use of cbit.vcell.geometry.GeometryInfo in project vcell by virtualcell.
the class ClientDocumentManager method setGroupPublic.
/**
* Insert the method's description here.
* Creation date: (11/28/00 5:43:44 PM)
* @param bioModelInfo cbit.vcell.biomodel.BioModelInfo
*/
public GeometryInfo setGroupPublic(GeometryInfo geometryInfo) throws DataAccessException {
try {
//
// publish from database
//
GeometryInfo newGeometryInfo = (GeometryInfo) setGroupPublic0(geometryInfo, VersionableType.Geometry, geoInfoHash);
// //
// // delete Geometry from cache
// //
// xmlHash.remove(geometryInfo.getVersion().getVersionKey());
// //
// // delete any MathModelMetaData's that use this GeometryInfo from cache
// //
// MathModelInfo referencedMathModelInfos[] = getMathModelReferences(geometryInfo);
// for (int i = 0; i < referencedMathModelInfos.length; i++){
// xmlHash.remove(referencedMathModelInfos[i].getVersion().getVersionKey());
// }
// //
// // delete any BioModelMetaData's that use this GeometryInfo from cache
// //
// BioModelInfo referencedBioModelInfos[] = getBioModelReferences(geometryInfo);
// for (int i = 0; i < referencedBioModelInfos.length; i++){
// xmlHash.remove(referencedBioModelInfos[i].getVersion().getVersionKey());
// }
fireDatabaseUpdate(new DatabaseEvent(this, DatabaseEvent.UPDATE, geometryInfo, newGeometryInfo));
return newGeometryInfo;
} catch (RemoteProxyException e) {
handleRemoteProxyException(e);
throw new DataAccessException(e.getMessage());
}
}
use of cbit.vcell.geometry.GeometryInfo in project vcell by virtualcell.
the class ClientDocumentManager method getGeometryInfo.
/**
* Insert the method's description here.
* Creation date: (11/14/00 2:50:07 PM)
* @return cbit.sql.Versionable
* @param vType cbit.sql.VersionableType
* @param key cbit.sql.KeyValue
*/
public synchronized GeometryInfo getGeometryInfo(KeyValue key) throws DataAccessException {
if (key == null) {
System.out.println("<<<NULL>>>> ClientDocumentManager.getGeometryInfo(" + key + ")");
return null;
}
//
// first look in local cache for the Info object
//
GeometryInfo geometryInfo = (GeometryInfo) geoInfoHash.get(key);
if (geometryInfo != null) {
// System.out.println("<<<IN CACHE>>> ClientDocumentManager.getGeometryInfo("+key+")");
return geometryInfo;
}
//
// else get new list of info objects from database and stick in cache
//
reloadGeometryInfos();
// bGeometryInfosDirty = false;
//
// now look in cache again (should be in there unless it was deleted from database).
//
geometryInfo = (GeometryInfo) geoInfoHash.get(key);
if (geometryInfo != null) {
return geometryInfo;
} else {
throw new ObjectNotFoundException("GeometryInfo(" + key + ") not found");
}
}
use of cbit.vcell.geometry.GeometryInfo in project vcell by virtualcell.
the class ClientDocumentManager method removeUserFromGroup.
/**
* Insert the method's description here.
* Creation date: (11/28/00 5:43:44 PM)
* @param bioModelInfo cbit.vcell.biomodel.BioModelInfo
*/
public GeometryInfo removeUserFromGroup(GeometryInfo geometryInfo, String userToRemove) throws DataAccessException {
try {
//
// publish from database
//
GeometryInfo newGeometryInfo = (GeometryInfo) removeUserFromGroup0(geometryInfo, VersionableType.Geometry, geoInfoHash, userToRemove);
// //
// // delete Geometry from cache
// //
// xmlHash.remove(geometryInfo.getVersion().getVersionKey());
// //
// // delete any MathModelMetaData's that use this GeometryInfo from cache
// //
// MathModelInfo referencedMathModelInfos[] = getMathModelReferences(geometryInfo);
// for (int i = 0; i < referencedMathModelInfos.length; i++){
// xmlHash.remove(referencedMathModelInfos[i].getVersion().getVersionKey());
// }
// //
// // delete any BioModelMetaData's that use this GeometryInfo from cache
// //
// BioModelInfo referencedBioModelInfos[] = getBioModelReferences(geometryInfo);
// for (int i = 0; i < referencedBioModelInfos.length; i++){
// xmlHash.remove(referencedBioModelInfos[i].getVersion().getVersionKey());
// }
fireDatabaseUpdate(new DatabaseEvent(this, DatabaseEvent.UPDATE, geometryInfo, newGeometryInfo));
return newGeometryInfo;
} catch (RemoteProxyException e) {
handleRemoteProxyException(e);
throw new DataAccessException(e.getMessage());
}
}
use of cbit.vcell.geometry.GeometryInfo in project vcell by virtualcell.
the class VCellBasicCellRenderer method getTreeCellRendererComponent.
/**
* Insert the method's description here.
* Creation date: (7/27/2000 6:41:57 PM)
* @return java.awt.Component
*/
public java.awt.Component getTreeCellRendererComponent(JTree tree, Object value, boolean sel, boolean expanded, boolean leaf, int row, boolean hasFocus) {
JLabel component = (JLabel) super.getTreeCellRendererComponent(tree, value, sel, expanded, leaf, row, hasFocus);
//
if (!leaf && expanded) {
setIcon(fieldFolderOpenIcon);
} else if (!leaf && !expanded) {
setIcon(fieldFolderClosedIcon);
}
try {
if (value instanceof BioModelNode) {
BioModelNode node = (BioModelNode) value;
boolean bLoaded = false;
//
// Check if node is a SolverResultSetInfo
//
Object userObject = node.getUserObject();
if (userObject instanceof SimulationInfo) {
//
// Check if node is a SimulationInfo
//
setComponentProperties(component, (SimulationInfo) userObject);
int maxErrorLevel = getMaxErrorLevel(node);
if (maxErrorLevel == BioModelNode.ERROR_POSSIBLE) {
setIcon(fieldSimulationWarningIcon);
component.setToolTipText("Simulation contains possibly invalid results");
} else if (maxErrorLevel == BioModelNode.ERROR_CONFIRMED) {
setIcon(fieldSimulationErrorIcon);
component.setToolTipText("Simulation contains invalid results");
}
} else if (userObject instanceof String && node.getChildCount() == 0) {
component.setToolTipText(null);
component.setText((String) userObject);
} else if (userObject instanceof BioModelInfo) {
//
// Check if node is a BioModelInfo
//
setComponentProperties(component, (BioModelInfo) userObject);
bLoaded = isLoaded((BioModelInfo) userObject);
int maxErrorLevel = getMaxErrorLevel(node);
if (maxErrorLevel == BioModelNode.ERROR_POSSIBLE) {
setIcon(fieldBioModelWarningIcon);
component.setToolTipText("BioModel version: Has possibly invalid simulation results");
} else if (maxErrorLevel == BioModelNode.ERROR_CONFIRMED) {
setIcon(fieldBioModelErrorIcon);
component.setToolTipText("BioModel version: Has invalid simulation results");
}
} else if (userObject instanceof String && node.getChildCount() > 0 && ((BioModelNode) node.getChildAt(0)).getUserObject() instanceof BioModelInfo) {
//
// Check if node is a BioModelName (String), with children (at least one version of biomodel), and if the child is a
// BioModelInfo node
//
String label = (String) userObject;
component.setToolTipText("BioModel");
component.setText(label);
//
// check if child is loaded
//
int maxErrorLevel = BioModelNode.ERROR_NONE;
for (int i = 0; i < node.getChildCount(); i++) {
maxErrorLevel = Math.max(maxErrorLevel, getMaxErrorLevel((BioModelNode) node.getChildAt(i)));
}
if (maxErrorLevel == BioModelNode.ERROR_POSSIBLE) {
if (!leaf && expanded) {
setIcon(fieldFolderOpenWarningIcon);
} else if (!leaf && !expanded) {
setIcon(fieldFolderClosedWarningIcon);
}
component.setToolTipText("BioModel: one or more versions may have invalid simulation results");
} else if (maxErrorLevel == BioModelNode.ERROR_CONFIRMED) {
if (!leaf && expanded) {
setIcon(fieldFolderOpenErrorIcon);
} else if (!leaf && !expanded) {
setIcon(fieldFolderClosedErrorIcon);
}
component.setToolTipText("BioModel: one or more versions have invalid simulation results");
}
//
for (int i = 0; i < node.getChildCount(); i++) {
BioModelInfo bioModelInfo = (BioModelInfo) ((BioModelNode) node.getChildAt(i)).getUserObject();
if (isLoaded(bioModelInfo)) {
bLoaded = true;
}
}
} else if (userObject instanceof User && node.getChildCount() > 0 && (((BioModelNode) node.getChildAt(0)).getUserObject() instanceof String) && ((BioModelNode) (node.getChildAt(0).getChildAt(0))).getUserObject() instanceof BioModelInfo) {
//
// Check if node is a User, with at least one child which is a string (BioModel name)
// and if the child's child is a BioModelInfo node
//
String label = ((User) userObject).getName();
component.setToolTipText("User Name");
component.setText(label);
if (isLoaded((User) userObject)) {
bLoaded = true;
}
} else if (userObject instanceof MathModelInfo) {
//
// Check if node is a MathModelInfo node
//
setComponentProperties(component, (MathModelInfo) userObject);
bLoaded = isLoaded((MathModelInfo) userObject);
} else if (userObject instanceof String && node.getChildCount() > 0 && ((BioModelNode) node.getChildAt(0)).getUserObject() instanceof MathModelInfo) {
//
// Check if node is a MathModel name (String), with children (at least one version of mathmodel), and
// if the child is a MathModelInfo node
//
String label = (String) userObject;
component.setToolTipText("Mathematical Model");
component.setText(label);
//
for (int i = 0; i < node.getChildCount(); i++) {
MathModelInfo mathModelInfo = (MathModelInfo) ((BioModelNode) node.getChildAt(i)).getUserObject();
if (isLoaded(mathModelInfo)) {
bLoaded = true;
}
}
} else if (userObject instanceof User && node.getChildCount() > 0 && (((BioModelNode) node.getChildAt(0)).getUserObject() instanceof String) && ((BioModelNode) (node.getChildAt(0).getChildAt(0))).getUserObject() instanceof MathModelInfo) {
//
// Check if node is a User, with at least one child which is a string (Mathmodel name)
// and if the child's child is a MathModelInfo node
//
String label = ((User) userObject).getName();
component.setToolTipText("User Name");
component.setText(label);
if (isLoaded((User) userObject)) {
bLoaded = true;
}
} else if (userObject instanceof cbit.vcell.geometry.GeometryInfo) {
//
// Check if node is a GeometryInfo
//
setComponentProperties(component, (GeometryInfo) userObject);
bLoaded = isLoaded((GeometryInfo) userObject);
} else if (userObject instanceof String && node.getChildCount() > 0 && ((BioModelNode) node.getChildAt(0)).getUserObject() instanceof GeometryInfo) {
//
// Check if node is a Geometry name (String), with children (at least one version of Geometry), and
// if the child is a GeometryInfo node
//
String label = (String) userObject;
component.setToolTipText("Geometry");
component.setText(label);
//
for (int i = 0; i < node.getChildCount(); i++) {
GeometryInfo geometryInfo = (GeometryInfo) ((BioModelNode) node.getChildAt(i)).getUserObject();
if (isLoaded(geometryInfo)) {
bLoaded = true;
}
}
} else if (userObject instanceof User && node.getChildCount() > 0 && (((BioModelNode) node.getChildAt(0)).getUserObject() instanceof String) && ((BioModelNode) (node.getChildAt(0).getChildAt(0))).getUserObject() instanceof GeometryInfo) {
//
// Check if node is a User, with at least one child which is a string (Geometry name)
// and if the child's child is a GeometryInfo node
//
String label = ((User) userObject).getName();
component.setToolTipText("User Name");
component.setText(label);
if (isLoaded((User) userObject)) {
bLoaded = true;
}
} else if (userObject instanceof String && node.getChildCount() > 0) {
component.setToolTipText(null);
component.setText((String) userObject);
// }else if (node.getUserObject() instanceof MathInfo) {
// setComponentProperties(component,(MathInfo)node.getUserObject());
} else if (userObject instanceof VCImageInfo) {
setComponentProperties(component, (VCImageInfo) userObject);
} else if (userObject instanceof Extent) {
setComponentProperties(component, (Extent) userObject);
} else if (userObject instanceof Annotation) {
setComponentProperties(component, (Annotation) userObject);
} else if (userObject instanceof MathModel) {
setComponentProperties(component, (MathModel) userObject);
} else if (userObject instanceof BioModel) {
setComponentProperties(component, (BioModel) userObject);
} else if (userObject instanceof SimulationContext) {
setComponentProperties(component, (SimulationContext) userObject);
bLoaded = isLoaded((SimulationContext) userObject);
} else if (userObject instanceof Simulation) {
setComponentProperties(component, (Simulation) userObject);
} else if (userObject instanceof MathDescription) {
setComponentProperties(component, (MathDescription) userObject);
} else if (userObject instanceof Geometry) {
setComponentProperties(component, (Geometry) userObject);
} else if (userObject instanceof User) {
setComponentProperties(component, (User) userObject);
} else {
setComponentProperties(component, userObject);
}
if (selectedFont == null && component.getFont() != null) {
selectedFont = component.getFont().deriveFont(Font.BOLD);
}
if (unselectedFont == null && component.getFont() != null) {
unselectedFont = component.getFont().deriveFont(Font.PLAIN);
}
if (bLoaded) {
component.setFont(selectedFont);
} else {
component.setFont(unselectedFont);
}
}
} catch (Throwable e) {
e.printStackTrace(System.out);
}
//
return component;
}
use of cbit.vcell.geometry.GeometryInfo in project vcell by virtualcell.
the class DeleteOldDocument 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
*/
public void run(Hashtable<String, Object> hashTable) throws java.lang.Exception {
DocumentWindowManager dwm = (DocumentWindowManager) fetch(hashTable, DOCUMENT_WINDOW_MANAGER);
VCDocument currentDocument = dwm.getVCDocument();
DocumentManager documentManager = (DocumentManager) fetch(hashTable, DOCUMENT_MANAGER);
switch(currentDocument.getDocumentType()) {
case BIOMODEL_DOC:
{
// make the info
BioModel oldBioModel = (BioModel) currentDocument;
BioModelInfo oldBioModelInfo = documentManager.getBioModelInfo(oldBioModel.getVersion().getVersionKey());
// delete document
documentManager.delete(oldBioModelInfo);
break;
}
case MATHMODEL_DOC:
{
// make the info
MathModel oldMathModel = (MathModel) currentDocument;
MathModelInfo oldMathModelInfo = documentManager.getMathModelInfo(oldMathModel.getVersion().getVersionKey());
// delete document
documentManager.delete(oldMathModelInfo);
break;
}
case GEOMETRY_DOC:
{
// make the info
Geometry oldGeometry = (Geometry) currentDocument;
GeometryInfo oldGeometryInfo = documentManager.getGeometryInfo(oldGeometry.getVersion().getVersionKey());
// delete document
documentManager.delete(oldGeometryInfo);
break;
}
default:
break;
}
}
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