Examples with GeometryInfo cbit.vcell.geometry.GeometryInfo used on opensource projects

Example 36 with GeometryInfo

use of cbit.vcell.geometry.GeometryInfo in project vcell by virtualcell.

the class DocumentToExport method run.

/**
 * Insert the method's description here. Creation date: (5/31/2004 6:04:14
 * PM)
 *
 * @param hashTable
 *            java.util.Hashtable
 * @param clientWorker
 *            cbit.vcell.desktop.controls.ClientWorker
 */
@Override
public void run(Hashtable<String, Object> hashTable) throws java.lang.Exception {
    TopLevelWindowManager topLevelWindowManager = extractRequired(hashTable, TopLevelWindowManager.class, "topLevelWindowManager");
    VCDocument doc = null;
    if (topLevelWindowManager instanceof DocumentWindowManager) {
        doc = ((DocumentWindowManager) topLevelWindowManager).getVCDocument();
    } else if (topLevelWindowManager instanceof DatabaseWindowManager) {
        DocumentManager documentManager = extractRequired(hashTable, DocumentManager.class, CommonTask.DOCUMENT_MANAGER.name);
        VCDocumentInfo documentInfo = ((DatabaseWindowManager) topLevelWindowManager).getPanelSelection();
        if (documentInfo instanceof BioModelInfo) {
            BioModelInfo bmi = (BioModelInfo) documentInfo;
            doc = documentManager.getBioModel(bmi);
        } else if (documentInfo instanceof MathModelInfo) {
            MathModelInfo mmi = (MathModelInfo) documentInfo;
            doc = documentManager.getMathModel(mmi);
        } else if (documentInfo instanceof GeometryInfo) {
            GeometryInfo gmi = (GeometryInfo) documentInfo;
            doc = documentManager.getGeometry(gmi);
        }
        if (doc == null) {
            throw new IllegalStateException("export called on DatabaseWindowManager with selection " + documentInfo);
        }
    }
    if (doc != null) {
        hashTable.put(EXPORT_DOCUMENT, doc);
    } else {
        throw new UnsupportedOperationException("TopLevelWindowManager subclass " + topLevelWindowManager.getClass().getName() + " does not support exporting to document");
    }
}

Example 37 with GeometryInfo

use of cbit.vcell.geometry.GeometryInfo in project vcell by virtualcell.

the class MathModelEditor method setRightBottomPanelOnSelection.

@Override
protected void setRightBottomPanelOnSelection(Object[] selections) {
    if (selections == null) {
        return;
    }
    JComponent bottomComponent = rightBottomEmptyPanel;
    int destComponentIndex = DocumentEditorTabID.object_properties.ordinal();
    boolean bShowInDatabaseProperties = false;
    if (selections != null && selections.length == 1) {
        Object singleSelection = selections[0];
        if (singleSelection == mathModel) {
            bottomComponent = mathModelEditorAnnotationPanel;
        } else if (singleSelection instanceof DocumentEditorTreeFolderNode) {
            DocumentEditorTreeFolderNode folderNode = (DocumentEditorTreeFolderNode) singleSelection;
            if (folderNode.getFolderClass() == DocumentEditorTreeFolderClass.MATH_ANNOTATION_NODE) {
                bottomComponent = mathModelEditorAnnotationPanel;
            } else if (folderNode.getFolderClass() == DocumentEditorTreeFolderClass.MATH_SIMULATIONS_NODE) {
                bottomComponent = simulationSummaryPanel;
            }
        } else if (singleSelection instanceof BioModelInfo) {
            bShowInDatabaseProperties = true;
            bottomComponent = bioModelMetaDataPanel;
        } else if (singleSelection instanceof MathModelInfo) {
            bShowInDatabaseProperties = true;
            bottomComponent = mathModelMetaDataPanel;
        } else if (singleSelection instanceof GeometryInfo) {
            bShowInDatabaseProperties = true;
            bottomComponent = geometryMetaDataPanel;
        } else if (singleSelection instanceof Simulation) {
            bottomComponent = simulationSummaryPanel;
        } else if (singleSelection instanceof CSGObject) {
            bottomComponent = csgObjectPropertiesPanel;
            csgObjectPropertiesPanel.setSimulationContext(getSelectedSimulationContext());
        }
    }
    if (bShowInDatabaseProperties) {
        for (destComponentIndex = 0; destComponentIndex < rightBottomTabbedPane.getTabCount(); destComponentIndex++) {
            Component c = rightBottomTabbedPane.getComponentAt(destComponentIndex);
            if (c == bioModelMetaDataPanel || c == mathModelMetaDataPanel || c == geometryMetaDataPanel) {
                break;
            }
        }
        if (rightBottomTabbedPane.getTabCount() == destComponentIndex) {
            rightBottomTabbedPane.addTab(DATABASE_PROPERTIES_TAB_TITLE, new TabCloseIcon(), bottomComponent);
        }
    }
    if (rightSplitPane.getBottomComponent() != rightBottomTabbedPane) {
        rightSplitPane.setBottomComponent(rightBottomTabbedPane);
    }
    if (rightBottomTabbedPane.getComponentAt(destComponentIndex) != bottomComponent) {
        rightBottomTabbedPane.setComponentAt(destComponentIndex, bottomComponent);
        rightBottomTabbedPane.repaint();
    }
    rightBottomTabbedPane.setSelectedComponent(bottomComponent);
}

Example 38 with GeometryInfo

use of cbit.vcell.geometry.GeometryInfo in project vcell by virtualcell.

the class GeometryDbTreeModel method createOwnerSubTree.

/**
 * Insert the method's description here.
 * Creation date: (11/28/00 1:06:51 PM)
 * @return cbit.vcell.desktop.BioModelNode
 * @param docManager cbit.vcell.clientdb.DocumentManager
 */
public BioModelNode createOwnerSubTree(User owner, GeometryInfo[] geometryInfos) throws DataAccessException {
    // 
    // for each user
    // 
    BioModelNode rootNode = new BioModelNode(owner, true);
    for (int i = 0; i < geometryInfos.length; i++) {
        GeometryInfo geometryInfo = geometryInfos[i];
        if (geometryInfo.getVersion().getOwner().equals(owner) && geometryInfo.getDimension() > 0) {
            if (!meetSearchCriteria(geometryInfo)) {
                continue;
            }
            BioModelNode bioModelNode = new BioModelNode(new VCDocumentInfoNode(geometryInfo), true);
            rootNode.add(bioModelNode);
            // 
            // get list of geometries with the same branch
            // 
            Vector<GeometryInfo> geometryBranchList = new Vector<GeometryInfo>();
            geometryBranchList.addElement(geometryInfo);
            for (i = i + 1; i < geometryInfos.length; i++) {
                if (geometryInfos[i].getVersion().getBranchID().equals(geometryInfo.getVersion().getBranchID()) && geometryInfos[i].getDimension() > 0) {
                    if (!meetSearchCriteria(geometryInfos[i])) {
                        continue;
                    }
                    geometryBranchList.add(0, geometryInfos[i]);
                } else {
                    i--;
                    break;
                }
            }
            GeometryInfo[] geometryInfosInBranch = null;
            if (getLatestOnly()) {
                geometryInfosInBranch = new GeometryInfo[1];
                geometryInfosInBranch[0] = (GeometryInfo) geometryBranchList.elementAt(0);
            } else {
                geometryInfosInBranch = new GeometryInfo[geometryBranchList.size()];
                geometryBranchList.copyInto(geometryInfosInBranch);
            }
            for (int versionCount = 0; versionCount < geometryInfosInBranch.length; versionCount++) {
                bioModelNode.add(createVersionSubTree(geometryInfosInBranch[versionCount]));
            }
        }
    }
    return rootNode;
}

Example 39 with GeometryInfo

use of cbit.vcell.geometry.GeometryInfo in project vcell by virtualcell.

the class GeometryDbTreeModel method databaseInsert.

/**
 * @param event cbit.vcell.clientdb.DatabaseEvent
 */
public void databaseInsert(DatabaseEvent databaseEvent) {
    if (databaseEvent.getNewVersionInfo() instanceof GeometryInfo) {
        try {
            GeometryInfo insertedGeometryInfo = (GeometryInfo) databaseEvent.getNewVersionInfo();
            // 
            // get parent of updated version
            // 
            // model1                           (VCDocumentInfoNode)
            // Fri Sept 2, 2001 12:00:00     (GeometryInfo)
            // Fri Sept 1, 2001 10:00:00     (GeometryInfo)
            // 
            // 
            BioModelNode newVersionNode = createVersionSubTree(insertedGeometryInfo);
            // 
            // find owner node (if it is displayed)
            // 
            User owner = insertedGeometryInfo.getVersion().getOwner();
            BioModelNode ownerRoot = ((BioModelNode) getRoot()).findNodeByUserObject(owner);
            BioModelNode parentNode = null;
            if (ownerRoot != null) {
                parentNode = ownerRoot.findNodeByUserObject(new VCDocumentInfoNode(insertedGeometryInfo));
            }
            if (parentNode == null) {
                // 
                // fresh insert
                // Have to create parent node, for all versions of this geometry,
                // and stick it in the correct order in the tree.
                // 
                parentNode = new BioModelNode(new VCDocumentInfoNode(insertedGeometryInfo), true);
                parentNode.insert(newVersionNode, 0);
                // 
                if (ownerRoot != null) {
                    // !!!!!!!!!!!!!! new insert on top (index=0) .... should do insertion sort !!!!
                    ownerRoot.insert(parentNode, 0);
                    insertNodeInto(parentNode, ownerRoot, 0);
                }
            } else {
                // 
                // already versions there (just add child in the correct position within parent)
                // 
                // !!!!!!!!!! right now ignore order !!!!!!!!!!
                parentNode.insert(newVersionNode, 0);
                insertNodeInto(newVersionNode, parentNode, 0);
            }
        } catch (DataAccessException e) {
            e.printStackTrace(System.out);
            System.out.println("exception responding to databaseInsert(), refreshing whole tree");
            refreshTree();
        }
    }
}

Example 40 with GeometryInfo

use of cbit.vcell.geometry.GeometryInfo in project vcell by virtualcell.

the class GeometryDbTreeModel method createBaseTree.

/**
 * Insert the method's description here.
 * Creation date: (11/28/00 1:06:51 PM)
 * @return cbit.vcell.desktop.BioModelNode
 * @param docManager cbit.vcell.clientdb.DocumentManager
 */
protected void createBaseTree() throws DataAccessException {
    VCDocumentDbTreeModel.initBaseTree(rootNode, new BioModelNode[] { myModelsNode, sharedModelsNode, otherModelsNode }, "Geometries", sharedModelsNode, SHARED_GEOMETRIES);
    GeometryInfo[] geometryInfos = getDocumentManager().getGeometryInfos();
    User loginUser = getDocumentManager().getUser();
    TreeMap<String, BioModelNode> treeMap = null;
    try {
        treeMap = VCDocumentDbTreeModel.initOwners(geometryInfos, loginUser, this, this.getClass().getMethod("createOwnerSubTree", new Class[] { User.class, GeometryInfo[].class }));
    } catch (Exception e) {
        e.printStackTrace();
        treeMap = new TreeMap<String, BioModelNode>();
        treeMap.put(loginUser.getName(), new BioModelNode("Error:" + e.getMessage()));
    }
    initFinalTree(this, treeMap, loginUser);
}