/**
* return an integer array of the y data (intensities) e.g. for writing to JCAMP (using non-std.
* 32 bit precision)
*
* @param int[] integer array
* @return double y factor
*/
public double getYDataAs32BitIntArray(int[] y) {
int n = yData.getLength();
Range1D.Double yRange = yData.getRange1D();
double yWidth = Math.max(yRange.getXMax(), -yRange.getXMin());
double shortIntWidth = 2 << 30;
double yf = shortIntWidth / yWidth;
for (int i = 0; i < n; i++) {
y[i] = (int) (yData.pointAt(i) * yf + .5);
}
return yf;
}
/**
* return an integer array of the y data (intensities) e.g. for writing to JCAMP
*
* @param int[] integer array
* @return double y factor
*/
public double getYDataAs16BitIntArray(int[] y) {
int n = yData.getLength();
Range1D.Double yRange = yData.getRange1D();
double yWidth = Math.max(yRange.getXMax(), -yRange.getXMin());
double shortIntWidth = 2 << 14; // JCAMP requires 16bit signed int
// precision?
double yf = shortIntWidth / yWidth;
for (int i = 0; i < n; i++) {
y[i] = (int) (yData.pointAt(i) * yf + .5);
}
return yf;
}
/**
* gets label on y-axis.
*
* @return String
*/
@Override
public String getYAxisLabel() {
if (yData != null) {
return yData.getLabel();
} else {
return "";
}
}
/**
* cloning.
*
* @return java.lang.Object
*/
@Override
public Object clone() {
Spectrum1D spectrum = null;
spectrum = (Spectrum1D) super.clone();
spectrum.setData((IOrderedDataArray1D) xData.clone(), (IDataArray1D) yData.clone());
spectrum.copyPeakTable(this.peakTable);
spectrum.copyPatternTable(this.patternTable);
spectrum.copyAssignments(this.assignments);
return spectrum;
}
/** adjusts full view to a pretty range. */
protected void adjustFullViewRange() {
double w;
if (isFullSpectrum()) {
Range1D.Double xrange = xData.getRange1D();
w = xrange.getXWidth();
xrange.set(xrange.getXMin() - .05 * w, xrange.getXMax() + .05 * w);
setXFullViewRange(xrange);
Range1D.Double yrange = yData.getRange1D();
w = yrange.getXWidth();
yrange.set(yrange.getXMin() - .05 * w, yrange.getXMax() + .05 * w);
setYFullViewRange(yrange);
} else {
/* include 0.0 in y-range and add 5% on to all borders */
int n = xData.getLength();
if (n > 1) {
Range1D.Double xrange = xData.getRange1D();
w = xrange.getXWidth();
xrange.set(xrange.getXMin() - .05 * w, xrange.getXMax() + .05 * w);
setXFullViewRange(xrange);
} else if (n == 1) {
double x = xData.pointAt(0);
setXFullViewRange(new Range1D.Double(x - 50, x + 50));
} else {
setXFullViewRange(new Range1D.Double(0., 300.));
}
if (n > 1) {
Range1D.Double yrange = yData.getRange1D();
yrange.set(Math.min(yrange.getXMin(), 0.0), Math.max(yrange.getXMax(), 0.0));
w = yrange.getXWidth();
if (yrange.getXMin() == 0.0) {
yrange.set(yrange.getXMin(), yrange.getXMax() + .05 * w);
} else {
yrange.set(yrange.getXMin() - .05 * w, yrange.getXMax());
}
setYFullViewRange(yrange);
} else {
setYFullViewRange(new Range1D.Double(0., 100.));
}
}
}