nordic-dev.net/PAMGuard
nordic-dev.net/PAMGuard
2
0
Fork 0
mirror of https://github.com/PAMGuard/PAMGuard.git synced 2024-11-21 22:52:22 +00:00
Code Issues Packages Projects Releases Wiki Activity

Bug fixes

Browse Source 
Fixed wav file export bug from TDDisplayFX
Fixed bug in deep learning classifier where binary classification was not saving properly for generic models.
This commit is contained in:
Jamie Mac 2024-04-19 10:18:28 +01:00
parent a1adff82cb
commit 65bbcdeb96
9 changed files with 35 additions and 21 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

2
.classpath
View File

@ -6,7 +6,7 @@
<attribute name="maven.pomderived" value="true"/>
</attributes>
</classpathentry>
<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/Amazon Coretto 21">
<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/jdk-21.0.2.13-hotspot">
<attributes>
<attribute name="module" value="true"/>
<attribute name="maven.pomderived" value="true"/>

2
src/dataPlotsFX/layout/TDGraphFX.java
View File

@ -1155,7 +1155,7 @@ public class TDGraphFX extends PamBorderPane {
base = false;
if (!dataInfo.isShowing()) {
System.out.println("!dataInfo.isShowing(): " + dataInfo.getDataName());
//System.out.println("!dataInfo.isShowing(): " + dataInfo.getDataName());
continue;
}

6
src/detectionPlotFX/plots/RawDataOrder.java
View File

@ -186,7 +186,6 @@ public abstract class RawDataOrder {
*/
public boolean resetForLoad(long dataStart, long dataEnd, float sampleRate, int channel) {
// System.out.println("RESET FOR LOAD: ");
count=0;
this.dataStart=dataStart;
this.dataEnd=dataEnd;
@ -194,6 +193,8 @@ public abstract class RawDataOrder {
this.fftSampleRate=sampleRate;
int dataFrame=(int) (sampleRate*((dataEnd-dataStart)/1000.));
// System.out.println("RESET FOR LOAD: " + dataFrame);
if (dataFrame>=maxMb){
System.err.println("The raw data is way too big");
@ -213,12 +214,13 @@ public abstract class RawDataOrder {
}
private int currentIndex=0;
/***
* Called whenever new raw data is acquired
* @param dataUnit
*/
private void newRawData(RawDataUnit dataUnit) {
// System.out.println("New raw data " + count);
// System.out.println("New raw data " + count);
// try{
if (PamUtils.hasChannel(dataUnit.getChannelBitmap(), channel)){

7
src/export/wavExport/WavFileExportManager.java
View File

@ -146,7 +146,7 @@ public class WavFileExportManager implements PamDataUnitExporter {
//add correct file type.
currentPath = currentPath + ".wav";
currentPath = currentFolder+"/"+currentPath;
currentPath = currentFolder + File.pathSeparator + currentPath;
return currentPath;
@ -197,7 +197,7 @@ public class WavFileExportManager implements PamDataUnitExporter {
if (foundDataUnits!=null) {
//check whether the wav file has all data raw data units.
int n = getNWavDataUnits(foundDataUnits);
hasAllWavClips = n == foundDataUnits.getNumDataUnits();
hasAllWavClips = (n == foundDataUnits.getNumDataUnits() && n!=0); //make sure to do a zero check here or raw wav data won't save
System.out.println("N raw data units: " + n + " N found data units: " + foundDataUnits.getNumDataUnits());
}
@ -234,7 +234,6 @@ public class WavFileExportManager implements PamDataUnitExporter {
rawDataBlock.orderOfflineData(new RawObserver(wavWrite, rawDataBlock.getChannelMap()), new RawLoadObserver(wavWrite),
start, end, 1, OfflineDataLoading.OFFLINE_DATA_INTERRUPT);
return 0;
}
@ -292,7 +291,7 @@ public class WavFileExportManager implements PamDataUnitExporter {
* @param dataUnit
*/
private void newRawData(RawDataUnit dataUnit) {
// System.out.println(" Time millis: "+ dataUnit.getTimeMilliseconds()+ " channel: " + PamUtils.getSingleChannel(dataUnit.getChannelBitmap()) );
// System.out.println("Write wav data: Time millis: "+ dataUnit.getTimeMilliseconds()+ " channel: " + PamUtils.getSingleChannel(dataUnit.getChannelBitmap()) );
if (currentTimeMillis!=dataUnit.getTimeMilliseconds()) {
currentTimeMillis=dataUnit.getTimeMilliseconds();
if (wavArray!=null) {

2
src/rawDeepLearningClassifier/dlClassification/StandardClassifierModel.java
View File

@ -277,7 +277,7 @@ public abstract class StandardClassifierModel implements DLClassiferModel, PamSe
}
@Deprecated
public static ArrayList<PamWarning> checkSettingsOK(StandardModelParams genericModelParams, DLControl dlControl) {
// TODO - check if model is null.

14
src/rawDeepLearningClassifier/dlClassification/animalSpot/StandardModelPane.java
View File

@ -18,6 +18,7 @@ import javafx.scene.Node;
import javafx.scene.control.Label;
import javafx.scene.control.ProgressIndicator;
import javafx.scene.control.Spinner;
import javafx.scene.control.Tooltip;
import javafx.scene.control.Alert.AlertType;
import javafx.scene.text.Font;
import javafx.scene.text.FontWeight;
@ -191,9 +192,12 @@ public abstract class StandardModelPane extends SettingsPane<StandardModelParams
gridPane.add(new Label("Min. prediction"), 0, 0);
gridPane.add(detectionSpinner = new PamSpinner<Double>(0.0, 1.0, 0.9, 0.1), 1, 0);
detectionSpinner.setPrefWidth(80);
detectionSpinner.setPrefWidth(70);
detectionSpinner.setEditable(true);
detectionSpinner.getStyleClass().add(Spinner.STYLE_CLASS_SPLIT_ARROWS_HORIZONTAL);
detectionSpinner.setTooltip(new Tooltip("Set the minimum prediciton value for selected classes. If a prediction exceeds this value "
+ "a detection will be saved."));
gridPane.add(new Label(""), 2, 0);
speciesIDBox = new CheckComboBox<String>();
@ -201,8 +205,9 @@ public abstract class StandardModelPane extends SettingsPane<StandardModelParams
//speciesIDBox.setMaxWidth(100);
// speciesIDBox.setPrefWidth(100);
speciesIDBox.prefHeightProperty().bind(detectionSpinner.heightProperty());
speciesIDBox.setMaxWidth(200); //otherwise expands too much if multiple classes selected
speciesIDBox.setMaxWidth(150); //otherwise expands too much if multiple classes selected
speciesIDBox.setTooltip(new Tooltip("Select output classes to use for binary classification. "
+ "If the prediction value of a selected class exceeds the minimum prediction threshold then a detection is saved. "));
validator = new PamValidator();
final SimpleIntegerProperty checkItemsCount = new SimpleIntegerProperty();
@ -330,7 +335,7 @@ public abstract class StandardModelPane extends SettingsPane<StandardModelParams
currParams.threshold = detectionSpinner.getValue();
// currParams.useCUDA = useCuda.isSelected();
// System.out.println("StandardModelParams : this.paramsClone.numClasses " + this.paramsClone.numClasses);
// System.out.println("GET PARAMS: StandardModelParams : this.paramsClone.numClasses " + this.paramsClone.numClasses);
boolean[] speciesClass = new boolean[this.paramsClone.numClasses];
@ -363,7 +368,6 @@ public abstract class StandardModelPane extends SettingsPane<StandardModelParams
// System.out.println("GET CLASS NAMES: currParams.classNames: " + currParams.classNames + " " +
// (currParams.classNames!=null? currParams.classNames.length: 0 + " " + currParams.numClasses));
currParams.useDefaultSegLen = usedefaultSeg.isSelected();
//System.out.println("Get CLASS NAMES: currParams.classNames: " + currParams.classNames + " Num classes " + currParams.numClasses);

3
src/rawDeepLearningClassifier/dlClassification/genericModel/DLModelWorker.java
View File

@ -11,7 +11,6 @@ import org.jamdev.jdl4pam.transforms.DLTransformsFactory;
import org.jamdev.jdl4pam.utils.DLUtils;
import org.jamdev.jpamutils.wavFiles.AudioData;
import PamUtils.PamArrayUtils;
import rawDeepLearningClassifier.DLControl;
import rawDeepLearningClassifier.dlClassification.animalSpot.StandardModelParams;
import rawDeepLearningClassifier.segmenter.SegmenterProcess.GroupedRawData;
@ -126,7 +125,7 @@ public abstract class DLModelWorker<T> {
float[] classOut;
for (int i=0; i<transformedDataStack.length; i++) {
/**
* This is super weird. Reading the documentation for copeOfRange the index from and index to are enclusive. So
* This is super weird. Reading the documentation for copyOfRange the index from and index to are inclusive. So
* to copy the first two elements indexfrom =0 and indexto = 1. But actually it seems that this should be indexfrom =0 and indexto =2.
* So do not minus one form (i+1)*numclasses. This works but I'm confused as to why?
*/

19
src/rawDeepLearningClassifier/dlClassification/genericModel/GenericModelPane.java
View File

@ -75,17 +75,26 @@ public class GenericModelPane extends StandardModelPane {
super.setParams(currParams);
}
@Override
public StandardModelParams getParams(StandardModelParams currParams) {
// System.out.println("GET GENERIC PARAMS: " + currParams);
return super.getParams(currParams);
}
@Override
public void newModelSelected(File file) {
this.setCurrentSelectedFile(file);
//this.setParamsClone(new GenericModelParams());
//prep the model with current parameters;
genericDLClassifier.getGenericDLWorker().prepModel(getParams(getParamsClone()), genericDLClassifier.getDLControl());
//get the model transforms calculated from the model by SoundSpoyWorker and apply them to our temporary paramters clone.
//getParamsClone().dlTransfroms = this.genericDLClassifier.getGenericDLWorker().getModelTransforms();
///set the advanced pane parameters.
// genericDLClassifier.getGenericDLWorker().prepModel(getParams(getParamsClone()), genericDLClassifier.getDLControl());
//do not have getParam here as it resets some of the setting before set params has been called.
genericDLClassifier.getGenericDLWorker().prepModel(getParamsClone(), genericDLClassifier.getDLControl());
//now new parameters have been set in the prepModel functions so need to set new params now.
getAdvSettingsPane().setParams(getParamsClone());

1
src/rawDeepLearningClassifier/layoutFX/DLSettingsPane.java
View File

@ -454,6 +454,7 @@ public class DLSettingsPane extends SettingsPane<RawDLParams>{
// }
currParams.useDataSelector = dataSelectorCheckBox.isSelected();
if (dlControl.getDataSelector()!=null) {
dlControl.getDataSelector().getDialogPaneFX().getParams(true);
}