use of cbit.vcell.solver.VCSimulationDataIdentifier in project vcell by virtualcell.
the class IMGExporter method main.
public static void main(String[] args) throws Exception {
if (args.length < 7) {
System.out.println("Usage: IMGExporter username userkey simulationkey userdatadir beginTimeIndex endTimeIndex {varName1 varName2 ...}");
System.exit(0);
}
String userName = args[0];
String userKey = args[1];
String SimulationKey = args[2];
String primaryDirStr = args[3];
int beginTimeIndex = Integer.valueOf(args[4]);
int endTimeIndex = Integer.valueOf(args[5]);
String[] varNames = new String[args.length - 6];
if (args.length > 6) {
for (int i = 6; i < args.length; i++) {
varNames[i - 6] = args[i];
}
}
PropertyLoader.loadProperties();
User user = new User(userName, new KeyValue(userKey));
VCSimulationIdentifier vcSimID = new VCSimulationIdentifier(new KeyValue(SimulationKey), user);
VCSimulationDataIdentifier vcdID = new VCSimulationDataIdentifier(vcSimID, 0);
class PrintingExportServiceImpl extends ExportServiceImpl {
public PrintingExportServiceImpl() {
super();
}
@Override
protected void fireExportEvent(ExportEvent event) {
super.fireExportEvent(event);
System.out.println("Event type=" + event.getEventTypeID() + " JobID=" + event.getJobID() + " progress=" + event.getProgress());
}
}
ExportServiceImpl exportServiceImpl = new PrintingExportServiceImpl();
Cachetable cachetable = new Cachetable(10 * Cachetable.minute);
File primaryDir = new File(primaryDirStr);
DataSetControllerImpl dataSetControllerImpl = new DataSetControllerImpl(cachetable, primaryDir, null);
DataServerImpl dataServerImpl = new DataServerImpl(dataSetControllerImpl, exportServiceImpl);
double[] allTimes = dataSetControllerImpl.getDataSetTimes(vcdID);
TimeSpecs timeSpecs = new TimeSpecs(beginTimeIndex, endTimeIndex, allTimes, ExportConstants.TIME_RANGE);
VariableSpecs variableSpecs = new VariableSpecs(varNames, ExportConstants.VARIABLE_MULTI);
GeometrySpecs geometrySpecs = new GeometrySpecs(null, 0, 0, ExportConstants.GEOMETRY_SLICE);
DisplayPreferences displayPreferences = new DisplayPreferences(DisplayAdapterService.BLUERED, new Range(0, 1), DisplayAdapterService.createBlueRedSpecialColors());
MovieSpecs movieSpecs = new MovieSpecs(// /
1000.0, // /
false, // /
new DisplayPreferences[] { displayPreferences }, // /
ExportFormat.FORMAT_JPEG, // /
0, // /
1, // /
1, // /
1, ImagePaneModel.MESH_MODE, FormatSpecificSpecs.CODEC_JPEG, 1.0f, false, FormatSpecificSpecs.PARTICLE_SELECT);
ExportSpecs exportSpecs = new ExportSpecs(vcdID, ExportFormat.QUICKTIME, variableSpecs, timeSpecs, geometrySpecs, movieSpecs, "IMGExporterTest", null);
exportServiceImpl.makeRemoteFile(null, user, dataServerImpl, exportSpecs);
}
use of cbit.vcell.solver.VCSimulationDataIdentifier in project vcell by virtualcell.
the class TestingFrameworkWindowManager method viewResults.
/**
* Insert the method's description here.
* Creation date: (1/20/2003 11:52:18 AM)
* @return boolean
* @param mathDesc cbit.vcell.math.MathDescription
*/
public void viewResults(TestCriteriaNew testCriteria) {
VCDataIdentifier vcdID = new VCSimulationDataIdentifier(testCriteria.getSimInfo().getAuthoritativeVCSimulationIdentifier(), 0);
// get the data manager and wire it up
try (SuppressRemote sr = new VCellThreadChecker.SuppressRemote()) {
// okay to call remote from Swing for testing
Simulation sim = ((ClientDocumentManager) getRequestManager().getDocumentManager()).getSimulation(testCriteria.getSimInfo());
DataViewerController dataViewerCtr = getRequestManager().getDataViewerController(null, sim, 0);
addDataListener(dataViewerCtr);
// make the viewer
DataViewer viewer = dataViewerCtr.createViewer();
viewer.setDataViewerManager(this);
addExportListener(viewer);
// create the simCompareWindow - this is just a lightweight window to display the simResults.
// It was created originally to compare 2 sims, it can also be used here instead of creating the more heavy-weight SimWindow.
ChildWindowManager childWindowManager = TFWFinder.findChildWindowManager(getComponent());
ChildWindow childWindow = childWindowManager.addChildWindow(viewer, vcdID, "Comparing ... " + vcdID, true);
childWindow.setIsCenteredOnParent();
childWindow.pack();
childWindow.show();
} catch (Throwable e) {
PopupGenerator.showErrorDialog(TestingFrameworkWindowManager.this, e.getMessage());
}
}
use of cbit.vcell.solver.VCSimulationDataIdentifier in project vcell by virtualcell.
the class TestingFrameworkWindowManager method compare.
/**
* Insert the method's description here.
* Creation date: (1/20/2003 11:52:18 AM)
* @return boolean
* @param mathDesc cbit.vcell.math.MathDescription
*/
public void compare(final TestCriteriaNew testCriteria, final SimulationInfo userDefinedRegrSimInfo) {
final String KEY_MERGEDDATAINFO = "KEY_MERGEDDATAINFO";
final String KEY_MERGEDDATASETVIEWERCNTRLR = "KEY_MERGEDDATASETVIEWERCNTRLR";
AsynchClientTask gatherDataTask = new AsynchClientTask("Gathering compare Dta...", AsynchClientTask.TASKTYPE_NONSWING_BLOCKING) {
@Override
public void run(Hashtable<String, Object> hashTable) throws Exception {
// create the merged data for the simulationInfo in testCriteria and the regression simInfo
SimulationInfo simInfo = testCriteria.getSimInfo();
SimulationInfo regrSimInfo = null;
if (userDefinedRegrSimInfo != null) {
regrSimInfo = userDefinedRegrSimInfo;
} else {
regrSimInfo = testCriteria.getRegressionSimInfo();
}
if (regrSimInfo == null) {
return;
}
VCDataIdentifier vcSimId1 = new VCSimulationDataIdentifier(simInfo.getAuthoritativeVCSimulationIdentifier(), 0);
VCDataIdentifier vcSimId2 = new VCSimulationDataIdentifier(regrSimInfo.getAuthoritativeVCSimulationIdentifier(), 0);
User user = simInfo.getOwner();
VCDataIdentifier[] vcIdentifierArray = new VCDataIdentifier[] { vcSimId2, vcSimId1 };
MergedDataInfo mergedDataInfo = new MergedDataInfo(user, vcIdentifierArray, MergedDataInfo.createDefaultPrefixNames(vcIdentifierArray.length));
hashTable.put(KEY_MERGEDDATAINFO, mergedDataInfo);
// get the data manager and wire it up
//
// get all "Data1.XXX" data identifiers ... and remove those which are functions
// add functions of the form DIFF_XXX = (Data1.XXX - Data2.XXX) for convenience in comparing results.
//
Simulation sim1 = ((ClientDocumentManager) getRequestManager().getDocumentManager()).getSimulation(simInfo);
Simulation sim2 = ((ClientDocumentManager) getRequestManager().getDocumentManager()).getSimulation(regrSimInfo);
boolean isSpatial = sim1.isSpatial();
if (sim2.isSpatial() != isSpatial) {
throw new RuntimeException("Cannot compare spatial and non-spatial data sets : " + simInfo + "& " + regrSimInfo);
}
DataManager mergedDataManager = getRequestManager().getDataManager(null, mergedDataInfo, isSpatial);
DataManager data1Manager = getRequestManager().getDataManager(null, vcSimId1, isSpatial);
DataManager data2Manager = getRequestManager().getDataManager(null, vcSimId2, isSpatial);
Vector<AnnotatedFunction> functionList = new Vector<AnnotatedFunction>();
AnnotatedFunction[] data1Functions = data1Manager.getFunctions();
AnnotatedFunction[] existingFunctions = mergedDataManager.getFunctions();
DataIdentifier[] data1Identifiers = data1Manager.getDataIdentifiers();
DataIdentifier[] data2Identifiers = data2Manager.getDataIdentifiers();
for (int i = 0; i < data1Identifiers.length; i++) {
//
// make sure dataIdentifier is not already a function
//
boolean bIsFunction = false;
for (int j = 0; j < data1Functions.length; j++) {
if (data1Identifiers[i].getName().equals(data1Functions[j].getName())) {
bIsFunction = true;
}
}
if (bIsFunction) {
continue;
}
//
// make sure corresponding identifier exists in "Data2"
//
boolean bIsInData2 = false;
for (int j = 0; j < data2Identifiers.length; j++) {
if (data2Identifiers[j].getName().equals(data1Identifiers[i].getName())) {
bIsInData2 = true;
}
}
if (!bIsInData2) {
continue;
}
//
// create "Diff" function
//
String data1Name = "Data1." + data1Identifiers[i].getName();
String data2Name = "Data2." + data1Identifiers[i].getName();
String functionName = "DIFF_" + data1Identifiers[i].getName();
VariableType varType = data1Identifiers[i].getVariableType();
Expression exp = new Expression(data1Name + "-" + data2Name);
AnnotatedFunction newFunction = new AnnotatedFunction(functionName, exp, data1Identifiers[i].getDomain(), "", varType, FunctionCategory.OUTPUTFUNCTION);
//
// make sure new "Diff" function isn't already in existing function list.
//
boolean bDiffFunctionAlreadyHere = false;
for (int j = 0; j < existingFunctions.length; j++) {
if (newFunction.getName().equals(existingFunctions[j].getName())) {
bDiffFunctionAlreadyHere = true;
}
}
if (bDiffFunctionAlreadyHere) {
continue;
}
functionList.add(newFunction);
}
OutputContext outputContext = null;
if (functionList.size() > 0) {
AnnotatedFunction[] newDiffFunctions = (AnnotatedFunction[]) BeanUtils.getArray(functionList, AnnotatedFunction.class);
outputContext = new OutputContext(newDiffFunctions);
}
MergedDatasetViewerController mergedDatasetViewerCtr = getRequestManager().getMergedDatasetViewerController(outputContext, mergedDataInfo, !isSpatial);
hashTable.put(KEY_MERGEDDATASETVIEWERCNTRLR, mergedDatasetViewerCtr);
}
};
AsynchClientTask showResultsTask = new AsynchClientTask("Showing Compare Results", AsynchClientTask.TASKTYPE_SWING_BLOCKING) {
@Override
public void run(Hashtable<String, Object> hashTable) throws Exception {
// make the viewer
MergedDatasetViewerController mergedDatasetViewerCtr = (MergedDatasetViewerController) hashTable.get(KEY_MERGEDDATASETVIEWERCNTRLR);
addDataListener(mergedDatasetViewerCtr);
DataViewer viewer = mergedDatasetViewerCtr.createViewer();
viewer.setDataViewerManager(TestingFrameworkWindowManager.this);
addExportListener(viewer);
VCDataIdentifier vcDataIdentifier = (MergedDataInfo) hashTable.get(KEY_MERGEDDATAINFO);
ChildWindowManager childWindowManager = TFWFinder.findChildWindowManager(getComponent());
ChildWindow childWindow = childWindowManager.addChildWindow(viewer, vcDataIdentifier, "Comparing ... " + vcDataIdentifier.getID());
childWindow.pack();
// childWindow.setSize(450, 450);
childWindow.setIsCenteredOnParent();
childWindow.show();
}
};
ClientTaskDispatcher.dispatch(getComponent(), new Hashtable<String, Object>(), new AsynchClientTask[] { gatherDataTask, showResultsTask }, false);
}
use of cbit.vcell.solver.VCSimulationDataIdentifier in project vcell by virtualcell.
the class TestingFrameworkWindowManager method generateTestCriteriaReport.
/**
* Insert the method's description here.
* Creation date: (8/18/2003 5:36:47 PM)
*/
private String generateTestCriteriaReport(TestCaseNew testCase, TestCriteriaNew testCriteria, Simulation testSim, TFGenerateReport.VCDocumentAndSimInfo userSelectedRefSimInfo) /*,VCDocument refDoc,VCDocument testDocument*/
{
if (testSim.getScanCount() != 1) {
throw new RuntimeException("paramater scan is not supported in Math Testing Framework");
}
SimulationSymbolTable simSymbolTable = new SimulationSymbolTable(testSim, 0);
String simReportStatus = null;
String simReportStatusMessage = null;
StringBuffer reportTCBuffer = new StringBuffer();
VariableComparisonSummary[] failVarSummaries = null;
VariableComparisonSummary[] allVarSummaries = null;
double absErr = 0;
double relErr = 0;
if (testCriteria != null) {
absErr = testCriteria.getMaxAbsError().doubleValue();
relErr = testCriteria.getMaxRelError().doubleValue();
}
try {
VCDocument testDoc = null;
if (testCase instanceof TestCaseNewMathModel) {
MathModelInfo mmInfo = ((TestCaseNewMathModel) testCase).getMathModelInfo();
MathModel mathModel = getRequestManager().getDocumentManager().getMathModel(mmInfo);
testDoc = mathModel;
} else if (testCase instanceof TestCaseNewBioModel) {
TestCaseNewBioModel bioTestCase = (TestCaseNewBioModel) testCase;
// bioTestCase.
BioModelInfo bmInfo = bioTestCase.getBioModelInfo();
BioModel bioModel = getRequestManager().getDocumentManager().getBioModel(bmInfo);
testDoc = bioModel;
}
TFGenerateReport.VCDocumentAndSimInfo refVCDocumentAndSimInfo = null;
if (userSelectedRefSimInfo == null) {
SimulationInfo refSimInfo = testCriteria.getRegressionSimInfo();
if (refSimInfo != null) {
VCDocument refDoc = null;
if (testCriteria instanceof TestCriteriaNewMathModel) {
MathModelInfo mmInfo = ((TestCriteriaNewMathModel) testCriteria).getRegressionMathModelInfo();
MathModel mathModel = getRequestManager().getDocumentManager().getMathModel(mmInfo);
refDoc = mathModel;
} else if (testCriteria instanceof TestCriteriaNewBioModel) {
BioModelInfo bmInfo = ((TestCriteriaNewBioModel) testCriteria).getRegressionBioModelInfo();
BioModel bioModel = getRequestManager().getDocumentManager().getBioModel(bmInfo);
refDoc = bioModel;
}
refVCDocumentAndSimInfo = new TFGenerateReport.VCDocumentAndSimInfo(refSimInfo, refDoc);
}
reportTCBuffer.append("\t\t" + testSim.getName() + (refVCDocumentAndSimInfo != null ? " (Using TestCrit RegrRefSim)" : "") + " : " + "\n");
} else {
refVCDocumentAndSimInfo = userSelectedRefSimInfo;
reportTCBuffer.append("\t\t" + testSim.getName() + " (Using UserDefined RegrRefSim '" + userSelectedRefSimInfo.getSimInfo().getAuthoritativeVCSimulationIdentifier() + "') : " + "\n");
}
if (testCase.getType().equals(TestCaseNew.REGRESSION) && refVCDocumentAndSimInfo == null) {
reportTCBuffer.append("\t\t\tNo reference SimInfo, SimInfoKey=" + testCriteria.getSimInfo().getVersion().getName() + ". Cannot perform Regression Test!\n");
simReportStatus = TestCriteriaNew.TCRIT_STATUS_NOREFREGR;
} else {
VCDataIdentifier vcdID = new VCSimulationDataIdentifier(testSim.getSimulationInfo().getAuthoritativeVCSimulationIdentifier(), 0);
DataManager simDataManager = getRequestManager().getDataManager(null, vcdID, testSim.isSpatial());
double[] timeArray = null;
// can be histogram, so there won't be time array
try {
timeArray = simDataManager.getDataSetTimes();
} catch (Exception ex) {
ex.printStackTrace(System.out);
}
NonspatialStochSimOptions stochOpt = testSim.getSolverTaskDescription().getStochOpt();
if ((stochOpt == null || stochOpt.getNumOfTrials() == 1) && (timeArray == null || timeArray.length == 0)) {
reportTCBuffer.append("\t\t\tNO DATA : Simulation not run yet.\n");
simReportStatus = TestCriteriaNew.TCRIT_STATUS_NODATA;
} else {
// SPATIAL simulation
if (testSim.getMathDescription().isSpatial()) {
PDEDataManager pdeDataManager = (PDEDataManager) simDataManager;
// Get EXACT solution if test case type is EXACT, Compare with numerical
if (testCase.getType().equals(TestCaseNew.EXACT) || testCase.getType().equals(TestCaseNew.EXACT_STEADY)) {
SimulationComparisonSummary simCompSummary = MathTestingUtilities.comparePDEResultsWithExact(simSymbolTable, pdeDataManager, testCase.getType(), testCriteria.getMaxAbsError(), testCriteria.getMaxRelError());
// Failed var summaries
failVarSummaries = simCompSummary.getFailingVariableComparisonSummaries(absErr, relErr);
allVarSummaries = simCompSummary.getVariableComparisonSummaries();
if (failVarSummaries.length > 0) {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_FAILEDVARS;
// Failed simulation
reportTCBuffer.append("\t\tTolerance test FAILED \n");
reportTCBuffer.append("\t\tFailed Variables : \n");
for (int m = 0; m < failVarSummaries.length; m++) {
reportTCBuffer.append("\t\t\t" + failVarSummaries[m].toShortString() + "\n");
}
} else {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_PASSED;
reportTCBuffer.append("\t\tTolerance test PASSED \n");
}
reportTCBuffer.append("\t\tPassed Variables : \n");
// Check if varSummary exists in failed summaries list. If not, simulation passed.
for (int m = 0; m < allVarSummaries.length; m++) {
if (!BeanUtils.arrayContains(failVarSummaries, allVarSummaries[m])) {
reportTCBuffer.append("\t\t\t" + allVarSummaries[m].toShortString() + "\n");
}
}
// Get CONSTRUCTED solution if test case type is CONSTRUCTED, Compare with numerical
} else if (testCase.getType().equals(TestCaseNew.CONSTRUCTED)) {
SimulationComparisonSummary simCompSummary = MathTestingUtilities.comparePDEResultsWithExact(simSymbolTable, pdeDataManager, testCase.getType(), testCriteria.getMaxAbsError(), testCriteria.getMaxRelError());
// Failed var summaries
failVarSummaries = simCompSummary.getFailingVariableComparisonSummaries(absErr, relErr);
allVarSummaries = simCompSummary.getVariableComparisonSummaries();
if (failVarSummaries.length > 0) {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_FAILEDVARS;
// Failed simulation
reportTCBuffer.append("\t\tTolerance test FAILED \n");
reportTCBuffer.append("\t\tFailed Variables : \n");
for (int m = 0; m < failVarSummaries.length; m++) {
reportTCBuffer.append("\t\t\t" + failVarSummaries[m].toShortString() + "\n");
}
} else {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_PASSED;
reportTCBuffer.append("\t\tTolerance test PASSED \n");
}
reportTCBuffer.append("\t\tPassed Variables : \n");
// Check if varSummary exists in failed summaries list. If not, simulation passed.
for (int m = 0; m < allVarSummaries.length; m++) {
if (!BeanUtils.arrayContains(failVarSummaries, allVarSummaries[m])) {
reportTCBuffer.append("\t\t\t" + allVarSummaries[m].toShortString() + "\n");
}
}
} else if (testCase.getType().equals(TestCaseNew.REGRESSION)) {
Simulation refSim = ((ClientDocumentManager) getRequestManager().getDocumentManager()).getSimulation(refVCDocumentAndSimInfo.getSimInfo());
VCDataIdentifier refVcdID = new VCSimulationDataIdentifier(refVCDocumentAndSimInfo.getSimInfo().getAuthoritativeVCSimulationIdentifier(), 0);
PDEDataManager refDataManager = (PDEDataManager) getRequestManager().getDataManager(null, refVcdID, refSim.isSpatial());
if (refSim.getScanCount() != 1) {
throw new RuntimeException("paramater scan is not supported in Math Testing Framework");
}
SimulationSymbolTable refSimSymbolTable = new SimulationSymbolTable(refSim, 0);
String[] varsToCompare = getVariableNamesToCompare(simSymbolTable, refSimSymbolTable);
SimulationComparisonSummary simCompSummary = MathTestingUtilities.comparePDEResults(simSymbolTable, pdeDataManager, refSimSymbolTable, refDataManager, varsToCompare, testCriteria.getMaxAbsError(), testCriteria.getMaxRelError(), refVCDocumentAndSimInfo.getVCDocument(), getDataInfoProvider(refVCDocumentAndSimInfo.getVCDocument(), refDataManager.getPDEDataContext(), refSim.getName()), testDoc, getDataInfoProvider(testDoc, pdeDataManager.getPDEDataContext(), testSim.getName()));
// Failed var summaries
failVarSummaries = simCompSummary.getFailingVariableComparisonSummaries(absErr, relErr);
allVarSummaries = simCompSummary.getVariableComparisonSummaries();
if (failVarSummaries.length > 0) {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_FAILEDVARS;
// Failed simulation
reportTCBuffer.append("\t\tTolerance test FAILED \n");
reportTCBuffer.append("\t\tFailed Variables : \n");
for (int m = 0; m < failVarSummaries.length; m++) {
reportTCBuffer.append("\t\t\t" + failVarSummaries[m].toShortString() + "\n");
}
} else {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_PASSED;
reportTCBuffer.append("\t\tTolerance test PASSED \n");
}
reportTCBuffer.append("\t\tPassed Variables : \n");
// Check if varSummary exists in failed summaries list. If not, simulation passed.
for (int m = 0; m < allVarSummaries.length; m++) {
if (!BeanUtils.arrayContains(failVarSummaries, allVarSummaries[m])) {
reportTCBuffer.append("\t\t\t" + allVarSummaries[m].toShortString() + "\n");
}
}
}
} else {
// NON-SPATIAL CASE
ODEDataManager odeDataManager = (ODEDataManager) simDataManager;
ODESolverResultSet numericalResultSet = odeDataManager.getODESolverResultSet();
// Get EXACT result set if test case type is EXACT, Compare with numerical
if (testCase.getType().equals(TestCaseNew.EXACT) || testCase.getType().equals(TestCaseNew.EXACT_STEADY)) {
ODESolverResultSet exactResultSet = MathTestingUtilities.getExactResultSet(testSim.getMathDescription(), timeArray, testSim.getSolverTaskDescription().getSensitivityParameter());
String[] varsToCompare = getVariableNamesToCompare(simSymbolTable, simSymbolTable);
SimulationComparisonSummary simCompSummary_exact = MathTestingUtilities.compareResultSets(numericalResultSet, exactResultSet, varsToCompare, testCase.getType(), testCriteria.getMaxAbsError(), testCriteria.getMaxRelError());
// Get all the variable comparison summaries and the failed ones to print out report for EXACT solution comparison.
failVarSummaries = simCompSummary_exact.getFailingVariableComparisonSummaries(absErr, relErr);
allVarSummaries = simCompSummary_exact.getVariableComparisonSummaries();
if (failVarSummaries.length > 0) {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_FAILEDVARS;
// Failed simulation
reportTCBuffer.append("\t\tTolerance test FAILED \n");
reportTCBuffer.append("\t\tFailed Variables : \n");
for (int m = 0; m < failVarSummaries.length; m++) {
reportTCBuffer.append("\t\t\t" + failVarSummaries[m].toShortString() + "\n");
}
} else {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_PASSED;
reportTCBuffer.append("\t\tTolerance test PASSED \n");
}
reportTCBuffer.append("\t\tPassed Variables : \n");
// Check if varSummary exists in failed summaries list. If not, simulation passed.
for (int m = 0; m < allVarSummaries.length; m++) {
if (!BeanUtils.arrayContains(failVarSummaries, allVarSummaries[m])) {
reportTCBuffer.append("\t\t\t" + allVarSummaries[m].toShortString() + "\n");
}
}
// Get CONSTRUCTED result set if test case type is CONSTRUCTED , compare with numerical
} else if (testCase.getType().equals(TestCaseNew.CONSTRUCTED)) {
ODESolverResultSet constructedResultSet = MathTestingUtilities.getConstructedResultSet(testSim.getMathDescription(), timeArray);
String[] varsToCompare = getVariableNamesToCompare(simSymbolTable, simSymbolTable);
SimulationComparisonSummary simCompSummary_constr = MathTestingUtilities.compareResultSets(numericalResultSet, constructedResultSet, varsToCompare, testCase.getType(), testCriteria.getMaxAbsError(), testCriteria.getMaxRelError());
// Get all the variable comparison summaries and the failed ones to print out report for CONSTRUCTED solution comparison.
failVarSummaries = simCompSummary_constr.getFailingVariableComparisonSummaries(absErr, relErr);
allVarSummaries = simCompSummary_constr.getVariableComparisonSummaries();
if (failVarSummaries.length > 0) {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_FAILEDVARS;
// Failed simulation
reportTCBuffer.append("\t\tTolerance test FAILED \n");
reportTCBuffer.append("\t\tFailed Variables : \n");
for (int m = 0; m < failVarSummaries.length; m++) {
reportTCBuffer.append("\t\t\t" + failVarSummaries[m].toShortString() + "\n");
}
} else {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_PASSED;
reportTCBuffer.append("\t\tTolerance test PASSED \n");
}
reportTCBuffer.append("\t\tPassed Variables : \n");
// Check if varSummary exists in failed summaries list. If not, simulation passed.
for (int m = 0; m < allVarSummaries.length; m++) {
if (!BeanUtils.arrayContains(failVarSummaries, allVarSummaries[m])) {
reportTCBuffer.append("\t\t\t" + allVarSummaries[m].toShortString() + "\n");
}
}
} else if (testCase.getType().equals(TestCaseNew.REGRESSION)) {
Simulation refSim = ((ClientDocumentManager) getRequestManager().getDocumentManager()).getSimulation(testCriteria.getRegressionSimInfo());
if (refSim.getScanCount() != 1) {
throw new RuntimeException("paramater scan is not supported in Math Testing Framework");
}
SimulationSymbolTable refSimSymbolTable = new SimulationSymbolTable(refSim, 0);
String[] varsToTest = getVariableNamesToCompare(simSymbolTable, refSimSymbolTable);
VCDataIdentifier refVcdID = new VCSimulationDataIdentifier(refVCDocumentAndSimInfo.getSimInfo().getAuthoritativeVCSimulationIdentifier(), 0);
ODEDataManager refDataManager = (ODEDataManager) getRequestManager().getDataManager(null, refVcdID, refSim.isSpatial());
ODESolverResultSet referenceResultSet = refDataManager.getODESolverResultSet();
SimulationComparisonSummary simCompSummary_regr = null;
int interpolationOrder = 1;
SolverTaskDescription solverTaskDescription = refSim.getSolverTaskDescription();
if (solverTaskDescription.getOutputTimeSpec().isDefault() && ((DefaultOutputTimeSpec) solverTaskDescription.getOutputTimeSpec()).getKeepEvery() == 1) {
SolverDescription solverDescription = solverTaskDescription.getSolverDescription();
if ((!solverDescription.supportsAll(SolverDescription.DiscontinutiesFeatures)) || !refSim.getMathDescription().hasDiscontinuities()) {
interpolationOrder = solverDescription.getTimeOrder();
}
}
simCompSummary_regr = MathTestingUtilities.compareUnEqualResultSets(numericalResultSet, referenceResultSet, varsToTest, testCriteria.getMaxAbsError(), testCriteria.getMaxRelError(), interpolationOrder);
// Get all the variable comparison summaries and the failed ones to print out report for CONSTRUCTED solution comparison.
failVarSummaries = simCompSummary_regr.getFailingVariableComparisonSummaries(absErr, relErr);
allVarSummaries = simCompSummary_regr.getVariableComparisonSummaries();
if (failVarSummaries.length > 0) {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_FAILEDVARS;
// Failed simulation
reportTCBuffer.append("\t\tTolerance test FAILED \n");
reportTCBuffer.append("\t\tFailed Variables : \n");
for (int m = 0; m < failVarSummaries.length; m++) {
reportTCBuffer.append("\t\t\t" + failVarSummaries[m].toShortString() + "\n");
}
} else {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_PASSED;
reportTCBuffer.append("\t\tTolerance test PASSED \n");
}
reportTCBuffer.append("\t\tPassed Variables : \n");
// Check if varSummary exists in failed summaries list. If not, simulation passed.
for (int m = 0; m < allVarSummaries.length; m++) {
if (!BeanUtils.arrayContains(failVarSummaries, allVarSummaries[m])) {
reportTCBuffer.append("\t\t\t" + allVarSummaries[m].toShortString() + "\n");
}
}
}
}
}
}
} catch (Throwable e) {
simReportStatus = TestCriteriaNew.TCRIT_STATUS_RPERROR;
simReportStatusMessage = e.getClass().getName() + " " + e.getMessage();
reportTCBuffer.append("\t\t" + simReportStatusMessage + "\n");
e.printStackTrace(System.out);
}
if (userSelectedRefSimInfo == null) {
try {
// Remove any test results already present for testCriteria
RemoveTestResultsOP removeResultsOP = new RemoveTestResultsOP(new BigDecimal[] { testCriteria.getTCritKey() });
// testResultsOPsVector.add(removeResultsOP);
getRequestManager().getDocumentManager().doTestSuiteOP(removeResultsOP);
// Create new AddTestREsultsOP object for the current simulation./testCriteria.
if (allVarSummaries != null) {
AddTestResultsOP testResultsOP = new AddTestResultsOP(testCriteria.getTCritKey(), allVarSummaries);
// testResultsOPsVector.add(testResultsOP);
// Write the testResults for simulation/TestCriteria into the database ...
getRequestManager().getDocumentManager().doTestSuiteOP(testResultsOP);
}
// Update report status
updateTCritStatus(testCriteria, simReportStatus, simReportStatusMessage);
} catch (Throwable e) {
reportTCBuffer.append("\t\tUpdate DB Results failed. " + e.getClass().getName() + " " + e.getMessage() + "\n");
try {
getRequestManager().getDocumentManager().doTestSuiteOP(new EditTestCriteriaOPReportStatus(testCriteria.getTCritKey(), TestCriteriaNew.TCRIT_STATUS_RPERROR, e.getClass().getName() + " " + e.getMessage()));
} catch (Throwable e2) {
// Nothing more can be done
}
}
}
return reportTCBuffer.toString();
}
use of cbit.vcell.solver.VCSimulationDataIdentifier in project vcell by virtualcell.
the class PDEDataViewer method isParameterScan.
public static boolean isParameterScan(PDEDataContext oldValue, PDEDataContext newValue) {
VCDataIdentifier oldVCDataID = (oldValue == null ? null : oldValue.getVCDataIdentifier());
VCDataIdentifier newVCDataID = (newValue == null ? null : newValue.getVCDataIdentifier());
KeyValue oldSimKey = (oldVCDataID instanceof VCSimulationDataIdentifier ? ((VCSimulationDataIdentifier) oldVCDataID).getSimulationKey() : (oldVCDataID instanceof VCSimulationDataIdentifierOldStyle ? ((VCSimulationDataIdentifierOldStyle) oldVCDataID).getSimulationKey() : null));
// int oldJobIndex = (oldVCDataID instanceof VCSimulationDataIdentifier?((VCSimulationDataIdentifier) oldVCDataID).getJobIndex():(oldVCDataID instanceof VCSimulationDataIdentifierOldStyle?((VCSimulationDataIdentifierOldStyle) oldVCDataID).getJobIndex():-1));
KeyValue newSimKey = (newVCDataID instanceof VCSimulationDataIdentifier ? ((VCSimulationDataIdentifier) newVCDataID).getSimulationKey() : (newVCDataID instanceof VCSimulationDataIdentifierOldStyle ? ((VCSimulationDataIdentifierOldStyle) newVCDataID).getSimulationKey() : null));
// int newJobIndex = (newVCDataID instanceof VCSimulationDataIdentifier?((VCSimulationDataIdentifier) newVCDataID).getJobIndex():(newVCDataID instanceof VCSimulationDataIdentifierOldStyle?((VCSimulationDataIdentifierOldStyle) newVCDataID).getJobIndex():-1));
return (oldSimKey != null && newSimKey != null && oldSimKey.equals(newSimKey));
}
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