Examples with VCDocument org.vcell.util.document.VCDocument used on opensource projects

Example 36 with VCDocument

use of org.vcell.util.document.VCDocument in project vcell by virtualcell.

the class ClientRequestManager method revertToSaved.

/**
 * Insert the method's description here.
 * Creation date: (6/9/2004 1:07:09 PM)
 * @param vcDocument cbit.vcell.document.VCDocument
 */
public void revertToSaved(DocumentWindowManager documentWindowManager) {
    // make the info
    VCDocument document = documentWindowManager.getVCDocument();
    VCDocumentInfo info = null;
    try {
        KeyValue versionKey = document.getVersion().getVersionKey();
        switch(document.getDocumentType()) {
            case BIOMODEL_DOC:
                {
                    info = getDocumentManager().getBioModelInfo(versionKey);
                    break;
                }
            case MATHMODEL_DOC:
                {
                    info = getDocumentManager().getMathModelInfo(versionKey);
                    break;
                }
            case GEOMETRY_DOC:
                {
                    info = getDocumentManager().getGeometryInfo(versionKey);
                    break;
                }
        }
    } catch (DataAccessException e) {
        e.printStackTrace(System.out);
        throw new RuntimeException(e.getMessage());
    }
    // reload and reset into same window
    openAfterChecking(info, documentWindowManager, false);
}

Example 37 with VCDocument

use of org.vcell.util.document.VCDocument in project vcell by virtualcell.

the class ClientRequestManager method compareWithOther.

/**
 * Processes the model comparison request.
 * Creation date: (6/9/2004 1:07:09 PM)
 * @param vcDocument cbit.vcell.document.VCDocument
 */
public XmlTreeDiff compareWithOther(final VCDocumentInfo docInfo1, final VCDocumentInfo docInfo2) {
    VCDocument document1, document2;
    try {
        // get the VCDocument versions from documentManager
        if (docInfo1 instanceof BioModelInfo && docInfo2 instanceof BioModelInfo) {
            document1 = getDocumentManager().getBioModel((BioModelInfo) docInfo1);
            document2 = getDocumentManager().getBioModel((BioModelInfo) docInfo2);
        } else if (docInfo1 instanceof MathModelInfo && docInfo2 instanceof MathModelInfo) {
            document1 = getDocumentManager().getMathModel((MathModelInfo) docInfo1);
            document2 = getDocumentManager().getMathModel((MathModelInfo) docInfo2);
        } else if (docInfo1 instanceof GeometryInfo && docInfo2 instanceof GeometryInfo) {
            document1 = getDocumentManager().getGeometry((GeometryInfo) docInfo1);
            document2 = getDocumentManager().getGeometry((GeometryInfo) docInfo2);
        } else {
            throw new IllegalArgumentException("The two documents are invalid or of different types.");
        }
        return compareDocuments(document1, document2, DiffConfiguration.COMPARE_DOCS_OTHER);
    } catch (Exception e) {
        e.printStackTrace();
        throw new RuntimeException(e.getMessage());
    }
}

Example 38 with VCDocument

use of org.vcell.util.document.VCDocument in project vcell by virtualcell.

the class ClientRequestManager method getOpenDesktopDocumentInfos.

public OpenModelInfoHolder[] getOpenDesktopDocumentInfos(boolean bIncludeSimulations) throws DataAccessException {
    Vector<OpenModelInfoHolder> simInfoHolderV = new Vector<OpenModelInfoHolder>();
    for (TopLevelWindowManager tlwm : getMdiManager().getWindowManagers()) {
        if (tlwm instanceof DocumentWindowManager) {
            DocumentWindowManager dwm = (DocumentWindowManager) tlwm;
            VCDocument vcDoc = dwm.getVCDocument();
            // if(vcDoc.getVersion() != null){
            if (vcDoc.getDocumentType() == VCDocumentType.BIOMODEL_DOC) {
                BioModel bioModel = (BioModel) vcDoc;
                // getDocumentManager().getBioModel(vcDoc.getVersion().getVersionKey());
                SimulationContext[] simContexts = bioModel.getSimulationContexts();
                for (int i = 0; i < simContexts.length; i += 1) {
                    if (bIncludeSimulations) {
                        if (simContexts[i].getGeometry() == null) {
                            throw new DataAccessException("Error gathering document info (isCompartmental check failed):\nOpen BioModel document " + bioModel.getName() + " has no Geometry");
                        }
                        Simulation[] sims = simContexts[i].getSimulations();
                        for (int j = 0; j < sims.length; j += 1) {
                            for (int k = 0; k < sims[j].getScanCount(); k += 1) {
                                FieldDataWindowManager.OpenModelInfoHolder simInfoHolder = new FieldDataWindowManager.FDSimBioModelInfo(sims[j].getName(), bioModel.getVersion(), simContexts[i], sims[j].getSimulationInfo(), k, // !sims[j].getSolverTaskDescription().getSolverDescription().hasVariableTimestep(),
                                simContexts[i].getGeometry().getDimension() == 0);
                                simInfoHolderV.add(simInfoHolder);
                            }
                        }
                    } else {
                        FieldDataWindowManager.OpenModelInfoHolder simInfoHolder = new FieldDataWindowManager.FDSimBioModelInfo(null, bioModel.getVersion(), simContexts[i], null, -1, simContexts[i].getGeometry().getDimension() == 0);
                        simInfoHolderV.add(simInfoHolder);
                    }
                }
            } else if (vcDoc.getDocumentType() == VCDocumentType.MATHMODEL_DOC) {
                MathModel mathModel = (MathModel) vcDoc;
                // getDocumentManager().getMathModel(vcDoc.getVersion().getVersionKey());
                if (bIncludeSimulations) {
                    if (mathModel.getMathDescription() == null || mathModel.getMathDescription().getGeometry() == null) {
                        throw new DataAccessException("Error gathering document info (isCompartmental check failed):\nOpen MathModel document " + mathModel.getName() + " has either no MathDescription or no Geometry");
                    }
                    Simulation[] sims = mathModel.getSimulations();
                    for (int i = 0; i < sims.length; i += 1) {
                        for (int k = 0; k < sims[i].getScanCount(); k += 1) {
                            FieldDataWindowManager.OpenModelInfoHolder simInfoHolder = new FieldDataWindowManager.FDSimMathModelInfo(sims[i].getName(), mathModel.getVersion(), mathModel.getMathDescription(), sims[i].getSimulationInfo(), k, // !sims[i].getSolverTaskDescription().getSolverDescription().hasVariableTimestep(),
                            mathModel.getMathDescription().getGeometry().getDimension() == 0);
                            simInfoHolderV.add(simInfoHolder);
                        }
                    }
                } else {
                    FieldDataWindowManager.OpenModelInfoHolder simInfoHolder = new FieldDataWindowManager.FDSimMathModelInfo(null, mathModel.getVersion(), mathModel.getMathDescription(), null, -1, mathModel.getMathDescription().getGeometry().getDimension() == 0);
                    simInfoHolderV.add(simInfoHolder);
                }
            }
        // }
        }
    }
    OpenModelInfoHolder[] simInfoHolderArr = new OpenModelInfoHolder[simInfoHolderV.size()];
    simInfoHolderV.copyInto(simInfoHolderArr);
    return simInfoHolderArr;
}