yShift;
velocityData.slvGCPx[iIdx][jIdx] = slvGCPx;
velocityData.slvGCPy[iIdx][jIdx] = slvGCPy;
}
};
threadManager.add(worker);
status.worked(1);
}
}
status.done();
threadManager.finish();
} catch (Throwable e) {
OperatorUtils.catchOperatorException("averageOffsets", e);
}
}
private void fillHoles() {
final StatusProgressMonitor status = new StatusProgressMonitor(StatusProgressMonitor.TYPE.SUBTASK);
status.beginTask("Fill Holes... ", numGCPsPerAzLine * numGCPsPerRgLine);
final ThreadManager threadManager = new ThreadManager();
try {
final java.util.List<int[]> holeList = new ArrayList<>();
for (int i = 0; i < numGCPsPerAzLine; i++) {
for (int j = 0; j < numGCPsPerRgLine; j++) {
if (velocityData.slvGCPx[i][j] == invalidIndex || velocityData.slvGCPy[i][j] == invalidIndex) {
holeList.add(new int[]{i, j});
}
}
}
for (int k = 0; k < holeList.size(); k++) {
checkForCancellation();
final int iIdx = holeList.get(k)[0];
final int jIdx = holeList.get(k)[1];
final Thread worker = new Thread() {
@Override
public void run() {
final int i0 = Math.max(iIdx - radius, 0);
final int iN = Math.min(iIdx + radius, numGCPsPerAzLine - 1);
final int j0 = Math.max(jIdx - radius, 0);
final int jN = Math.min(jIdx + radius, numGCPsPerRgLine - 1);
double xShiftMean = 0.0, yShiftMean = 0.0, totalWeight = 0.0;
for (int ii = i0; ii <= iN; ii++) {
for (int jj = j0; jj <= jN; jj++) {
if (!inList(ii, jj)) {
final double w = 1.0 / Math.max(Math.abs(ii - iIdx), Math.abs(jj - jIdx));
xShiftMean += w * velocityData.rangeShift[ii][jj];
yShiftMean += w * velocityData.azimuthShift[ii][jj];
totalWeight += w;
}
}
}
if (totalWeight != 0.0) {
xShiftMean /= totalWeight;
yShiftMean /= totalWeight;
final double slvGCPx = velocityData.mstGCPx[iIdx][jIdx] - xShiftMean / rangeSpacing;
final double slvGCPy = velocityData.mstGCPy[iIdx][jIdx] - yShiftMean / azimuthSpacing;
saveOffset(xShiftMean, yShiftMean, slvGCPx, slvGCPy);
}
}
private boolean inList(final int ii, final int jj) {
for (int[] aHoleList : holeList) {
if (aHoleList[0] == ii && aHoleList[1] == jj) {
return true;
}
}
return false;
}
private synchronized void saveOffset(
final double xShift, final double yShift, final double slvGCPx, final double slvGCPy) {
velocityData.rangeShift[iIdx][jIdx] = xShift;
velocityData.azimuthShift[iIdx][jIdx] = yShift;
velocityData.slvGCPx[iIdx][jIdx] = slvGCPx;
velocityData.slvGCPy[iIdx][jIdx] = slvGCPy;
}
};
threadManager.add(worker);
status.worked(1);
}
status.done();
threadManager.finish();
} catch (Throwable e) {
OperatorUtils.catchOperatorException("fillHoles", e);
}
}
private void computeGCPVelocities() {
final StatusProgressMonitor status = new StatusProgressMonitor(StatusProgressMonitor.TYPE.SUBTASK);
status.beginTask("Compute Velocities... ", numGCPsPerAzLine * numGCPsPerRgLine);
final ThreadManager threadManager = new ThreadManager();
try {
for (int i = 0; i < numGCPsPerAzLine; i++) {
for (int j = 0; j < numGCPsPerRgLine; j++) {
checkForCancellation();
final int iIdx = i;
final int jIdx = j;
if (velocityData.slvGCPx[i][j] == invalidIndex || velocityData.slvGCPy[i][j] == invalidIndex) {
continue;
}
final Thread worker = new Thread() {
@Override
public void run() {
final double xShift = velocityData.rangeShift[iIdx][jIdx];
final double yShift = velocityData.azimuthShift[iIdx][jIdx];
final double v = Math.sqrt(xShift * xShift + yShift * yShift) / acquisitionTimeInterval;
saveVelocity(v);
}
private synchronized void saveVelocity(final double v) {
velocityData.velocity[iIdx][jIdx] = v;
}
};
threadManager.add(worker);
status.worked(1);
}
}
status.done();
threadManager.finish();
} catch (Throwable e) {
OperatorUtils.catchOperatorException("computeGCPVelocities", e);
}
}
private boolean checkGCPValidity(final PixelPos pixelPos) {
boolean valid = (pixelPos.x - cHalfWindowWidth + 1 >= 0 && pixelPos.x + cHalfWindowWidth <= sourceImageWidth - 1) &&
(pixelPos.y - cHalfWindowHeight + 1 >= 0 && pixelPos.y + cHalfWindowHeight <= sourceImageHeight - 1);
if (valid && roiVector != null && !roiVector.isEmpty()) {
Mask mask = sourceProduct.getMaskGroup().get(roiVector);
valid = mask.getSampleInt((int) pixelPos.x, (int) pixelPos.y) != 0;
}
return valid;
}
private boolean getOffsets(final PixelPos mGCPPixelPos, final PixelPos sGCPPixelPos) {
try {
final ComplexDoubleMatrix mI = getComplexDoubleMatrix(masterBand, null, mGCPPixelPos, corrWin);
final ComplexDoubleMatrix sI = getComplexDoubleMatrix(slaveBand, null, sGCPPixelPos, corrWin);
final double[] coarseOffset = {0, 0};
double coherence = CoregistrationUtils.crossCorrelateFFT(
coarseOffset, mI, sI, corrWin.ovsFactor, corrWin.accY, corrWin.accX);
// double coherence = CoregistrationUtils.normalizedCrossCorrelation(
// coarseOffset, mI, sI, corrWin.ovsFactor, corrWin.accY, corrWin.accX);
if (coherence < xCorrThreshold) {
return false;
} else {
sGCPPixelPos.x += coarseOffset[1];
sGCPPixelPos.y += coarseOffset[0];
return true;
}
} catch (Throwable e) {
OperatorUtils.catchOperatorException(getId() + " getOffsets ", e);
}
return false;
}
private void dumpComplexMatrix(ComplexDoubleMatrix I, final String title) {
System.out.println(title);
final int numRows = I.rows;
final int numCols = I.columns;
for (int r = 0; r < numRows; r++) {
for (int c = 0; c < numCols; c++) {
ComplexDouble v = I.get(r, c);
// System.out.print(v.real() + " + j*" + v.imag() + ", ");
System.out.print(v.real() + ", ");
}
System.out.println();
}
System.out.println();
}
private ComplexDoubleMatrix getComplexDoubleMatrix(
final Band band1, final Band band2, final PixelPos pixelPos, final CrossCorrelationOp.CorrelationWindow corrWindow) {
Rectangle rectangle = corrWindow.defineRectangleMask(pixelPos);
Tile tileReal = getSourceTile(band1, rectangle);
Tile tileImag = null;
if (band2 != null) {
tileImag = getSourceTile(band2, rectangle);
}
return TileUtilsDoris.pullComplexDoubleMatrix(tileReal, tileImag);
}
private void writeGCPsToMetadata() {
final MetadataElement absRoot = AbstractMetadata.getAbstractedMetadata(targetProduct);
final String suffix = StackUtils.getBandSuffix(slaveBand.getName());
final String velocityBandName = VELOCITY + suffix;
final MetadataElement bandElem = AbstractMetadata.getBandAbsMetadata(absRoot, velocityBandName, true);
MetadataElement warpDataElem = bandElem.getElement("WarpData");
if (warpDataElem == null) {
warpDataElem = new MetadataElement("WarpData");
bandElem.addElement(warpDataElem);
} else {
// empty out element
final MetadataAttribute[] attribList = warpDataElem.getAttributes();
for (MetadataAttribute attrib : attribList) {
warpDataElem.removeAttribute(attrib);
}
}
int k = 0;
for (int i = 0; i < numGCPsPerAzLine; i++) {
for (int j = 0; j < numGCPsPerRgLine; j++) {
if (velocityData.slvGCPx[i][j] != invalidIndex && velocityData.slvGCPx[i][j] != invalidIndex) {
final MetadataElement gcpElem = new MetadataElement("GCP" + k);
warpDataElem.addElement(gcpElem);
gcpElem.setAttributeDouble("mst_x", velocityData.mstGCPx[i][j]);
gcpElem.setAttributeDouble("mst_y", velocityData.mstGCPy[i][j]);
gcpElem.setAttributeDouble("slv_x", velocityData.slvGCPx[i][j]);
gcpElem.setAttributeDouble("slv_y", velocityData.slvGCPy[i][j]);
k++;
}
}
}
}
private SimpleFeatureType createFeatureType() {
final List<AttributeDescriptor> attributeDescriptors = new ArrayList<>();
attributeDescriptors.add(VectorUtils.createAttribute(ATTRIB_MST_LAT, Double.class));
attributeDescriptors.add(VectorUtils.createAttribute(ATTRIB_MST_LON, Double.class));
attributeDescriptors.add(VectorUtils.createAttribute(ATTRIB_SLV_LAT, Double.class));
attributeDescriptors.add(VectorUtils.createAttribute(ATTRIB_SLV_LON, Double.class));
attributeDescriptors.add(VectorUtils.createAttribute(ATTRIB_DISTANCE, Double.class));
attributeDescriptors.add(VectorUtils.createAttribute(ATTRIB_VELOCITY, Double.class));
attributeDescriptors.add(VectorUtils.createAttribute(ATTRIB_HEADING, Double.class));
attributeDescriptors.add(VectorUtils.createAttribute(ATTRIB_RANGE_SHIFT, Double.class));
attributeDescriptors.add(VectorUtils.createAttribute(ATTRIB_AZIMUTH_SHIFT, Double.class));
attributeDescriptors.add(VectorUtils.createAttribute(ATTRIB_STYLE_CSS, String.class));
return VectorUtils.createFeatureType(targetProduct.getSceneGeoCoding(), VECTOR_NODE_NAME, attributeDescriptors);
}
private synchronized void AddVelocitiesAsVectors() {
VectorDataNode vectorDataNode = targetProduct.getVectorDataGroup().get(VECTOR_NODE_NAME);
if (vectorDataNode == null) {
vectorDataNode = new VectorDataNode(VECTOR_NODE_NAME, windFeatureType);
targetProduct.getVectorDataGroup().add(vectorDataNode);
}
DefaultFeatureCollection collection = vectorDataNode.getFeatureCollection();
final GeometryFactory geometryFactory = new GeometryFactory();
final GeoCoding geoCoding = targetProduct.getSceneGeoCoding();
final GeoPos mstGeoPos = new GeoPos();
final GeoPos slvGeoPos = new GeoPos();
int c = collection.size();
for (int i = 0; i < numGCPsPerAzLine; i++) {
for (int j = 0; j < numGCPsPerRgLine; j++) {
if (velocityData.slvGCPx[i][j] != invalidIndex && velocityData.slvGCPx[i][j] != invalidIndex) {
final String name = "post_" + c;
Point p = geometryFactory.createPoint(new Coordinate(velocityData.mstGCPx[i][j], velocityData.mstGCPy[i][j]));