/**
* Given an experiment, we see for each condition if a new growth medium is associated to the cell
* line, and if new media are found, these are added to the medium binding list.
*
* @param experiment
*/
public void addNewMedia(Experiment experiment) {
for (PlateCondition plateCondition : experiment.getPlateConditionList()) {
CellLine cellLine = plateCondition.getCellLine();
String medium = cellLine.getGrowthMedium();
if (!mediumBindingList.contains(medium)) {
mediumBindingList.add(medium);
}
}
}
/**
* Given an experiment, we see for each condition if a new serum is associated to the cell line,
* and if new sera are found, these are added to the serum binding list.
*
* @param experiment
*/
public void addNewSera(Experiment experiment) {
for (PlateCondition plateCondition : experiment.getPlateConditionList()) {
CellLine cellLine = plateCondition.getCellLine();
String serum = cellLine.getSerum();
if (!serumBindingList.contains(serum)) {
serumBindingList.add(serum);
}
}
}
/** Initialize ConditionsPanel components */
private void initConditionsPanel() {
// set selected matrix dimension to "2D"
setupConditionsPanel.getEcmDimensionComboBox().setSelectedIndex(0);
setupConditionsPanel.getjTabbedPane1().setEnabled(false);
// set current and previous conditions indexes
conditionIndex = 0;
previousConditionIndex = -1;
conditionsPanel.getAddButton().setEnabled(false);
// init conditionJList (create new empty list) (conditions are NOT retrieved from DB)
plateConditionBindingList =
ObservableCollections.observableList(new ArrayList<PlateCondition>());
// autobind cell line
// autobind seeding density
Binding binding =
Bindings.createAutoBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
conditionsPanel.getConditionsJList(),
BeanProperty.create("selectedElement.cellLine.seedingDensity"),
setupConditionsPanel.getSeedingDensityTextField(),
BeanProperty.create("text"),
"seedingdensitybinding");
bindingGroup.addBinding(binding);
// autobind seeding time
binding =
Bindings.createAutoBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
conditionsPanel.getConditionsJList(),
BeanProperty.create("selectedElement.cellLine.seedingTime"),
setupConditionsPanel.getSeedingTimeTextField(),
BeanProperty.create("text"),
"seedingtimebinding");
bindingGroup.addBinding(binding);
// autobind growth medium
binding =
Bindings.createAutoBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
conditionsPanel.getConditionsJList(),
BeanProperty.create("selectedElement.cellLine.growthMedium"),
setupConditionsPanel.getGrowthMediumComboBox(),
BeanProperty.create("selectedItem"),
"growthmediumbinding");
bindingGroup.addBinding(binding);
// autobind serum
binding =
Bindings.createAutoBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
conditionsPanel.getConditionsJList(),
BeanProperty.create("selectedElement.cellLine.serum"),
setupConditionsPanel.getSerumComboBox(),
BeanProperty.create("selectedItem"),
"celllineserumbinding");
bindingGroup.addBinding(binding);
// autobind serum concentration
binding =
Bindings.createAutoBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
conditionsPanel.getConditionsJList(),
BeanProperty.create("selectedElement.cellLine.serumConcentration"),
setupConditionsPanel.getSerumConcentrationTextField(),
BeanProperty.create("text"),
"celllineserumconcentrationbinding");
bindingGroup.addBinding(binding);
// autobind cell line type
binding =
Bindings.createAutoBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
conditionsPanel.getConditionsJList(),
BeanProperty.create("selectedElement.cellLine.cellLineType"),
setupConditionsPanel.getCellLineComboBox(),
BeanProperty.create("selectedItem"),
"celllinetypebinding");
bindingGroup.addBinding(binding);
// autobind assay medium
// autobind medium
binding =
Bindings.createAutoBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
conditionsPanel.getConditionsJList(),
BeanProperty.create("selectedElement.assayMedium.medium"),
treatmentsController.getTreatmentsPanel().getAssayMediumComboBox(),
BeanProperty.create("selectedItem"),
"assaymediumbinding");
bindingGroup.addBinding(binding);
// autobind serum
binding =
Bindings.createAutoBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
conditionsPanel.getConditionsJList(),
BeanProperty.create("selectedElement.assayMedium.serum"),
treatmentsController.getTreatmentsPanel().getSerumComboBox(),
BeanProperty.create("selectedItem"),
"assayserumbinding");
bindingGroup.addBinding(binding);
// autobind serum concentration
binding =
Bindings.createAutoBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
conditionsPanel.getConditionsJList(),
BeanProperty.create("selectedElement.assayMedium.serumConcentration"),
treatmentsController.getTreatmentsPanel().getSerumConcentrationTextField(),
BeanProperty.create("text"),
"assayserumconcentrationbinding");
bindingGroup.addBinding(binding);
// autobind volume
binding =
Bindings.createAutoBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
conditionsPanel.getConditionsJList(),
BeanProperty.create("selectedElement.assayMedium.volume"),
treatmentsController.getTreatmentsPanel().getMediumVolumeTextField(),
BeanProperty.create("text"),
"assayvolumebinding");
bindingGroup.addBinding(binding);
// autobind matrix dimension
binding =
Bindings.createAutoBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
conditionsPanel.getConditionsJList(),
BeanProperty.create("selectedElement.matrixDimension"),
setupConditionsPanel.getEcmDimensionComboBox(),
BeanProperty.create("selectedItem"),
"matrixdimensionbinding");
bindingGroup.addBinding(binding);
bindingGroup.bind();
// init conditionListBinding
JListBinding conditionListBinding =
SwingBindings.createJListBinding(
AutoBinding.UpdateStrategy.READ_WRITE,
plateConditionBindingList,
conditionsPanel.getConditionsJList());
bindingGroup.addBinding(conditionListBinding);
bindingGroup.bind();
// create and init the first condition (Condition 1)
PlateCondition firstCondition = createFirstCondition();
// add Condition 1 to the list
plateConditionBindingList.add(firstCondition);
// set cell renderer for conditionJList
conditionsPanel.getConditionsJList().setCellRenderer(new ConditionsSetupListRenderer());
/** add mouse listeners */
// if Condition validation is OK, update previous condition and user input fields
conditionsPanel
.getConditionsJList()
.getSelectionModel()
.addListSelectionListener(
new ListSelectionListener() {
@Override
public void valueChanged(ListSelectionEvent e) {
if (!e.getValueIsAdjusting()) {
conditionsPanel.getAddButton().setEnabled(true);
int selectedIndex = conditionsPanel.getConditionsJList().getSelectedIndex();
if (selectedIndex != -1) {
// add mouse listener and enable tabbed pane on the right (only once, for
// Condition 1)
if (selectedIndex == 0) {
setupExperimentController.addMouseListener();
setupConditionsPanel.getjTabbedPane1().setEnabled(true);
}
if (previousConditionIndex < plateConditionBindingList.size()
&& previousConditionIndex != -1) {
// check if validation of condition is OK
if (setupExperimentController.validateCondition(
plateConditionBindingList.get(previousConditionIndex))) {
// update fields of previous condition
updateCondition(previousConditionIndex);
// update and reset fields for the assay-ecm panel
assayEcmController.updateAssayEcmInputFields(
plateConditionBindingList.get(selectedIndex));
// assayEcmPanelController.resetAssayEcmInputFields(plateConditionBindingList.get(locationToIndex));
// keep source and destination lists sync: show actual treatment collection
treatmentsController.updateLists(
plateConditionBindingList.get(selectedIndex));
}
}
previousConditionIndex = selectedIndex;
}
}
}
});
// add an empty list of rectangles for Condition 1
setupExperimentController.onNewConditionAdded(firstCondition);
// disable the Remove Button
conditionsPanel.getRemoveButton().setEnabled(false);
/** add action listeners */
// add a new Condition to the List
// each new Condition is init through values selected from the previously created one!
conditionsPanel
.getAddButton()
.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
// create and init a new Condition
PlateCondition newCondition = new PlateCondition();
initNewCondition(newCondition);
// add the new Condition to the list
plateConditionBindingList.add(newCondition);
// add a new empty list of rectangles for the just added Condition
setupExperimentController.onNewConditionAdded(newCondition);
// after a new condition is added enable the remove button
if (!conditionsPanel.getRemoveButton().isEnabled()) {
conditionsPanel.getRemoveButton().setEnabled(true);
}
}
});
// remove a Condition from the list
conditionsPanel
.getRemoveButton()
.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
if (conditionsPanel.getConditionsJList().getSelectedValue() != null) {
// empty the list of rectangles for this Condition and reset to null the Condition
// of the associated wells
setupExperimentController.onConditionToRemove(
(PlateCondition) (conditionsPanel.getConditionsJList().getSelectedValue()));
// remove the Condition from the list
int selectedIndex = conditionsPanel.getConditionsJList().getSelectedIndex();
PlateCondition conditionToRemove = plateConditionBindingList.get(selectedIndex);
// if the condition to remove is the last one, decrease previous condition index
if (plateConditionBindingList.indexOf(conditionToRemove)
== plateConditionBindingList.size() - 1) {
previousConditionIndex = plateConditionBindingList.size() - 2;
}
// remove condition from the list
plateConditionBindingList.remove(conditionToRemove);
// select first condition after removing
conditionsPanel.getConditionsJList().setSelectedIndex(0);
// if there's only one condition left, disable again the remove button
if (plateConditionBindingList.size() == 1) {
conditionsPanel.getRemoveButton().setEnabled(false);
}
}
}
});
}