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OrientationJ/src/imageware/ByteBuffer.java
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ByteBuffer.java
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package imageware; import ij.ImageStack; import ij.process.ByteProcessor; import ij.process.ColorProcessor; import ij.process.FloatProcessor; import ij.process.ImageProcessor; import ij.process.ShortProcessor; import java.awt.Image; import java.awt.image.ImageObserver; import java.awt.image.PixelGrabber; /** * Class ByteBuffer. * * @author Daniel Sage Biomedical Imaging Group Ecole Polytechnique Federale de * Lausanne, Lausanne, Switzerland */ public class ByteBuffer implements Buffer { protected Object[] data = null; protected int nx = 0; protected int ny = 0; protected int nz = 0; protected int nxy = 0; /** * Constructor of a empty 3D byte buffer. * * @param nx * size of the 3D buffer in the X axis * @param ny * size of the 3D buffer in the Y axis * @param nz * size of the 3D buffer in the Z axis */ protected ByteBuffer(int nx, int ny, int nz) { this.nx = nx; this.ny = ny; this.nz = nz; if (nx <= 0 || ny <= 0 || nz <= 0) throw_constructor(nx, ny, nz); allocate(); } /** * Constructor of a byte buffer from a object Image of Java. * * @param image * source to build a new imageware */ protected ByteBuffer(Image image, int mode) { if (image == null) { throw_constructor(); } ImageObserver observer = null; this.nx = image.getWidth(observer); this.ny = image.getHeight(observer); this.nz = 1; this.nxy = nx * ny; byte[] pixels = new byte[nxy]; PixelGrabber pg = new PixelGrabber(image, 0, 0, nx, ny, false); try { pg.grabPixels(); pixels = (byte[]) (pg.getPixels()); } catch (Exception e) { throw_constructor(); } allocate(); for (int k = 0; k < nxy; k++) ((byte[]) data[0])[k] = (byte) (pixels[k] & 0xFF); } /** * Constructor of a byte buffer from a ImageStack. * * New data are allocated if the mode is CREATE, the imageware use the data * of ImageJ if the mode is WRAP. * * @param stack * source to build a new imageware * @param mode * WRAP or CREATE */ protected ByteBuffer(ImageStack stack, int mode) { if (stack == null) { throw_constructor(); } this.nx = stack.getWidth(); this.ny = stack.getHeight(); this.nz = stack.getSize(); this.nxy = nx * ny; switch (mode) { case ImageWare.WRAP: this.data = stack.getImageArray(); break; case ImageWare.CREATE: allocate(); ImageProcessor ip = stack.getProcessor(1); if (ip instanceof ByteProcessor) { Object[] vol = stack.getImageArray(); for (int z = 0; z < nz; z++) { byte[] slice = (byte[]) vol[z]; for (int k = 0; k < nxy; k++) { ((byte[]) data[z])[k] = (byte) (slice[k] & 0xFF); } } } else if (ip instanceof ShortProcessor) { Object[] vol = stack.getImageArray(); for (int z = 0; z < nz; z++) { short[] slice = (short[]) vol[z]; for (int k = 0; k < nxy; k++) { ((byte[]) data[z])[k] = (byte) (slice[k] & 0xFFFF); } } } else if (ip instanceof FloatProcessor) { Object[] vol = stack.getImageArray(); for (int z = 0; z < nz; z++) { float[] slice = (float[]) vol[z]; for (int k = 0; k < nxy; k++) { ((byte[]) data[z])[k] = (byte) slice[k]; } } } else if (ip instanceof ColorProcessor) { double r, g, b; int c; ColorProcessor cp; int[] pixels; for (int z = 0; z < nz; z++) { cp = (ColorProcessor) stack.getProcessor(z + 1); pixels = (int[]) cp.getPixels(); for (int k = 0; k < nxy; k++) { c = pixels[k]; r = (double) ((c & 0xFF0000) >> 16); g = (double) ((c & 0xFF00) >> 8); b = (double) ((c & 0xFF)); ((byte[]) data[z])[k] = (byte) ((r + g + b) / 3.0); } } } else { throw_constructor(); } break; default: throw_constructor(); break; } } /** * Constructor of a byte buffer from a specific color channel of ImageStack. * * New data are always allocated. If it is a gray image the imageware is * created and fill up with data of the source ImageStack. If it is a color * image only the selected channel is used to create this imageware. * * @param stack * source to build a new imageware * @param channel * RED, GREEN or BLUE */ protected ByteBuffer(ImageStack stack, byte channel) { if (stack == null) { throw_constructor(); } this.nx = stack.getWidth(); this.ny = stack.getHeight(); this.nz = stack.getSize(); this.nxy = nx * ny; allocate(); ImageProcessor ip = stack.getProcessor(1); if (ip instanceof ByteProcessor) { Object[] vol = stack.getImageArray(); for (int z = 0; z < nz; z++) { byte[] slice = (byte[]) vol[z]; for (int k = 0; k < nxy; k++) { ((byte[]) data[z])[k] = (byte) (slice[k] & 0xFF); } } } else if (ip instanceof ShortProcessor) { Object[] vol = stack.getImageArray(); for (int z = 0; z < nz; z++) { short[] slice = (short[]) vol[z]; for (int k = 0; k < nxy; k++) { ((byte[]) data[z])[k] = (byte) (slice[k] & 0xFFFF); } } } else if (ip instanceof FloatProcessor) { Object[] vol = stack.getImageArray(); for (int z = 0; z < nz; z++) { float[] slice = (float[]) vol[z]; for (int k = 0; k < nxy; k++) { ((byte[]) data[z])[k] = (byte) slice[k]; } } } else if (ip instanceof ColorProcessor) { ColorProcessor cp; int[] pixels; for (int z = 0; z < nz; z++) { cp = (ColorProcessor) stack.getProcessor(z + 1); pixels = (int[]) cp.getPixels(); switch (channel) { case ImageWare.RED: for (int k = 0; k < nxy; k++) { ((byte[]) data[z])[k] = (byte) ((pixels[k] & 0xFF0000) >> 16); } break; case ImageWare.GREEN: for (int k = 0; k < nxy; k++) { ((byte[]) data[z])[k] = (byte) ((pixels[k] & 0xFF00) >> 8); } break; case ImageWare.BLUE: for (int k = 0; k < nxy; k++) { ((byte[]) data[z])[k] = (byte) (pixels[k] & 0xFF); } break; default: throw_constructor(); } } } else { throw_constructor(); } } /** * Constructor of a byte buffer from a byte array. * * @param array * source to build this new imageware */ protected ByteBuffer(byte[] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = 1; this.nz = 1; allocate(); putX(0, 0, 0, array); } /** * Constructor of a byte buffer from a byte array. * * @param array * source to build this new imageware */ protected ByteBuffer(byte[][] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = array[0].length; this.nz = 1; allocate(); putXY(0, 0, 0, array); } /** * Constructor of a byte buffer from a byte array. * * @param array * source to build this new imageware */ protected ByteBuffer(byte[][][] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = array[0].length; this.nz = array[0][0].length; allocate(); putXYZ(0, 0, 0, array); } /** * Constructor of a byte buffer from a short array. * * @param array * source to build this new imageware */ protected ByteBuffer(short[] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = 1; this.nz = 1; allocate(); putX(0, 0, 0, array); } /** * Constructor of a byte buffer from a short array. * * @param array * source to build this new imageware */ protected ByteBuffer(short[][] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = array[0].length; this.nz = 1; allocate(); putXY(0, 0, 0, array); } /** * Constructor of a byte buffer from a short array. * * @param array * source to build this new imageware */ protected ByteBuffer(short[][][] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = array[0].length; this.nz = array[0][0].length; allocate(); putXYZ(0, 0, 0, array); } /** * Constructor of a byte buffer from a float array. * * @param array * source to build this new imageware */ protected ByteBuffer(float[] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = 1; this.nz = 1; allocate(); putX(0, 0, 0, array); } /** * Constructor of a byte buffer from a float array. * * @param array * source to build this new imageware */ protected ByteBuffer(float[][] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = array[0].length; this.nz = 1; allocate(); putXY(0, 0, 0, array); } /** * Constructor of a byte buffer from a float array. * * @param array * source to build this new imageware */ protected ByteBuffer(float[][][] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = array[0].length; this.nz = array[0][0].length; allocate(); putXYZ(0, 0, 0, array); } /** * Constructor of a byte buffer from a double array. * * @param array * source to build this new imageware */ protected ByteBuffer(double[] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = 1; this.nz = 1; allocate(); putX(0, 0, 0, array); } /** * Constructor of a byte buffer from a double array. * * @param array * source to build this new imageware */ protected ByteBuffer(double[][] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = array[0].length; this.nz = 1; allocate(); putXY(0, 0, 0, array); } /** * Constructor of a byte buffer from a double array. * * @param array * source to build this new imageware */ protected ByteBuffer(double[][][] array, int mode) { if (array == null) { throw_constructor(); } this.nx = array.length; this.ny = array[0].length; this.nz = array[0][0].length; allocate(); putXYZ(0, 0, 0, array); } /** * Return the type of this imageware. * * @return the type of this imageware */ public int getType() { return ImageWare.BYTE; } /** * Return the type of this imageware in a string format. * * @return the type of this imageware translated in a string format */ public String getTypeToString() { return "Byte"; } /** * Return the number of dimension of this imageware (1, 2 or 3). * * @return the number of dimension of this imageware */ public int getDimension() { int dims = 0; dims += (nx > 1 ? 1 : 0); dims += (ny > 1 ? 1 : 0); dims += (nz > 1 ? 1 : 0); return dims; } /** * Return the size of the imageware int[0] : x, int[1] : y, int[2] : z. * * @return an array given the size of the imageware */ public int[] getSize() { int[] size = { nx, ny, nz }; return size; } /** * Return the size in the X axis. * * @return the size in the X axis */ public int getSizeX() { return nx; } /** * Return the size in the Y axis. * * @return the size in the Y axis */ public int getSizeY() { return ny; } /** * Return the size in the Z axis. * * @return the size in the Z axis */ public int getSizeZ() { return nz; } /** * Return the size in the X axis. * * @return the size in the X axis */ public int getWidth() { return nx; } /** * Return the size in the Y axis. * * @return the size in the Y axis */ public int getHeight() { return ny; } /** * Return the size in the Z axis. * * @return the size in the Z axis */ public int getDepth() { return nz; } /** * Return the number of pixels in the imageware. * * @return number of pixels in the imageware */ public int getTotalSize() { return nxy * nz; } /** * Return true is this imageware has the same size the imageware given as * parameter. * * @param imageware * imageware to be compared * @return true if the imageware of the same size than this imageware */ public boolean isSameSize(ImageWare imageware) { if (nx != imageware.getSizeX()) return false; if (ny != imageware.getSizeY()) return false; if (nz != imageware.getSizeZ()) return false; return true; } // ------------------------------------------------------------------ // // put Section // // ------------------------------------------------------------------ /** * Put an array into the imageware at the position (x,y,z) in X axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * ImageWare object to put into the imageware */ public void putX(int x, int y, int z, ImageWare buffer) { int bnx = buffer.getSizeX(); double buf[] = new double[bnx]; buffer.getX(0, 0, 0, buf); putX(x, y, z, buf); } /** * Put an array into the imageware at the position (x,y,z) in Y axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * ImageWare object to put into the imageware */ public void putY(int x, int y, int z, ImageWare buffer) { int bny = buffer.getSizeY(); double buf[] = new double[bny]; buffer.getY(0, 0, 0, buf); putY(x, y, z, buf); } /** * Put an array into the imageware at the position (x,y,z) in Z axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * ImageWare object to put into the imageware */ public void putZ(int x, int y, int z, ImageWare buffer) { int bnz = buffer.getSizeZ(); double buf[] = new double[bnz]; buffer.getZ(0, 0, 0, buf); putZ(x, y, z, buf); } /** * Put an array into the imageware at the position (x,y,z) in XY axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * ImageWare object to put into the imageware */ public void putXY(int x, int y, int z, ImageWare buffer) { int bnx = buffer.getSizeX(); int bny = buffer.getSizeY(); double buf[][] = new double[bnx][bny]; buffer.getXY(0, 0, 0, buf); putXY(x, y, z, buf); } /** * Put an array into the imageware at the position (x,y,z) in XZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * ImageWare object to put into the imageware */ public void putXZ(int x, int y, int z, ImageWare buffer) { int bnx = buffer.getSizeX(); int bnz = buffer.getSizeZ(); double buf[][] = new double[bnx][bnz]; buffer.getXZ(0, 0, 0, buf); putXZ(x, y, z, buf); } /** * Put an array into the imageware at the position (x,y,z) in YZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * ImageWare object to put into the imageware */ public void putYZ(int x, int y, int z, ImageWare buffer) { int bny = buffer.getSizeY(); int bnz = buffer.getSizeZ(); double buf[][] = new double[bny][bnz]; buffer.getYZ(0, 0, 0, buf); putYZ(x, y, z, buf); } /** * Put an array into the imageware at the position (x,y,z) in XYZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * ImageWare object to put into the imageware */ public void putXYZ(int x, int y, int z, ImageWare buffer) { int bnx = buffer.getSizeX(); int bny = buffer.getSizeY(); int bnz = buffer.getSizeZ(); double buf[][][] = new double[bnx][bny][bnz]; buffer.getXYZ(0, 0, 0, buf); putXYZ(x, y, z, buf); } /** * Put an array into the imageware at the position (x,y,z) in X axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * byte 1D array to put into the imageware */ public void putX(int x, int y, int z, byte[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; System.arraycopy(buffer, 0, tmp, offset, leni); } catch (Exception e) { throw_put("X", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in X axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * short 1D array to put into the imageware */ public void putX(int x, int y, int z, short[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { tmp[offset] = (byte) (buffer[i] & 0xFFFF); offset++; } } catch (Exception e) { throw_put("X", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in X axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * float 1D array to put into the imageware */ public void putX(int x, int y, int z, float[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { tmp[offset] = (byte) (buffer[i]); offset++; } } catch (Exception e) { throw_put("X", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in X axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * double 1D array to put into the imageware */ public void putX(int x, int y, int z, double[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { tmp[offset] = (byte) (buffer[i]); offset++; } } catch (Exception e) { throw_put("X", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in Y axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * byte 1D array to put into the imageware */ public void putY(int x, int y, int z, byte[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { tmp[offset] = (byte) (buffer[i] & 0xFF); offset += nx; } } catch (Exception e) { throw_put("Y", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in Y axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * short 1D array to put into the imageware */ public void putY(int x, int y, int z, short[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { tmp[offset] = (byte) (buffer[i] & 0xFFFF); offset += nx; } } catch (Exception e) { throw_put("Y", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in Y axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * float 1D array to put into the imageware */ public void putY(int x, int y, int z, float[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { tmp[offset] = (byte) (buffer[i]); offset += nx; } } catch (Exception e) { throw_put("Y", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in Y axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * double 1D array to put into the imageware */ public void putY(int x, int y, int z, double[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { tmp[offset] = (byte) (buffer[i]); offset += nx; } } catch (Exception e) { throw_put("Y", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in Z axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * bybytete 1D array to put into the imageware */ public void putZ(int x, int y, int z, byte[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; for (int i = 0; i < leni; i++) { ((byte[]) data[z])[offset] = (byte) (buffer[i] & 0xFF); z++; } } catch (Exception e) { throw_put("Z", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in Z axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * byshortte 1D array to put into the imageware */ public void putZ(int x, int y, int z, short[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; for (int i = 0; i < leni; i++) { ((byte[]) data[z])[offset] = (byte) (buffer[i] & 0xFFFF); z++; } } catch (Exception e) { throw_put("Z", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in Z axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * byfloatte 1D array to put into the imageware */ public void putZ(int x, int y, int z, float[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; for (int i = 0; i < leni; i++) { ((byte[]) data[z])[offset] = (byte) (buffer[i]); z++; } } catch (Exception e) { throw_put("Z", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in Z axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * bydoublete 1D array to put into the imageware */ public void putZ(int x, int y, int z, double[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; for (int i = 0; i < leni; i++) { ((byte[]) data[z])[offset] = (byte) (buffer[i]); z++; } } catch (Exception e) { throw_put("Z", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XY axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * byte 2D array to put into the imageware */ public void putXY(int x, int y, int z, byte[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (y + j) * nx; for (int i = 0; i < leni; i++, offset++) { tmp[offset] = (byte) (buffer[i][j] & 0xFF); } } } catch (Exception e) { throw_put("XY", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XY axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * short 2D array to put into the imageware */ public void putXY(int x, int y, int z, short[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (y + j) * nx; for (int i = 0; i < leni; i++, offset++) { tmp[offset] = (byte) (buffer[i][j] & 0xFFFF); } } } catch (Exception e) { throw_put("XY", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XY axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * float 2D array to put into the imageware */ public void putXY(int x, int y, int z, float[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (y + j) * nx; for (int i = 0; i < leni; i++, offset++) { tmp[offset] = (byte) (buffer[i][j]); } } } catch (Exception e) { throw_put("XY", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XY axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * double 2D array to put into the imageware */ public void putXY(int x, int y, int z, double[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (y + j) * nx; for (int i = 0; i < leni; i++, offset++) { tmp[offset] = (byte) (buffer[i][j]); } } } catch (Exception e) { throw_put("XY", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * byte 2D array to put into the imageware */ public void putXZ(int x, int y, int z, byte[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++) { offset = x + j * nx; for (int i = 0; i < leni; i++, offset++) { ((byte[]) data[z])[offset] = (byte) (buffer[i][j] & 0xFF); } } } catch (Exception e) { throw_put("YZ", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * short 2D array to put into the imageware */ public void putXZ(int x, int y, int z, short[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++) { offset = x + j * nx; for (int i = 0; i < leni; i++, offset++) { ((byte[]) data[z])[offset] = (byte) (buffer[i][j] & 0xFFFF); } } } catch (Exception e) { throw_put("YZ", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * float 2D array to put into the imageware */ public void putXZ(int x, int y, int z, float[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++) { offset = x + j * nx; for (int i = 0; i < leni; i++, offset++) { ((byte[]) data[z])[offset] = (byte) (buffer[i][j]); } } } catch (Exception e) { throw_put("YZ", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * double 2D array to put into the imageware */ public void putXZ(int x, int y, int z, double[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++) { offset = x + j * nx; for (int i = 0; i < leni; i++, offset++) { ((byte[]) data[z])[offset] = (byte) (buffer[i][j]); } } } catch (Exception e) { throw_put("YZ", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in YZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * byte 2D array to put into the imageware */ public void putYZ(int x, int y, int z, byte[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++, offset = (x + nx * y)) for (int i = 0; i < leni; i++, offset += nx) { ((byte[]) data[z])[offset] = (byte) (buffer[i][j] & 0xFF); } } catch (Exception e) { throw_put("XZ", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in YZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * short 2D array to put into the imageware */ public void putYZ(int x, int y, int z, short[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++, offset = (x + nx * y)) for (int i = 0; i < leni; i++, offset += nx) { ((byte[]) data[z])[offset] = (byte) (buffer[i][j] & 0xFFFF); } } catch (Exception e) { throw_put("XZ", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in YZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * float 2D array to put into the imageware */ public void putYZ(int x, int y, int z, float[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++, offset = (x + nx * y)) for (int i = 0; i < leni; i++, offset += nx) { ((byte[]) data[z])[offset] = (byte) (buffer[i][j]); } } catch (Exception e) { throw_put("XZ", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in YZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * double 2D array to put into the imageware */ public void putYZ(int x, int y, int z, double[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++, offset = (x + nx * y)) for (int i = 0; i < leni; i++, offset += nx) { ((byte[]) data[z])[offset] = (byte) (buffer[i][j]); } } catch (Exception e) { throw_put("XZ", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XYZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * byte 3D array to put into the imageware */ public void putXYZ(int x, int y, int z, byte[][][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; int lenk = buffer[0][0].length; for (int k = 0; k < lenk; k++, z++) { byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (j + y) * nx; for (int i = 0; i < leni; i++, offset++) { tmp[offset] = (byte) (buffer[i][j][k] & 0xFF); } } } } catch (Exception e) { throw_put("XYZ", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XYZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * short 3D array to put into the imageware */ public void putXYZ(int x, int y, int z, short[][][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; int lenk = buffer[0][0].length; for (int k = 0; k < lenk; k++, z++) { byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (j + y) * nx; for (int i = 0; i < leni; i++, offset++) { tmp[offset] = (byte) (buffer[i][j][k] & 0xFFFF); } } } } catch (Exception e) { throw_put("XYZ", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XYZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * float 3D array to put into the imageware */ public void putXYZ(int x, int y, int z, float[][][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; int lenk = buffer[0][0].length; for (int k = 0; k < lenk; k++, z++) { byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (j + y) * nx; for (int i = 0; i < leni; i++, offset++) { tmp[offset] = (byte) (buffer[i][j][k]); } } } } catch (Exception e) { throw_put("XYZ", "No check", buffer, x, y, z); } } /** * Put an array into the imageware at the position (x,y,z) in XYZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to put the buffer * @param y * Y starting position to put the buffer * @param z * Z starting position to put the buffer * @param buffer * double 3D array to put into the imageware */ public void putXYZ(int x, int y, int z, double[][][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; int lenk = buffer[0][0].length; for (int k = 0; k < lenk; k++, z++) { byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (j + y) * nx; for (int i = 0; i < leni; i++, offset++) { tmp[offset] = (byte) (buffer[i][j][k]); } } } } catch (Exception e) { throw_put("XYZ", "No check", buffer, x, y, z); } } // ------------------------------------------------------------------ // // get Section // // ------------------------------------------------------------------ /** * Get an array from the imageware at the position (x,y,z) in X axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * ImageWare object to get into the imageware */ public void getX(int x, int y, int z, ImageWare buffer) { int bnx = buffer.getSizeX(); double buf[] = new double[bnx]; getX(x, y, z, buf); buffer.putX(0, 0, 0, buf); } /** * Get an array from the imageware at the position (x,y,z) in Y axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * ImageWare object to get into the imageware */ public void getY(int x, int y, int z, ImageWare buffer) { int bny = buffer.getSizeY(); double buf[] = new double[bny]; getY(x, y, z, buf); buffer.putY(0, 0, 0, buf); } /** * Get an array from the imageware at the position (x,y,z) in Z axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * ImageWare object to get into the imageware */ public void getZ(int x, int y, int z, ImageWare buffer) { int bnz = buffer.getSizeZ(); double buf[] = new double[bnz]; getZ(x, y, z, buf); buffer.putZ(0, 0, 0, buf); } /** * get an array into the imageware at the position (x,y,z) in XY axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * ImageWare object to get into the imageware */ public void getXY(int x, int y, int z, ImageWare buffer) { int bnx = buffer.getSizeX(); int bny = buffer.getSizeY(); double buf[][] = new double[bnx][bny]; getXY(x, y, z, buf); buffer.putXY(0, 0, 0, buf); } /** * Get an array from the imageware at the position (x,y,z) in XZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * ImageWare object to get into the imageware */ public void getXZ(int x, int y, int z, ImageWare buffer) { int bnx = buffer.getSizeX(); int bnz = buffer.getSizeZ(); double buf[][] = new double[bnx][bnz]; getXZ(x, y, z, buf); buffer.putXZ(0, 0, 0, buf); } /** * Get an array from the imageware at the position (x,y,z) in YZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * ImageWare object to get into the datase */ public void getYZ(int x, int y, int z, ImageWare buffer) { int bny = buffer.getSizeY(); int bnz = buffer.getSizeZ(); double buf[][] = new double[bny][bnz]; getYZ(x, y, z, buf); buffer.putYZ(0, 0, 0, buf); } /** * Get an array from the imageware at the position (x,y,z) in XYZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * ImageWare object to get into the imageware */ public void getXYZ(int x, int y, int z, ImageWare buffer) { int bnx = buffer.getSizeX(); int bny = buffer.getSizeY(); int bnz = buffer.getSizeZ(); double buf[][][] = new double[bnx][bny][bnz]; getXYZ(x, y, z, buf); buffer.putXYZ(0, 0, 0, buf); } /** * Get an array from the imageware at the position (x,y,z) in X axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * byte 1D array to get into the imageware */ public void getX(int x, int y, int z, byte[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; System.arraycopy(tmp, offset, buffer, 0, leni); } catch (Exception e) { throw_get("X", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in X axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * short 1D array to get into the imageware */ public void getX(int x, int y, int z, short[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { buffer[i] = (short) (tmp[offset] & 0xFF); offset++; } } catch (Exception e) { throw_get("X", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in X axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * float 1D array to get into the imageware */ public void getX(int x, int y, int z, float[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { buffer[i] = (float) (tmp[offset] & 0xFF); offset++; } } catch (Exception e) { throw_get("X", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in X axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * double 1D array to get into the imageware */ public void getX(int x, int y, int z, double[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { buffer[i] = (double) (tmp[offset] & 0xFF); offset++; } } catch (Exception e) { throw_get("X", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in Y axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * byte 1D array to get into the imageware */ public void getY(int x, int y, int z, byte[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { buffer[i] = (byte) (tmp[offset] & 0xFF); offset += nx; } } catch (Exception e) { throw_get("X", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in Y axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * short 1D array to get into the imageware */ public void getY(int x, int y, int z, short[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { buffer[i] = (short) (tmp[offset] & 0xFF); offset += nx; } } catch (Exception e) { throw_get("X", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in Y axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * float 1D array to get into the imageware */ public void getY(int x, int y, int z, float[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { buffer[i] = (float) (tmp[offset] & 0xFF); offset += nx; } } catch (Exception e) { throw_get("X", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in Y axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * double 1D array to get into the imageware */ public void getY(int x, int y, int z, double[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; byte[] tmp = (byte[]) data[z]; for (int i = 0; i < leni; i++) { buffer[i] = (double) (tmp[offset] & 0xFF); offset += nx; } } catch (Exception e) { throw_get("X", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in Z axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * byte 1D array to get into the imageware */ public void getZ(int x, int y, int z, byte[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; for (int i = 0; i < leni; i++) { buffer[i] = (byte) (((byte[]) data[z])[offset] & 0xFF); z++; } } catch (Exception e) { throw_get("Y", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in Z axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * short 1D array to get into the imageware */ public void getZ(int x, int y, int z, short[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; for (int i = 0; i < leni; i++) { buffer[i] = (short) (((byte[]) data[z])[offset] & 0xFF); z++; } } catch (Exception e) { throw_get("Y", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in Z axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * float 1D array to get into the imageware */ public void getZ(int x, int y, int z, float[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; for (int i = 0; i < leni; i++) { buffer[i] = (float) (((byte[]) data[z])[offset] & 0xFF); z++; } } catch (Exception e) { throw_get("Y", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in Z axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * double 1D array to get into the imageware */ public void getZ(int x, int y, int z, double[] buffer) { try { int offset = x + y * nx; int leni = buffer.length; for (int i = 0; i < leni; i++) { buffer[i] = (double) (((byte[]) data[z])[offset] & 0xFF); z++; } } catch (Exception e) { throw_get("Y", "No check", buffer, x, y, z); } } /** * get an array into the imageware at the position (x,y,z) in XY axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * byte 2D array to get into the imageware */ public void getXY(int x, int y, int z, byte[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (y + j) * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j] = (byte) (tmp[offset] & 0xFF); } } } catch (Exception e) { throw_get("XY", "No check", buffer, x, y, z); } } /** * get an array into the imageware at the position (x,y,z) in XY axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * short 2D array to get into the imageware */ public void getXY(int x, int y, int z, short[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (y + j) * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j] = (short) (tmp[offset] & 0xFF); } } } catch (Exception e) { throw_get("XY", "No check", buffer, x, y, z); } } /** * get an array into the imageware at the position (x,y,z) in XY axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * float 2D array to get into the imageware */ public void getXY(int x, int y, int z, float[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (y + j) * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j] = (float) (tmp[offset] & 0xFF); } } } catch (Exception e) { throw_get("XY", "No check", buffer, x, y, z); } } /** * get an array into the imageware at the position (x,y,z) in XY axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * double 2D array to get into the imageware */ public void getXY(int x, int y, int z, double[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (y + j) * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j] = (double) (tmp[offset] & 0xFF); } } } catch (Exception e) { throw_get("XY", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in XZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * byte 2D array to get into the imageware */ public void getXZ(int x, int y, int z, byte[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++) { offset = x + y * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j] = (byte) (((byte[]) data[z])[offset] & 0xFF); } } } catch (Exception e) { throw_get("XZ", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in XZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * short 2D array to get into the imageware */ public void getXZ(int x, int y, int z, short[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++) { offset = x + y * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j] = (short) (((byte[]) data[z])[offset] & 0xFF); } } } catch (Exception e) { throw_get("XZ", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in XZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * float 2D array to get into the imageware */ public void getXZ(int x, int y, int z, float[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++) { offset = x + y * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j] = (float) (((byte[]) data[z])[offset] & 0xFF); } } } catch (Exception e) { throw_get("XZ", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in XZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * double 2D array to get into the imageware */ public void getXZ(int x, int y, int z, double[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++) { offset = x + y * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j] = (double) (((byte[]) data[z])[offset] & 0xFF); } } } catch (Exception e) { throw_get("XZ", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in YZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * byte 2D array to get into the datase */ public void getYZ(int x, int y, int z, byte[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++, offset = (x + nx * y)) { for (int i = 0; i < leni; i++, offset += nx) { buffer[i][j] = (byte) (((byte[]) data[z])[offset] & 0xFF); } } } catch (Exception e) { throw_get("YZ", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in YZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * short 2D array to get into the datase */ public void getYZ(int x, int y, int z, short[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++, offset = (x + nx * y)) { for (int i = 0; i < leni; i++, offset += nx) { buffer[i][j] = (short) (((byte[]) data[z])[offset] & 0xFF); } } } catch (Exception e) { throw_get("YZ", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in YZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * float 2D array to get into the datase */ public void getYZ(int x, int y, int z, float[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++, offset = (x + nx * y)) { for (int i = 0; i < leni; i++, offset += nx) { buffer[i][j] = (float) (((byte[]) data[z])[offset] & 0xFF); } } } catch (Exception e) { throw_get("YZ", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in YZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * double 2D array to get into the datase */ public void getYZ(int x, int y, int z, double[][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; for (int j = 0; j < lenj; j++, z++, offset = (x + nx * y)) { for (int i = 0; i < leni; i++, offset += nx) { buffer[i][j] = (double) (((byte[]) data[z])[offset] & 0xFF); } } } catch (Exception e) { throw_get("YZ", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in XYZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * byte 3D array to get into the imageware */ public void getXYZ(int x, int y, int z, byte[][][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; int lenk = buffer[0][0].length; for (int k = 0; k < lenk; k++, z++) { byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (j + y) * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j][k] = (byte) (tmp[offset] & 0xFF); } } } } catch (Exception e) { throw_get("XYZ", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in XYZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * short 3D array to get into the imageware */ public void getXYZ(int x, int y, int z, short[][][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; int lenk = buffer[0][0].length; for (int k = 0; k < lenk; k++, z++) { byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (j + y) * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j][k] = (short) (tmp[offset] & 0xFF); } } } } catch (Exception e) { throw_get("XYZ", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in XYZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * float 3D array to get into the imageware */ public void getXYZ(int x, int y, int z, float[][][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; int lenk = buffer[0][0].length; for (int k = 0; k < lenk; k++, z++) { byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (j + y) * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j][k] = (float) (tmp[offset] & 0xFF); } } } } catch (Exception e) { throw_get("XYZ", "No check", buffer, x, y, z); } } /** * Get an array from the imageware at the position (x,y,z) in XYZ axis. No * check are performed if the array is outside of the imageware. * * @param x * X starting position to get the buffer * @param y * Y starting position to get the buffer * @param z * Z starting position to get the buffer * @param buffer * double 3D array to get into the imageware */ public void getXYZ(int x, int y, int z, double[][][] buffer) { try { int offset = x + y * nx; int leni = buffer.length; int lenj = buffer[0].length; int lenk = buffer[0][0].length; for (int k = 0; k < lenk; k++, z++) { byte[] tmp = (byte[]) data[z]; for (int j = 0; j < lenj; j++) { offset = x + (j + y) * nx; for (int i = 0; i < leni; i++, offset++) { buffer[i][j][k] = (double) (tmp[offset] & 0xFF); } } } } catch (Exception e) { throw_get("XYZ", "No check", buffer, x, y, z); } } // ------------------------------------------------------------------ // // Private Section // // ------------------------------------------------------------------ /** * Prepare a complete error message from the errors coming the constructors. */ protected void throw_constructor() { throw new ArrayStoreException("\n-------------------------------------------------------\n" + "Error in imageware package\n" + "Unable to create a byte imageware.\n" + "-------------------------------------------------------\n"); } /** * Prepare a complete error message from the errors coming the constructors. */ protected void throw_constructor(int nx, int ny, int nz) { throw new ArrayStoreException("\n-------------------------------------------------------\n" + "Error in imageware package\n" + "Unable to create a byte imageware " + nx + "," + ny + "," + nz + "].\n" + "-------------------------------------------------------\n"); } /** * Prepare a complete error message from the errors coming the get routines. */ protected void throw_get(String direction, String border, Object buffer, int x, int y, int z) { int leni = 0; int lenj = 0; int lenk = 0; String type = " unknown type"; if (buffer instanceof byte[]) { leni = ((byte[]) buffer).length; type = " 1D byte"; } else if (buffer instanceof short[]) { leni = ((short[]) buffer).length; type = " 1D short"; } else if (buffer instanceof float[]) { leni = ((float[]) buffer).length; type = " 1D float"; } else if (buffer instanceof double[]) { leni = ((double[]) buffer).length; type = " 1D double"; } else if (buffer instanceof byte[][]) { leni = ((byte[][]) buffer).length; lenj = ((byte[][]) buffer)[0].length; type = " 2D byte"; } else if (buffer instanceof short[][]) { leni = ((short[][]) buffer).length; lenj = ((short[][]) buffer)[0].length; type = " 2D short"; } else if (buffer instanceof float[][]) { leni = ((float[][]) buffer).length; lenj = ((float[][]) buffer)[0].length; type = " 2D float"; } else if (buffer instanceof double[][]) { leni = ((double[][]) buffer).length; lenj = ((double[][]) buffer)[0].length; type = " 2D double"; } else if (buffer instanceof byte[][][]) { leni = ((byte[][][]) buffer).length; lenj = ((byte[][][]) buffer)[0].length; lenk = ((byte[][][]) buffer)[0][0].length; type = " 3D byte"; } else if (buffer instanceof short[][][]) { leni = ((short[][][]) buffer).length; lenj = ((short[][][]) buffer)[0].length; lenk = ((short[][][]) buffer)[0][0].length; type = " 3D short"; } else if (buffer instanceof float[][][]) { leni = ((float[][][]) buffer).length; lenj = ((float[][][]) buffer)[0].length; lenk = ((float[][][]) buffer)[0][0].length; type = " 3D float"; } else if (buffer instanceof double[][][]) { leni = ((double[][][]) buffer).length; lenj = ((double[][][]) buffer)[0].length; lenk = ((double[][][]) buffer)[0][0].length; type = " 3D double"; } throw new ArrayStoreException("\n-------------------------------------------------------\n" + "Error in imageware package\n" + "Unable to get a" + type + " buffer [" + (leni == 0 ? "" : ("" + leni)) + (lenj == 0 ? "" : ("," + lenj)) + (lenk == 0 ? "" : ("," + lenk)) + "] \n" + "from the byte imageware [" + nx + "," + ny + "," + nz + "]\n" + "at the position (" + x + "," + y + "," + z + ") in direction " + direction + "\n" + "using " + border + ".\n" + "-------------------------------------------------------\n"); } /** * Prepare a complete error message from the errors coming the put routines. */ protected void throw_put(String direction, String border, Object buffer, int x, int y, int z) { int leni = 0; int lenj = 0; int lenk = 0; String type = " unknown type"; if (buffer instanceof byte[]) { leni = ((byte[]) buffer).length; type = " 1D byte"; } else if (buffer instanceof short[]) { leni = ((short[]) buffer).length; type = " 1D short"; } else if (buffer instanceof float[]) { leni = ((float[]) buffer).length; type = " 1D float"; } else if (buffer instanceof double[]) { leni = ((double[]) buffer).length; type = " 1D double"; } else if (buffer instanceof byte[][]) { leni = ((byte[][]) buffer).length; lenj = ((byte[][]) buffer)[0].length; type = " 2D byte"; } else if (buffer instanceof short[][]) { leni = ((short[][]) buffer).length; lenj = ((short[][]) buffer)[0].length; type = " 2D short"; } else if (buffer instanceof float[][]) { leni = ((float[][]) buffer).length; lenj = ((float[][]) buffer)[0].length; type = " 2D float"; } else if (buffer instanceof double[][]) { leni = ((double[][]) buffer).length; lenj = ((double[][]) buffer)[0].length; type = " 2D double"; } else if (buffer instanceof byte[][][]) { leni = ((byte[][][]) buffer).length; lenj = ((byte[][][]) buffer)[0].length; lenk = ((byte[][][]) buffer)[0][0].length; type = " 3D byte"; } else if (buffer instanceof short[][][]) { leni = ((short[][][]) buffer).length; lenj = ((short[][][]) buffer)[0].length; lenk = ((short[][][]) buffer)[0][0].length; type = " 3D short"; } else if (buffer instanceof float[][][]) { leni = ((float[][][]) buffer).length; lenj = ((float[][][]) buffer)[0].length; lenk = ((float[][][]) buffer)[0][0].length; type = " 3D float"; } else if (buffer instanceof double[][][]) { leni = ((double[][][]) buffer).length; lenj = ((double[][][]) buffer)[0].length; lenk = ((double[][][]) buffer)[0][0].length; type = " 3D double"; } throw new ArrayStoreException("\n-------------------------------------------------------\n" + "Error in imageware package\n" + "Unable to put a" + type + " buffer [" + (leni == 0 ? "" : ("" + leni)) + (lenj == 0 ? "" : ("," + lenj)) + (lenk == 0 ? "" : ("," + lenk)) + "] \n" + "into the byte imageware [" + nx + "," + ny + "," + nz + "]\n" + "at the position (" + x + "," + y + "," + z + ") in direction " + direction + "\n" + "using " + border + ".\n" + "-------------------------------------------------------\n"); } // ------------------------------------------------------------------ // // Get slice fast and direct access Section // // ------------------------------------------------------------------ /** * Get a reference of the whole volume data. * * @return a reference of the data of this imageware */ public Object[] getVolume() { return data; } /** * Get a specific slice, fast and direct access, but only for byte * imageware. * * @param z * number of the requested slice * @return a reference of the data of one slice of this imageware */ public byte[] getSliceByte(int z) { return (byte[]) data[z]; } /** * Get a specific slice, fast and direct access, but only for short * imageware. * * @param z * number of the requested slice * @return a reference of the data of one slice of this imageware */ public short[] getSliceShort(int z) { return null; } /** * Get a specific slice, fast and direct access, but only for float * imageware. * * @param z * number of the requested slice * @return a reference of the data of one slice of this imageware */ public float[] getSliceFloat(int z) { return null; } /** * Get a specific slice, fast and direct access, but only for double * imageware. * * @param z * number of the requested slice * @return a reference of the data of one slice of this imageware */ public double[] getSliceDouble(int z) { return null; } /** * Allocate a buffer of size [nx,ny,nz]. */ private void allocate() { try { this.data = new Object[nz]; this.nxy = nx * ny; for (int z = 0; z < nz; z++) this.data[z] = new byte[nxy]; } catch (Exception e) { throw_constructor(nx, ny, nz); } } } // end of class
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