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Java library for reading and writing FITS files. FITS, the Flexible Image Transport System, is the format commonly used in the archiving and transport of astronomical data.
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package nom.tam.image.tile.operation.buffer;

/*
 * #%L
 * nom.tam FITS library
 * %%
 * Copyright (C) 1996 - 2015 nom-tam-fits
 * %%
 * This is free and unencumbered software released into the public domain.
 * 
 * Anyone is free to copy, modify, publish, use, compile, sell, or
 * distribute this software, either in source code form or as a compiled
 * binary, for any purpose, commercial or non-commercial, and by any
 * means.
 * 
 * In jurisdictions that recognize copyright laws, the author or authors
 * of this software dedicate any and all copyright interest in the
 * software to the public domain. We make this dedication for the benefit
 * of the public at large and to the detriment of our heirs and
 * successors. We intend this dedication to be an overt act of
 * relinquishment in perpetuity of all present and future rights to this
 * software under copyright law.
 * 
 * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
 * EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
 * MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT.
 * IN NO EVENT SHALL THE AUTHORS BE LIABLE FOR ANY CLAIM, DAMAGES OR
 * OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE,
 * ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR
 * OTHER DEALINGS IN THE SOFTWARE.
 * #L%
 */

import java.nio.Buffer;

import nom.tam.util.type.PrimitiveType;
import nom.tam.util.type.PrimitiveTypeHandler;

/**
 * This subclass of the row based view, will abstract the problems that occur
 * when the tile does not spread over a whole row. in that case the buffer
 * describing the image does not match the buffer describing the tile. That is
 * why a temporary buffer is needed to make the buffer continuous.
 */
class TileBufferColumnBased extends TileBuffer {

    /**
     * the buffer representing the tile data gap less. this will exist only
     * between the first getBuffer() and the finish(). This way the memory used
     * for the data copy is allocates as early as needed and freed as soon as
     * possible.
     */
    private Buffer gapLessBuffer;

    /**
     * the width of the image in pixels, that differs from the width of the
     * tile.
     */
    private final int imageWidth;

    TileBufferColumnBased(PrimitiveType baseType, int dataOffset, int imageWidth, int width, int height) {
        super(baseType, dataOffset, width, height);
        this.imageWidth = imageWidth;
    }

    @Override
    public void finish() {
        desolveGapLessBuffer();
    }

    @Override
    public Buffer getBuffer() {
        if (this.gapLessBuffer == null) {
            createGapLessBuffer();
        }
        return this.gapLessBuffer;
    }

    /**
     * create the temporary buffer that contains no data gaps.
     */
    private void createGapLessBuffer() {
        final int gap = this.imageWidth - getWidth();
        final int pixelSizeInData = getPixelSizeInData();
        Buffer imagebuffer = getImageBuffer();
        imagebuffer.position(0);
        imagebuffer.limit(0);
        PrimitiveType type = primitiveType();
        this.gapLessBuffer = type.newBuffer(getPixelSize());
        while (imagebuffer.limit() < pixelSizeInData) {
            imagebuffer.limit(imagebuffer.position() + getWidth());
            type.appendBuffer(this.gapLessBuffer, imagebuffer);
            imagebuffer.limit(Math.min(pixelSizeInData, imagebuffer.position() + gap));
            imagebuffer.position(imagebuffer.limit());
        }
        this.gapLessBuffer.rewind();
    }

    /**
     * resolve the temporary buffer that contains no data gaps, and put the data
     * back into the image buffer.
     */
    private void desolveGapLessBuffer() {
        final int gap = this.imageWidth - getWidth();
        final int pixelSize = getPixelSize();
        Buffer imagebuffer = getImageBuffer();
        imagebuffer.limit(getPixelSizeInData());
        imagebuffer.rewind();
        this.gapLessBuffer.rewind();
        this.gapLessBuffer.limit(0);
        PrimitiveType type = primitiveType();
        while (this.gapLessBuffer.limit() < pixelSize) {
            this.gapLessBuffer.limit(this.gapLessBuffer.position() + getWidth());
            type.appendBuffer(imagebuffer, this.gapLessBuffer);
            imagebuffer.position(Math.min(imagebuffer.position() + gap, imagebuffer.limit()));
        }
        this.gapLessBuffer = null;
    }

    /**
     * @return size of the tile data inside the image data. normally
     *         tile-height*image-width but then the data block of the last tile
     *         would go over the image data limit.
     */
    private int getPixelSizeInData() {
        return (getHeight() - 1) * this.imageWidth + getWidth();
    }

    private PrimitiveType primitiveType() {
        return PrimitiveTypeHandler.valueOf(getImageBuffer().getClass());
    }

}