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Updated provider to also generate a vdescriptor

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This commit is contained in:
ebner
2014-04-14 13:14:45 +02:00
parent aa1681aaf3
commit 21f86d7d69
1 changed files with 249 additions and 0 deletions
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249
ch.psi.fda/src/main/java/ch/psi/fda/aq/XScanDescriptorProvider.java
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@@ -1,17 +1,34 @@
package ch.psi.fda.aq;
import java.io.File;
import java.util.List;
import java.util.logging.Logger;
import ch.psi.fda.DescriptorProvider;
import ch.psi.fda.edescriptor.EDescriptor;
import ch.psi.fda.model.ModelManager;
import ch.psi.fda.model.v1.ArrayDetector;
import ch.psi.fda.model.v1.Configuration;
import ch.psi.fda.model.v1.ContinuousPositioner;
import ch.psi.fda.model.v1.Data;
import ch.psi.fda.model.v1.Detector;
import ch.psi.fda.model.v1.LinearPositioner;
import ch.psi.fda.model.v1.Positioner;
import ch.psi.fda.model.v1.PseudoPositioner;
import ch.psi.fda.model.v1.Visualization;
import ch.psi.fda.vdescriptor.LinePlot;
import ch.psi.fda.vdescriptor.VDescriptor;
import ch.psi.fda.vdescriptor.XYSeries;
import ch.psi.fda.vdescriptor.XYZSeries;
import ch.psi.fda.vdescriptor.YSeries;
import ch.psi.fda.vdescriptor.YZSeries;
public class XScanDescriptorProvider implements DescriptorProvider {
private static final Logger logger = Logger.getLogger(XScanDescriptorProvider.class.getName());
private EDescriptor edescriptor;
private VDescriptor vdescriptor;
@Override
public void load(File... files) {
@@ -62,7 +79,239 @@ public class XScanDescriptorProvider implements DescriptorProvider {
}
edescriptor = new XScanDescriptor(c);
vdescriptor = mapVisualizations(c.getVisualization());
}
private VDescriptor mapVisualizations(List<Visualization> vl){
VDescriptor vd = new VDescriptor();
for(Visualization v: vl){
if(v instanceof ch.psi.fda.model.v1.LinePlot){
ch.psi.fda.model.v1.LinePlot lp = (ch.psi.fda.model.v1.LinePlot) v;
String x = getId(lp.getX());
LinePlot lineplot = new LinePlot(lp.getTitle());
List<Object> l = lp.getY();
for(Object o: l){
String y = getId(o);
lineplot.getData().add(new XYSeries(x, y));
}
vd.getPlots().add(lineplot);
}
else if(v instanceof ch.psi.fda.model.v1.LinePlotArray){
// Array visualization
ch.psi.fda.model.v1.LinePlotArray lp = (ch.psi.fda.model.v1.LinePlotArray) v;
LinePlot lineplot = new LinePlot(lp.getTitle());
// Create data filter for visualization
List<Object> l = lp.getY();
for(Object o: l){
String idY = getId(o);
// TODO Need to actually check if minX of
lineplot.setMinX(lp.getOffset());
lineplot.setMaxX(lp.getOffset()+lp.getSize());
lineplot.getData().add(new YSeries(idY));
}
}
else if(v instanceof ch.psi.fda.model.v1.MatrixPlot){
// MatrixPlot does currently not support RegionPositioners because of the
// plotting problems this would cause. If regions of the positioner have different
// step sizes it is not easily possible (without (specialized) rasterization) to plot the data.
ch.psi.fda.model.v1.MatrixPlot mp = (ch.psi.fda.model.v1.MatrixPlot) v;
double minX, maxX;
int nX;
double minY, maxY;
int nY;
String idX, idY, idZ;
// X Axis
if(mp.getX() instanceof LinearPositioner){
LinearPositioner linp = ((LinearPositioner)mp.getX());
idX = linp.getId();
minX = (Math.min(linp.getStart(), linp.getEnd()));
maxX = (Math.max(linp.getStart(), linp.getEnd()));
nX = ((int) Math.floor((Math.abs(maxX-minX))/linp.getStepSize()) + 1);
}
else if(mp.getX() instanceof PseudoPositioner){
PseudoPositioner pp = ((PseudoPositioner)mp.getX());
idX = pp.getId();
minX = (1); // Count starts at 1
maxX = (pp.getCounts());
nX = (pp.getCounts());
}
else if(mp.getX() instanceof ContinuousPositioner){
ContinuousPositioner conp = ((ContinuousPositioner)mp.getX());
idX = conp.getId();
minX = (Math.min(conp.getStart(), conp.getEnd()));
maxX = (Math.max(conp.getStart(), conp.getEnd()));
nX = ((int) Math.floor((Math.abs(maxX-minX))/conp.getStepSize()) + 1);
}
else{
// Fail as we cannot determine the min, max and number of steps
throw new RuntimeException(mp.getX().getClass().getName()+" is not supported as x-axis of a MatrixPlot");
}
// Y Axis
if(mp.getY() instanceof LinearPositioner){
LinearPositioner linp = ((LinearPositioner)mp.getY());
idY = linp.getId();
minY = (Math.min(linp.getStart(), linp.getEnd()));
maxY = (Math.max(linp.getStart(), linp.getEnd()));
nY = ((int) Math.floor((Math.abs(maxY-minY))/linp.getStepSize()) + 1);
}
else if(mp.getY() instanceof PseudoPositioner){
PseudoPositioner pp = ((PseudoPositioner)mp.getY());
idY = pp.getId();
minY = (1); // Count starts at 1
maxY = (pp.getCounts());
nY = (pp.getCounts());
}
else{
// Fail as we cannot determine the min, max and number of steps
throw new RuntimeException(mp.getY().getClass().getName()+" is not supported as y-axis of a MatrixPlot");
}
// Z Dimension
idZ = getId(mp.getZ());
ch.psi.fda.vdescriptor.MatrixPlot matrixplot = new ch.psi.fda.vdescriptor.MatrixPlot(mp.getTitle());
matrixplot.setMinX(minX);
matrixplot.setMaxX(maxX);
matrixplot.setnX(nX);
matrixplot.setMinY(minY);
matrixplot.setMaxY(maxY);
matrixplot.setnY(nY);
matrixplot.getData().add(new XYZSeries(idX, idY, idZ));
vdescriptor.getPlots().add(matrixplot);
}
else if(v instanceof ch.psi.fda.model.v1.MatrixPlotArray){
// Support for 2D waveform plots
ch.psi.fda.model.v1.MatrixPlotArray mp = (ch.psi.fda.model.v1.MatrixPlotArray) v;
// Get size of the array detector
int arraySize = 0;
Object o = mp.getZ();
if(o instanceof ArrayDetector){
ArrayDetector ad = (ArrayDetector) o;
arraySize = ad.getArraySize();
}
else{
// Workaround
arraySize = mp.getSize(); // of array is from a manipulation the size is not known. Then the size will indicate the size of the array to display
}
int offset = mp.getOffset();
// Determine size for array
int size = mp.getSize();
if(size>0 && offset+size<arraySize){
size = mp.getSize();
}
else{
size=arraySize-offset;
}
double minY, maxY;
int nY;
double minX = offset;
double maxX = offset+size-1;
int nX = size;
String idY, idZ;
// Y Axis
if(mp.getY() instanceof LinearPositioner){
LinearPositioner linp = ((LinearPositioner)mp.getY());
idY = linp.getId();
minY = (Math.min(linp.getStart(), linp.getEnd()));
maxY = (Math.max(linp.getStart(), linp.getEnd()));
nY = ((int) Math.floor((Math.abs(maxY-minY))/linp.getStepSize()) + 1);
}
else if(mp.getY() instanceof PseudoPositioner){
PseudoPositioner pp = ((PseudoPositioner)mp.getY());
idY = pp.getId();
minY = (1); // Count starts at 1
maxY = (pp.getCounts());
nY = (pp.getCounts());
}
else if(mp.getY() instanceof ContinuousPositioner){
ContinuousPositioner conp = ((ContinuousPositioner)mp.getY());
idY = conp.getId();
minY = (Math.min(conp.getStart(), conp.getEnd()));
maxY = (Math.max(conp.getStart(), conp.getEnd()));
nY = ((int) Math.floor((Math.abs(maxY-minY))/conp.getStepSize()) + 1);
}
else{
// Fail as we cannot determine the min, max and number of steps
throw new RuntimeException(mp.getY().getClass().getName()+" is not supported as x-axis of a MatrixPlot");
}
// Z Dimension
idZ = getId(mp.getZ());
ch.psi.fda.vdescriptor.MatrixPlot matrixplot = new ch.psi.fda.vdescriptor.MatrixPlot(mp.getTitle());
matrixplot.setMinX(minX);
matrixplot.setMaxX(maxX);
matrixplot.setnX(nX);
matrixplot.setMinY(minY);
matrixplot.setMaxY(maxY);
matrixplot.setnY(nY);
matrixplot.getData().add(new YZSeries(idY, idZ));
vdescriptor.getPlots().add(matrixplot);
}
else{
logger.warning(v.getClass().getName()+" is not supported as visualization type");
}
}
return vd;
}
/**
* Retrieve id string of the passed object
* @param object
* @return Id string of object
*/
private String getId(Object object){
String id;
if(object instanceof Positioner){
id = ((Positioner)object).getId();
}
else if (object instanceof Detector){
id = ((Detector)object).getId();
}
else if (object instanceof ch.psi.fda.model.v1.Manipulation){
id = ((ch.psi.fda.model.v1.Manipulation)object).getId();
}
// For testing purposes
else if(object instanceof String){
id = (String) object;
}
else{
throw new RuntimeException("Unable to identify id of object reference "+object);
}
return id;
}
@Override
public EDescriptor getEDescriptor() {