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

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Example 11 with ExternalDataIdentifier

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

the class FieldDataGUIPanel method getJButtonCreateGeom.

/**
 * This method initializes jButtonCopyInfo
 *
 * @return javax.swing.JButton
 */
private JButton getJButtonCreateGeom() {
    if (jButtonCreateGeom == null) {
        jButtonCreateGeom = new JButton();
        jButtonCreateGeom.setEnabled(false);
        jButtonCreateGeom.setText("Create Geom");
        jButtonCreateGeom.addActionListener(new java.awt.event.ActionListener() {

            public void actionPerformed(java.awt.event.ActionEvent e) {
                try {
                    RequestManager clientRequestManager = fieldDataWindowManager.getLocalRequestManager();
                    javax.swing.tree.TreePath selPath = getJTree1().getSelectionPath();
                    javax.swing.tree.DefaultMutableTreeNode lastPathComponent = (javax.swing.tree.DefaultMutableTreeNode) selPath.getLastPathComponent();
                    if (lastPathComponent.getUserObject() instanceof FieldDataVarList) {
                        DataIdentifier dataIdentifier = ((FieldDataVarList) lastPathComponent.getUserObject()).dataIdentifier;
                        TreePath ppPath = selPath.getParentPath().getParentPath();
                        javax.swing.tree.DefaultMutableTreeNode ppLastPathComp = (javax.swing.tree.DefaultMutableTreeNode) ppPath.getLastPathComponent();
                        if (ppLastPathComp.getUserObject() instanceof FieldDataMainList) {
                            ExternalDataIdentifier extDataID = ((FieldDataMainList) ppLastPathComp.getUserObject()).externalDataIdentifier;
                            final OpenModelInfoHolder openModelInfoHolder = FieldDataWindowManager.selectOpenModelsFromDesktop(FieldDataGUIPanel.this, fieldDataWindowManager.getRequestManager(), false, "Select BioModel or MathModel to receive new geometry", false);
                            if (openModelInfoHolder == null) {
                                DialogUtils.showErrorDialog(FieldDataGUIPanel.this, "Before proceeding, please open a Biomodel application or Mathmodel you wish to apply a new Field Data Geometry to");
                                return;
                            }
                            AsynchClientTask applyGeomTask = new AsynchClientTask("apply geometry", AsynchClientTask.TASKTYPE_SWING_BLOCKING) {

                                @Override
                                public void run(Hashtable<String, Object> hashTable) throws Exception {
                                    Geometry newGeom = (Geometry) hashTable.get("doc");
                                    final String OK_OPTION = "Ok";
                                    if (openModelInfoHolder instanceof FDSimMathModelInfo) {
                                        Version version = ((FDSimMathModelInfo) openModelInfoHolder).getMathModelVersion();
                                        String modelName = (version == null ? "NoName" : version.getName());
                                        if (newGeom.getName() == null) {
                                            newGeom.setName(modelName + "_" + BeanUtils.generateDateTimeString());
                                        }
                                        String message = "Confirm Setting new FieldData derived geometry on MathModel '" + modelName + "'";
                                        if (DialogUtils.showWarningDialog(FieldDataGUIPanel.this, message, new String[] { OK_OPTION, "Cancel" }, OK_OPTION).equals(OK_OPTION)) {
                                            ((FDSimMathModelInfo) openModelInfoHolder).getMathDescription().setGeometry(newGeom);
                                        }
                                    } else if (openModelInfoHolder instanceof FDSimBioModelInfo) {
                                        Version version = ((FDSimBioModelInfo) openModelInfoHolder).getBioModelVersion();
                                        String modelName = (version == null ? "NoName" : version.getName());
                                        String simContextName = ((FDSimBioModelInfo) openModelInfoHolder).getSimulationContext().getName();
                                        if (newGeom.getName() == null) {
                                            newGeom.setName(modelName + "_" + simContextName + "_" + BeanUtils.generateDateTimeString());
                                        }
                                        String message = "Confirm Setting new FieldData derived geometry on BioModel '" + modelName + "' , Application '" + simContextName + "'";
                                        if (DialogUtils.showWarningDialog(FieldDataGUIPanel.this, message, new String[] { OK_OPTION, "Cancel" }, OK_OPTION).equals(OK_OPTION)) {
                                            ((FDSimBioModelInfo) openModelInfoHolder).getSimulationContext().setGeometry(newGeom);
                                        }
                                    }
                                }
                            };
                            VCDocument.GeomFromFieldDataCreationInfo geomFromFieldDataCreationInfo = new VCDocument.GeomFromFieldDataCreationInfo(extDataID, dataIdentifier.getName());
                            AsynchClientTask[] createGeomTask = clientRequestManager.createNewGeometryTasks(fieldDataWindowManager, geomFromFieldDataCreationInfo, new AsynchClientTask[] { applyGeomTask }, "Apply Geometry");
                            Hashtable<String, Object> hash = new Hashtable<String, Object>();
                            hash.put(ClientRequestManager.GUI_PARENT, fieldDataWindowManager.getComponent());
                            ClientTaskDispatcher.dispatch(FieldDataGUIPanel.this, hash, createGeomTask, false, false, null, true);
                        }
                    }
                } catch (UserCancelException e1) {
                // ignore
                } catch (Exception e1) {
                    e1.printStackTrace();
                    DialogUtils.showErrorDialog(FieldDataGUIPanel.this, e1.getMessage());
                }
            // jButtonFDCopyRef_ActionPerformed(e);
            // fieldDataWindowManager.newDocument(VCDocument.GEOMETRY_DOC, option);
            // copyMethod(COPY_CRNL);
            // //				javax.swing.tree.TreePath selPath = getJTree1().getSelectionPath();
            // //				if(selPath != null){
            // //					javax.swing.tree.DefaultMutableTreeNode lastPathComponent = (javax.swing.tree.DefaultMutableTreeNode)selPath.getLastPathComponent();
            // //					copyMethod(lastPathComponent, copyMode);
            // //				}
            // //					String copyString = "";
            // //					javax.swing.tree.DefaultMutableTreeNode lastPathComponent = (javax.swing.tree.DefaultMutableTreeNode)selPath.getLastPathComponent();
            // //					if(lastPathComponent.equals(getJTree1().getModel().getRoot())){
            // //						int childCount = lastPathComponent.getChildCount();
            // //						for(int i=0;i<childCount;i+= 1){
            // //							if(i != 0){
            // //								copyString+="\n";
            // //							}
            // //							copyString+=
            // //								((FieldDataMainList)((DefaultMutableTreeNode)lastPathComponent.getChildAt(i)).getUserObject()).externalDataIdentifier.getName();
            // //						}
            // //					}else if(lastPathComponent.getUserObject() instanceof FieldDataOriginList){
            // //						Origin origin = ((FieldDataOriginList)lastPathComponent.getUserObject()).origin;
            // //						copyString = origin.getX()+","+origin.getY()+","+origin.getZ();
            // //					}else if(lastPathComponent.getUserObject() instanceof FieldDataExtentList){
            // //						Extent extent = ((FieldDataExtentList)lastPathComponent.getUserObject()).extent;
            // //						copyString = extent.getX()+","+extent.getY()+","+extent.getZ();
            // //					}else if(lastPathComponent.getUserObject() instanceof FieldDataISizeList){
            // //						ISize isize = ((FieldDataISizeList)lastPathComponent.getUserObject()).isize;
            // //						copyString = isize.getX()+","+isize.getY()+","+isize.getZ();
            // //					}else if(lastPathComponent.getUserObject() instanceof FieldDataTimeList){
            // //						double[] times = ((FieldDataTimeList)lastPathComponent.getUserObject()).times;
            // //						for(int i=0;i<times.length;i+= 1){
            // //							if(i != 0){
            // //								copyString+="\n";
            // //							}
            // //							copyString+= times[i]+"";
            // //						}
            // //					}else if(lastPathComponent.getUserObject() instanceof FieldDataMainList){
            // //						ExternalDataIdentifier extDataID =
            // //							((FieldDataMainList)lastPathComponent.getUserObject()).externalDataIdentifier;
            // //						copyString = extDataID.getName();
            // //					}else if(lastPathComponent.getUserObject() instanceof FieldDataVarList){
            // //						DataIdentifier dataIdentifier =
            // //							((FieldDataVarList)lastPathComponent.getUserObject()).dataIdentifier;
            // //						copyString = dataIdentifier.getName();
            // //					}else if(lastPathComponent.getUserObject() instanceof FieldDataVarMainList){
            // //						int childCount = lastPathComponent.getChildCount();
            // //						for(int i=0;i<childCount;i+= 1){
            // //							if(i != 0){
            // //								copyString+="\n";
            // //							}
            // //							copyString+=
            // //								((FieldDataVarList)((DefaultMutableTreeNode)lastPathComponent.getChildAt(i)).getUserObject()).dataIdentifier.getName();
            // //						}
            // //					}
            // //					if(copyString.length() > 0 ){
            // //						VCellTransferable.sendToClipboard(copyString);
            // //					}
            // //				}
            }
        });
    }
    return jButtonCreateGeom;
}
Also used : AsynchClientTask(cbit.vcell.client.task.AsynchClientTask) ActionListener(java.awt.event.ActionListener) DataIdentifier(cbit.vcell.simdata.DataIdentifier) ExternalDataIdentifier(org.vcell.util.document.ExternalDataIdentifier) DefaultMutableTreeNode(javax.swing.tree.DefaultMutableTreeNode) JButton(javax.swing.JButton) UserCancelException(org.vcell.util.UserCancelException) RequestManager(cbit.vcell.client.RequestManager) ClientRequestManager(cbit.vcell.client.ClientRequestManager) Version(org.vcell.util.document.Version) ExternalDataIdentifier(org.vcell.util.document.ExternalDataIdentifier) VCDocument(org.vcell.util.document.VCDocument) Hashtable(java.util.Hashtable) FDSimMathModelInfo(cbit.vcell.client.TopLevelWindowManager.FDSimMathModelInfo) OpenModelInfoHolder(cbit.vcell.client.TopLevelWindowManager.OpenModelInfoHolder) ActionEvent(java.awt.event.ActionEvent) DataFormatException(java.util.zip.DataFormatException) UserCancelException(org.vcell.util.UserCancelException) Geometry(cbit.vcell.geometry.Geometry) TreePath(javax.swing.tree.TreePath) FDSimBioModelInfo(cbit.vcell.client.TopLevelWindowManager.FDSimBioModelInfo)

Example 12 with ExternalDataIdentifier

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

the class FieldDataGUIPanel method getJButtonFindRefModel.

/**
 * This method initializes jButtonFindRefModel
 *
 * @return javax.swing.JButton
 */
private JButton getJButtonFindRefModel() {
    if (jButtonFindRefModel == null) {
        jButtonFindRefModel = new JButton();
        jButtonFindRefModel.setText("Model Refs...");
        jButtonFindRefModel.setEnabled(false);
        jButtonFindRefModel.addActionListener(new java.awt.event.ActionListener() {

            public void actionPerformed(java.awt.event.ActionEvent e) {
                TreePath selPath = getJTree1().getSelectionPath();
                DefaultMutableTreeNode mainNode = (DefaultMutableTreeNode) selPath.getLastPathComponent();
                if (mainNode.getUserObject() instanceof FieldDataMainList) {
                    final ExternalDataIdentifier extDataID = ((FieldDataMainList) mainNode.getUserObject()).externalDataIdentifier;
                    AsynchClientTask task1 = new AsynchClientTask("find model references", AsynchClientTask.TASKTYPE_NONSWING_BLOCKING) {

                        @Override
                        public void run(Hashtable<String, Object> hashTable) throws Exception {
                            fieldDataWindowManager.findReferencingModels(extDataID, true);
                        }
                    };
                    ClientTaskDispatcher.dispatch(FieldDataGUIPanel.this, new Hashtable<String, Object>(), new AsynchClientTask[] { task1 }, false);
                }
            }
        });
    }
    return jButtonFindRefModel;
}
Also used : AsynchClientTask(cbit.vcell.client.task.AsynchClientTask) ActionListener(java.awt.event.ActionListener) DefaultMutableTreeNode(javax.swing.tree.DefaultMutableTreeNode) Hashtable(java.util.Hashtable) JButton(javax.swing.JButton) ActionEvent(java.awt.event.ActionEvent) DataFormatException(java.util.zip.DataFormatException) UserCancelException(org.vcell.util.UserCancelException) TreePath(javax.swing.tree.TreePath) ExternalDataIdentifier(org.vcell.util.document.ExternalDataIdentifier)

Example 13 with ExternalDataIdentifier

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

the class FieldDataGUIPanel method jButtonFDView_ActionPerformed.

private void jButtonFDView_ActionPerformed(java.awt.event.ActionEvent actionEvent) {
    if (fieldDataWindowManager == null) {
        System.out.println("No FieldDataViewManager available for View action");
        return;
    }
    javax.swing.tree.TreePath selPath = getJTree1().getSelectionPath();
    if (selPath != null) {
        javax.swing.tree.DefaultMutableTreeNode lastPathComponent = (javax.swing.tree.DefaultMutableTreeNode) selPath.getLastPathComponent();
        if (lastPathComponent.getUserObject() instanceof FieldDataMainList) {
            ExternalDataIdentifier edi = ((FieldDataMainList) lastPathComponent.getUserObject()).externalDataIdentifier;
            fieldDataWindowManager.viewData(edi);
        }
    }
}
Also used : DefaultMutableTreeNode(javax.swing.tree.DefaultMutableTreeNode) TreePath(javax.swing.tree.TreePath) ExternalDataIdentifier(org.vcell.util.document.ExternalDataIdentifier) DefaultMutableTreeNode(javax.swing.tree.DefaultMutableTreeNode)

Example 14 with ExternalDataIdentifier

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

the class RunRefSimulationFastOp method createNewExternalDataInfo.

private ExternalDataInfo createNewExternalDataInfo(LocalContext localWorkspace, String extDataIDName) {
    File targetDir = new File(localWorkspace.getDefaultSimDataDirectory());
    KeyValue key = LocalWorkspace.createNewKeyValue();
    User owner = LocalWorkspace.getDefaultOwner();
    ExternalDataIdentifier newImageDataExtDataID = new ExternalDataIdentifier(key, owner, extDataIDName);
    String filename = new File(targetDir, newImageDataExtDataID.getID() + SimDataConstants.LOGFILE_EXTENSION).getAbsolutePath();
    ExternalDataInfo newImageDataExtDataInfo = new ExternalDataInfo(newImageDataExtDataID, filename);
    return newImageDataExtDataInfo;
}
Also used : KeyValue(org.vcell.util.document.KeyValue) User(org.vcell.util.document.User) ExternalDataInfo(org.vcell.vmicro.workflow.data.ExternalDataInfo) ExternalDataIdentifier(org.vcell.util.document.ExternalDataIdentifier) File(java.io.File)

Example 15 with ExternalDataIdentifier

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

the class RunRefSimulationOp method createNewExternalDataInfo.

private static ExternalDataInfo createNewExternalDataInfo(LocalWorkspace localWorkspace, String extDataIDName) {
    File targetDir = new File(localWorkspace.getDefaultSimDataDirectory());
    KeyValue key = LocalWorkspace.createNewKeyValue();
    User owner = LocalWorkspace.getDefaultOwner();
    ExternalDataIdentifier newImageDataExtDataID = new ExternalDataIdentifier(key, owner, extDataIDName);
    String filename = new File(targetDir, newImageDataExtDataID.getID() + SimDataConstants.LOGFILE_EXTENSION).getAbsolutePath();
    ExternalDataInfo newImageDataExtDataInfo = new ExternalDataInfo(newImageDataExtDataID, filename);
    return newImageDataExtDataInfo;
}
Also used : KeyValue(org.vcell.util.document.KeyValue) User(org.vcell.util.document.User) ExternalDataInfo(org.vcell.vmicro.workflow.data.ExternalDataInfo) ExternalDataIdentifier(org.vcell.util.document.ExternalDataIdentifier) File(java.io.File)

Aggregations

ExternalDataIdentifier (org.vcell.util.document.ExternalDataIdentifier)46 DataAccessException (org.vcell.util.DataAccessException)15 KeyValue (org.vcell.util.document.KeyValue)15 FieldFunctionArguments (cbit.vcell.field.FieldFunctionArguments)12 File (java.io.File)12 UserCancelException (org.vcell.util.UserCancelException)12 User (org.vcell.util.document.User)12 FieldDataIdentifierSpec (cbit.vcell.field.FieldDataIdentifierSpec)9 Hashtable (java.util.Hashtable)9 ISize (org.vcell.util.ISize)9 AsynchClientTask (cbit.vcell.client.task.AsynchClientTask)8 Expression (cbit.vcell.parser.Expression)8 Origin (org.vcell.util.Origin)8 FieldDataFileOperationSpec (cbit.vcell.field.io.FieldDataFileOperationSpec)7 Element (org.jdom.Element)7 Extent (org.vcell.util.Extent)7 ObjectNotFoundException (org.vcell.util.ObjectNotFoundException)7 ImageException (cbit.image.ImageException)6 FieldDataDBOperationResults (cbit.vcell.field.FieldDataDBOperationResults)6 RegionImage (cbit.vcell.geometry.RegionImage)6
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