@Test public void testMissingNullValuesInCoverageDimensions() throws IOException { CoverageInfo ci = getCatalog().getCoverageByName(getLayerId(MockData.TASMANIA_DEM)); List<CoverageDimensionInfo> dimensions = ci.getDimensions(); // legacy layers have no null value list dimensions.get(0).getNullValues().clear(); getCatalog().save(ci); // and now go back and ask for the reader ci = getCatalog().getCoverageByName(getLayerId(MockData.TASMANIA_DEM)); GridCoverageReader reader = ci.getGridCoverageReader(null, null); GridCoverage2D gc = null; try { // check that we maintain the native info if we don't have any gc = (GridCoverage2D) reader.read(null); assertEquals(-9999d, (Double) gc.getProperty("GC_NODATA"), 0d); } finally { if (gc != null) { RenderedImage ri = gc.getRenderedImage(); if (gc instanceof GridCoverage2D) { ((GridCoverage2D) gc).dispose(true); } if (ri instanceof PlanarImage) { ImageUtilities.disposePlanarImageChain((PlanarImage) ri); } } } }
/** * Dispose the provided coverage for good. * * @param coverage */ private void disposeCoverage(GridCoverage2D coverage) { if (coverage == null) { return; } final RenderedImage im = coverage.getRenderedImage(); ImageUtilities.disposePlanarImageChain(PlanarImage.wrapRenderedImage(im)); coverage.dispose(true); }
private byte[] getROIData(ROI roi, Rectangle rectIMG) { byte[] dataROI; PlanarImage roiIMG = roi.getAsImage(); Rectangle rectROI = roiIMG.getBounds(); // Forcing to component colormodel in order to avoid packed bits ImageWorker w = new ImageWorker(); w.setImage(roiIMG); w.forceComponentColorModel(); RenderedImage img = w.getRenderedImage(); // BufferedImage test = new BufferedImage(rectIMG.width, rectIMG.height, BufferedImage.TYPE_BYTE_GRAY); ImageLayout2 layout = new ImageLayout2(test); layout.setMinX(img.getMinX()); layout.setMinY(img.getMinY()); layout.setWidth(img.getWidth()); layout.setHeight(img.getHeight()); // Lookup byte[] lut = new byte[256]; lut[255] = 1; lut[1] = 1; LookupTableJAI table = new LookupTableJAI(lut); RenderingHints hints = new RenderingHints(JAI.KEY_IMAGE_LAYOUT, layout); RenderedOp transformed = LookupDescriptor.create(img, table, hints); Graphics2D gc2d = null; // Translation parameters in order to position the ROI data correctly in the Raster Space int trX = -rectIMG.x + rectROI.x - rectIMG.x; int trY = -rectIMG.y + rectROI.y - rectIMG.y; try { gc2d = test.createGraphics(); gc2d.drawRenderedImage(transformed, AffineTransform.getTranslateInstance(trX, trY)); } finally { gc2d.dispose(); } Rectangle testRect = new Rectangle(rectIMG.width, rectIMG.height); DataBufferByte dbRoi = (DataBufferByte) test.getData(testRect).getDataBuffer(); dataROI = dbRoi.getData(); // BufferedImage is stored in memory so the planarImage chain before can be disposed ImageUtilities.disposePlanarImageChain(transformed); // Flush of the BufferedImage test.flush(); return dataROI; }
/** * This method reads in the TIFF image, constructs an appropriate CRS, determines the math * transform from raster to the CRS model, and constructs a GridCoverage. * * @param params currently ignored, potentially may be used for hints. * @return grid coverage represented by the image * @throws IOException on any IO related troubles */ public GridCoverage2D read(GeneralParameterValue[] params) throws IOException { GeneralEnvelope requestedEnvelope = null; Rectangle dim = null; Color inputTransparentColor = null; OverviewPolicy overviewPolicy = null; int[] suggestedTileSize = null; if (params != null) { // // Checking params // if (params != null) { for (int i = 0; i < params.length; i++) { final ParameterValue param = (ParameterValue) params[i]; final ReferenceIdentifier name = param.getDescriptor().getName(); if (name.equals(AbstractGridFormat.READ_GRIDGEOMETRY2D.getName())) { final GridGeometry2D gg = (GridGeometry2D) param.getValue(); requestedEnvelope = new GeneralEnvelope((Envelope) gg.getEnvelope2D()); dim = gg.getGridRange2D().getBounds(); continue; } if (name.equals(AbstractGridFormat.OVERVIEW_POLICY.getName())) { overviewPolicy = (OverviewPolicy) param.getValue(); continue; } if (name.equals(AbstractGridFormat.INPUT_TRANSPARENT_COLOR.getName())) { inputTransparentColor = (Color) param.getValue(); continue; } if (name.equals(AbstractGridFormat.SUGGESTED_TILE_SIZE.getName())) { String suggestedTileSize_ = (String) param.getValue(); if (suggestedTileSize_ != null && suggestedTileSize_.length() > 0) { suggestedTileSize_ = suggestedTileSize_.trim(); int commaPosition = suggestedTileSize_.indexOf(","); if (commaPosition < 0) { int tileDim = Integer.parseInt(suggestedTileSize_); suggestedTileSize = new int[] {tileDim, tileDim}; } else { int tileW = Integer.parseInt(suggestedTileSize_.substring(0, commaPosition)); int tileH = Integer.parseInt(suggestedTileSize_.substring(commaPosition + 1)); suggestedTileSize = new int[] {tileW, tileH}; } } continue; } } } } // // set params // Integer imageChoice = new Integer(0); final ImageReadParam readP = new ImageReadParam(); try { imageChoice = setReadParams(overviewPolicy, readP, requestedEnvelope, dim); } catch (TransformException e) { new DataSourceException(e); } // // IMAGE READ OPERATION // Hints newHints = null; if (suggestedTileSize != null) { newHints = hints.clone(); final ImageLayout layout = new ImageLayout(); layout.setTileGridXOffset(0); layout.setTileGridYOffset(0); layout.setTileHeight(suggestedTileSize[1]); layout.setTileWidth(suggestedTileSize[0]); newHints.add(new RenderingHints(JAI.KEY_IMAGE_LAYOUT, layout)); } final ParameterBlock pbjRead = new ParameterBlock(); if (extOvrImgChoice >= 0 && imageChoice >= extOvrImgChoice) { pbjRead.add( ovrInStreamSPI.createInputStreamInstance( ovrSource, ImageIO.getUseCache(), ImageIO.getCacheDirectory())); pbjRead.add(imageChoice - extOvrImgChoice); } else { pbjRead.add( inStreamSPI != null ? inStreamSPI.createInputStreamInstance( source, ImageIO.getUseCache(), ImageIO.getCacheDirectory()) : ImageIO.createImageInputStream(source)); pbjRead.add(imageChoice); } pbjRead.add(Boolean.FALSE); pbjRead.add(Boolean.FALSE); pbjRead.add(Boolean.FALSE); pbjRead.add(null); pbjRead.add(null); pbjRead.add(readP); pbjRead.add(READER_SPI.createReaderInstance()); RenderedOp coverageRaster = JAI.create("ImageRead", pbjRead, newHints != null ? (RenderingHints) newHints : null); // // MASKING INPUT COLOR as indicated // if (inputTransparentColor != null) { coverageRaster = new ImageWorker(coverageRaster) .setRenderingHints(newHints) .makeColorTransparent(inputTransparentColor) .getRenderedOperation(); } AffineTransform rasterToModel = getRescaledRasterToModel(coverageRaster); try { return createCoverage(coverageRaster, ProjectiveTransform.create(rasterToModel)); } catch (Exception e) { // dispose and close file ImageUtilities.disposePlanarImageChain(coverageRaster); // rethrow if (e instanceof DataSourceException) { throw (DataSourceException) e; } throw new DataSourceException(e); } }
/** * Load a specified a raster as a portion of the granule describe by this {@link * GranuleDescriptor}. * * @param imageReadParameters the {@link ImageReadParam} to use for reading. * @param index the index to use for the {@link ImageReader}. * @param cropBBox the bbox to use for cropping. * @param mosaicWorldToGrid the cropping grid to world transform. * @param request the incoming request to satisfy. * @param hints {@link Hints} to be used for creating this raster. * @return a specified a raster as a portion of the granule describe by this {@link * GranuleDescriptor}. * @throws IOException in case an error occurs. */ public GranuleLoadingResult loadRaster( final ImageReadParam imageReadParameters, final int index, final ReferencedEnvelope cropBBox, final MathTransform2D mosaicWorldToGrid, final RasterLayerRequest request, final Hints hints) throws IOException { if (LOGGER.isLoggable(java.util.logging.Level.FINER)) { final String name = Thread.currentThread().getName(); LOGGER.finer( "Thread:" + name + " Loading raster data for granuleDescriptor " + this.toString()); } ImageReadParam readParameters = null; int imageIndex; final ReferencedEnvelope bbox = inclusionGeometry != null ? new ReferencedEnvelope( granuleBBOX.intersection(inclusionGeometry.getEnvelopeInternal()), granuleBBOX.getCoordinateReferenceSystem()) : granuleBBOX; boolean doFiltering = false; if (filterMe) { doFiltering = Utils.areaIsDifferent(inclusionGeometry, baseGridToWorld, granuleBBOX); } // intersection of this tile bound with the current crop bbox final ReferencedEnvelope intersection = new ReferencedEnvelope( bbox.intersection(cropBBox), cropBBox.getCoordinateReferenceSystem()); if (intersection.isEmpty()) { if (LOGGER.isLoggable(java.util.logging.Level.FINE)) { LOGGER.fine( new StringBuilder("Got empty intersection for granule ") .append(this.toString()) .append(" with request ") .append(request.toString()) .append(" Resulting in no granule loaded: Empty result") .toString()); } return null; } ImageInputStream inStream = null; ImageReader reader = null; try { // // get info about the raster we have to read // // get a stream assert cachedStreamSPI != null : "no cachedStreamSPI available!"; inStream = cachedStreamSPI.createInputStreamInstance( granuleUrl, ImageIO.getUseCache(), ImageIO.getCacheDirectory()); if (inStream == null) return null; // get a reader and try to cache the relevant SPI if (cachedReaderSPI == null) { reader = ImageIOExt.getImageioReader(inStream); if (reader != null) cachedReaderSPI = reader.getOriginatingProvider(); } else reader = cachedReaderSPI.createReaderInstance(); if (reader == null) { if (LOGGER.isLoggable(java.util.logging.Level.WARNING)) { LOGGER.warning( new StringBuilder("Unable to get s reader for granuleDescriptor ") .append(this.toString()) .append(" with request ") .append(request.toString()) .append(" Resulting in no granule loaded: Empty result") .toString()); } return null; } // set input reader.setInput(inStream); // Checking for heterogeneous granules if (request.isHeterogeneousGranules()) { // create read parameters readParameters = new ImageReadParam(); // override the overviews controller for the base layer imageIndex = ReadParamsController.setReadParams( request.getRequestedResolution(), request.getOverviewPolicy(), request.getDecimationPolicy(), readParameters, request.rasterManager, overviewsController); } else { imageIndex = index; readParameters = imageReadParameters; } // get selected level and base level dimensions final GranuleOverviewLevelDescriptor selectedlevel = getLevel(imageIndex, reader); // now create the crop grid to world which can be used to decide // which source area we need to crop in the selected level taking // into account the scale factors imposed by the selection of this // level together with the base level grid to world transformation AffineTransform2D cropWorldToGrid = new AffineTransform2D(selectedlevel.gridToWorldTransformCorner); cropWorldToGrid = (AffineTransform2D) cropWorldToGrid.inverse(); // computing the crop source area which lives into the // selected level raster space, NOTICE that at the end we need to // take into account the fact that we might also decimate therefore // we cannot just use the crop grid to world but we need to correct // it. final Rectangle sourceArea = CRS.transform(cropWorldToGrid, intersection).toRectangle2D().getBounds(); // gutter if (selectedlevel.baseToLevelTransform.isIdentity()) sourceArea.grow(2, 2); XRectangle2D.intersect( sourceArea, selectedlevel.rasterDimensions, sourceArea); // make sure roundings don't bother us // is it empty?? if (sourceArea.isEmpty()) { if (LOGGER.isLoggable(java.util.logging.Level.FINE)) { LOGGER.fine( "Got empty area for granuleDescriptor " + this.toString() + " with request " + request.toString() + " Resulting in no granule loaded: Empty result"); } return null; } else if (LOGGER.isLoggable(java.util.logging.Level.FINER)) { LOGGER.finer( "Loading level " + imageIndex + " with source region: " + sourceArea + " subsampling: " + readParameters.getSourceXSubsampling() + "," + readParameters.getSourceYSubsampling() + " for granule:" + granuleUrl); } // Setting subsampling int newSubSamplingFactor = 0; final String pluginName = cachedReaderSPI.getPluginClassName(); if (pluginName != null && pluginName.equals(ImageUtilities.DIRECT_KAKADU_PLUGIN)) { final int ssx = readParameters.getSourceXSubsampling(); final int ssy = readParameters.getSourceYSubsampling(); newSubSamplingFactor = ImageIOUtilities.getSubSamplingFactor2(ssx, ssy); if (newSubSamplingFactor != 0) { if (newSubSamplingFactor > maxDecimationFactor && maxDecimationFactor != -1) { newSubSamplingFactor = maxDecimationFactor; } readParameters.setSourceSubsampling(newSubSamplingFactor, newSubSamplingFactor, 0, 0); } } // set the source region readParameters.setSourceRegion(sourceArea); final RenderedImage raster; try { // read raster = request .getReadType() .read( readParameters, imageIndex, granuleUrl, selectedlevel.rasterDimensions, reader, hints, false); } catch (Throwable e) { if (LOGGER.isLoggable(java.util.logging.Level.FINE)) { LOGGER.log( java.util.logging.Level.FINE, "Unable to load raster for granuleDescriptor " + this.toString() + " with request " + request.toString() + " Resulting in no granule loaded: Empty result", e); } return null; } // use fixed source area sourceArea.setRect(readParameters.getSourceRegion()); // // setting new coefficients to define a new affineTransformation // to be applied to the grid to world transformation // ----------------------------------------------------------------------------------- // // With respect to the original envelope, the obtained planarImage // needs to be rescaled. The scaling factors are computed as the // ratio between the cropped source region sizes and the read // image sizes. // // place it in the mosaic using the coords created above; double decimationScaleX = ((1.0 * sourceArea.width) / raster.getWidth()); double decimationScaleY = ((1.0 * sourceArea.height) / raster.getHeight()); final AffineTransform decimationScaleTranform = XAffineTransform.getScaleInstance(decimationScaleX, decimationScaleY); // keep into account translation to work into the selected level raster space final AffineTransform afterDecimationTranslateTranform = XAffineTransform.getTranslateInstance(sourceArea.x, sourceArea.y); // now we need to go back to the base level raster space final AffineTransform backToBaseLevelScaleTransform = selectedlevel.baseToLevelTransform; // now create the overall transform final AffineTransform finalRaster2Model = new AffineTransform(baseGridToWorld); finalRaster2Model.concatenate(CoverageUtilities.CENTER_TO_CORNER); final double x = finalRaster2Model.getTranslateX(); final double y = finalRaster2Model.getTranslateY(); if (!XAffineTransform.isIdentity(backToBaseLevelScaleTransform, Utils.AFFINE_IDENTITY_EPS)) finalRaster2Model.concatenate(backToBaseLevelScaleTransform); if (!XAffineTransform.isIdentity(afterDecimationTranslateTranform, Utils.AFFINE_IDENTITY_EPS)) finalRaster2Model.concatenate(afterDecimationTranslateTranform); if (!XAffineTransform.isIdentity(decimationScaleTranform, Utils.AFFINE_IDENTITY_EPS)) finalRaster2Model.concatenate(decimationScaleTranform); // keep into account translation factors to place this tile finalRaster2Model.preConcatenate((AffineTransform) mosaicWorldToGrid); final Interpolation interpolation = request.getInterpolation(); // paranoiac check to avoid that JAI freaks out when computing its internal layouT on images // that are too small Rectangle2D finalLayout = ImageUtilities.layoutHelper( raster, (float) finalRaster2Model.getScaleX(), (float) finalRaster2Model.getScaleY(), (float) finalRaster2Model.getTranslateX(), (float) finalRaster2Model.getTranslateY(), interpolation); if (finalLayout.isEmpty()) { if (LOGGER.isLoggable(java.util.logging.Level.INFO)) LOGGER.info( "Unable to create a granuleDescriptor " + this.toString() + " due to jai scale bug creating a null source area"); return null; } ROI granuleLoadingShape = null; if (granuleROIShape != null) { final Point2D translate = mosaicWorldToGrid.transform(new DirectPosition2D(x, y), (Point2D) null); AffineTransform tx2 = new AffineTransform(); tx2.preConcatenate( AffineTransform.getScaleInstance( ((AffineTransform) mosaicWorldToGrid).getScaleX(), -((AffineTransform) mosaicWorldToGrid).getScaleY())); tx2.preConcatenate( AffineTransform.getScaleInstance( ((AffineTransform) baseGridToWorld).getScaleX(), -((AffineTransform) baseGridToWorld).getScaleY())); tx2.preConcatenate( AffineTransform.getTranslateInstance(translate.getX(), translate.getY())); granuleLoadingShape = (ROI) granuleROIShape.transform(tx2); } // apply the affine transform conserving indexed color model final RenderingHints localHints = new RenderingHints( JAI.KEY_REPLACE_INDEX_COLOR_MODEL, interpolation instanceof InterpolationNearest ? Boolean.FALSE : Boolean.TRUE); if (XAffineTransform.isIdentity(finalRaster2Model, Utils.AFFINE_IDENTITY_EPS)) { return new GranuleLoadingResult(raster, granuleLoadingShape, granuleUrl, doFiltering); } else { // // In case we are asked to use certain tile dimensions we tile // also at this stage in case the read type is Direct since // buffered images comes up untiled and this can affect the // performances of the subsequent affine operation. // final Dimension tileDimensions = request.getTileDimensions(); if (tileDimensions != null && request.getReadType().equals(ReadType.DIRECT_READ)) { final ImageLayout layout = new ImageLayout(); layout.setTileHeight(tileDimensions.width).setTileWidth(tileDimensions.height); localHints.add(new RenderingHints(JAI.KEY_IMAGE_LAYOUT, layout)); } else { if (hints != null && hints.containsKey(JAI.KEY_IMAGE_LAYOUT)) { final Object layout = hints.get(JAI.KEY_IMAGE_LAYOUT); if (layout != null && layout instanceof ImageLayout) { localHints.add( new RenderingHints(JAI.KEY_IMAGE_LAYOUT, ((ImageLayout) layout).clone())); } } } if (hints != null && hints.containsKey(JAI.KEY_TILE_CACHE)) { final Object cache = hints.get(JAI.KEY_TILE_CACHE); if (cache != null && cache instanceof TileCache) localHints.add(new RenderingHints(JAI.KEY_TILE_CACHE, (TileCache) cache)); } if (hints != null && hints.containsKey(JAI.KEY_TILE_SCHEDULER)) { final Object scheduler = hints.get(JAI.KEY_TILE_SCHEDULER); if (scheduler != null && scheduler instanceof TileScheduler) localHints.add(new RenderingHints(JAI.KEY_TILE_SCHEDULER, (TileScheduler) scheduler)); } boolean addBorderExtender = true; if (hints != null && hints.containsKey(JAI.KEY_BORDER_EXTENDER)) { final Object extender = hints.get(JAI.KEY_BORDER_EXTENDER); if (extender != null && extender instanceof BorderExtender) { localHints.add(new RenderingHints(JAI.KEY_BORDER_EXTENDER, (BorderExtender) extender)); addBorderExtender = false; } } // border extender if (addBorderExtender) { localHints.add(ImageUtilities.BORDER_EXTENDER_HINTS); } // boolean hasScaleX=!(Math.abs(finalRaster2Model.getScaleX()-1) < // 1E-2/(raster.getWidth()+1-raster.getMinX())); // boolean hasScaleY=!(Math.abs(finalRaster2Model.getScaleY()-1) < // 1E-2/(raster.getHeight()+1-raster.getMinY())); // boolean hasShearX=!(finalRaster2Model.getShearX() == 0.0); // boolean hasShearY=!(finalRaster2Model.getShearY() == 0.0); // boolean hasTranslateX=!(Math.abs(finalRaster2Model.getTranslateX()) < // 0.01F); // boolean hasTranslateY=!(Math.abs(finalRaster2Model.getTranslateY()) < // 0.01F); // boolean isTranslateXInt=!(Math.abs(finalRaster2Model.getTranslateX() - // (int) finalRaster2Model.getTranslateX()) < 0.01F); // boolean isTranslateYInt=!(Math.abs(finalRaster2Model.getTranslateY() - // (int) finalRaster2Model.getTranslateY()) < 0.01F); // // boolean isIdentity = finalRaster2Model.isIdentity() && // !hasScaleX&&!hasScaleY &&!hasTranslateX&&!hasTranslateY; // // TODO how can we check that the a skew is harmelss???? // if(isIdentity){ // // TODO check if we are missing anything like tiling or such that // comes from hints // return new GranuleLoadingResult(raster, granuleLoadingShape, // granuleUrl, doFiltering); // } // // // TOLERANCE ON PIXELS SIZE // // // Check and see if the affine transform is in fact doing // // a Translate operation. That is a scale by 1 and no rotation. // // In which case call translate. Note that only integer translate // // is applicable. For non-integer translate we'll have to do the // // affine. // // If the hints contain an ImageLayout hint, we can't use // // TranslateIntOpImage since it isn't capable of dealing with that. // // Get ImageLayout from renderHints if any. // ImageLayout layout = RIFUtil.getImageLayoutHint(localHints); // if ( !hasScaleX && // !hasScaleY && // !hasShearX&& // !hasShearY&& // isTranslateXInt&& // isTranslateYInt&& // layout == null) { // // It's a integer translate // return new GranuleLoadingResult(new TranslateIntOpImage(raster, // localHints, // (int) finalRaster2Model.getShearX(), // (int) // finalRaster2Model.getShearY()),granuleLoadingShape, granuleUrl, doFiltering); // } ImageWorker iw = new ImageWorker(raster); iw.setRenderingHints(localHints); iw.affine(finalRaster2Model, interpolation, request.getBackgroundValues()); return new GranuleLoadingResult( iw.getRenderedImage(), granuleLoadingShape, granuleUrl, doFiltering); } } catch (IllegalStateException e) { if (LOGGER.isLoggable(java.util.logging.Level.WARNING)) { LOGGER.log( java.util.logging.Level.WARNING, new StringBuilder("Unable to load raster for granuleDescriptor ") .append(this.toString()) .append(" with request ") .append(request.toString()) .append(" Resulting in no granule loaded: Empty result") .toString(), e); } return null; } catch (org.opengis.referencing.operation.NoninvertibleTransformException e) { if (LOGGER.isLoggable(java.util.logging.Level.WARNING)) { LOGGER.log( java.util.logging.Level.WARNING, new StringBuilder("Unable to load raster for granuleDescriptor ") .append(this.toString()) .append(" with request ") .append(request.toString()) .append(" Resulting in no granule loaded: Empty result") .toString(), e); } return null; } catch (TransformException e) { if (LOGGER.isLoggable(java.util.logging.Level.WARNING)) { LOGGER.log( java.util.logging.Level.WARNING, new StringBuilder("Unable to load raster for granuleDescriptor ") .append(this.toString()) .append(" with request ") .append(request.toString()) .append(" Resulting in no granule loaded: Empty result") .toString(), e); } return null; } finally { try { if (request.getReadType() != ReadType.JAI_IMAGEREAD && inStream != null) { inStream.close(); } } finally { if (request.getReadType() != ReadType.JAI_IMAGEREAD && reader != null) { reader.dispose(); } } } }