/** Gets called when this tab gets focus. Uses the ActionListeners of the UI components */
@Override
public void gotSelected() {
posUpdater_.pauseUpdates(true);
joystickPanel_.gotSelected();
cameraPanel_.gotSelected();
beamPanel_.gotSelected();
props_.callListeners();
// moves illumination piezo to home
if (illumPiezoHomeEnable_.isSelected()
&& devices_.isValidMMDevice(piezoIlluminationDeviceKey_)) {
props_.setPropValue(
piezoIlluminationDeviceKey_, Properties.Keys.MOVE_TO_HOME, Properties.Values.DO_IT);
}
// set scan waveform to be triangle
// SPIM use can change, but for alignment avoid sharp edges
props_.setPropValue(
micromirrorDeviceKey_, Properties.Keys.SA_PATTERN_X, Properties.Values.SAM_TRIANGLE, true);
// move piezo and scanner to "center" position
centerPiezoAndGalvo();
posUpdater_.pauseUpdates(false);
}
private void checkPropertyValueEquals(
Devices.Keys devKey, Properties.Keys propKey, Properties.Values expectedValue) {
if (!(props_.getPropValueString(devKey, propKey).equals(expectedValue.toString()))) {
if (MyDialogUtils.getConfirmDialogResult(
"This plugin may not work if property \""
+ propKey.toString()
+ "\" of device \""
+ devices_.getMMDevice(devKey)
+ "\" is not set to \""
+ expectedValue.toString()
+ "\". Set it now?",
JOptionPane.YES_NO_OPTION)) {
props_.setPropValue(devKey, propKey, expectedValue);
}
}
}
/**
* checks firmware versions and gives any necessary warnings to user
*
* @param key
*/
private void checkFirmwareVersion(Devices.Keys key) {
// firmware version check only for ASI devices
if (!devices_.isTigerDevice(key)) {
return;
}
float firmwareVersion = props_.getPropValueFloat(key, Properties.Keys.FIRMWARE_VERSION);
switch (key) {
case PIEZOA:
case PIEZOB:
if (firmwareVersion == 0f) {
// firmware version property wasn't found, maybe device hasn't been selected
} else if (firmwareVersion < (float) 2.829) {
MyDialogUtils.showError(
"Device "
+ devices_.getMMDevice(key)
+ ": Piezo firmware is old; piezo may not move correctly in sync with sheet."
+ " Contact ASI for updated firmware.");
}
break;
case GALVOA:
case GALVOB:
if (firmwareVersion == 0f) {
// firmware version property wasn't found, maybe device hasn't been selected
} else if (firmwareVersion < (float) 2.809) {
MyDialogUtils.showError(
"Device "
+ devices_.getMMDevice(key)
+ ": Micromirror firmware is old; wheel control of some scanner axes may not work."
+ " Contact ASI for updated firmware.");
} else if (firmwareVersion < (float) 2.829) {
MyDialogUtils.showError(
"Device "
+ devices_.getMMDevice(key)
+ ": Micromirror firmware is old; imaging piezo not set correctly the first stack."
+ " Contact ASI for updated firmware.");
} else if (firmwareVersion < (float) 2.859) {
MyDialogUtils.showError(
"Device "
+ devices_.getMMDevice(key)
+ ": Micromirror firmware is old; not all timing parameters are supported."
+ " Contact ASI for updated firmware.");
}
break;
case PLOGIC:
if (firmwareVersion < 3.069) {
MyDialogUtils.showError(
"Device "
+ devices_.getMMDevice(key)
+ ": PLogic firmware is old; some features may not work."
+ " Contact ASI for updated firmware.");
}
break;
default:
break;
}
}
/**
* Creates the ASIdiSPIM plugin frame
*
* @param gui - Micro-Manager script interface
* @throws ASIdiSPIMException
*/
public ASIdiSPIMFrame(ScriptInterface gui) throws ASIdiSPIMException {
// create interface objects used by panels
gui_ = gui;
prefs_ = new Prefs(Preferences.userNodeForPackage(this.getClass()));
devices_ = new Devices(gui_, prefs_);
props_ = new Properties(gui_, devices_, prefs_);
positions_ = new Positions(gui_, devices_);
joystick_ = new Joystick(devices_, props_);
cameras_ = new Cameras(gui_, devices_, props_, prefs_);
controller_ = new ControllerUtils(gui_, props_, prefs_, devices_, positions_);
// make sure Live mode is turned off (panels assume it can manipulate
// cameras which requires live mode to be turned off)
boolean liveModeOriginally = gui_.isLiveModeOn();
String cameraOriginal = gui_.getMMCore().getCameraDevice();
if (liveModeOriginally) {
gui_.enableLiveMode(false);
}
// create the panels themselves
// in some cases dependencies create required ordering
devicesPanel_ = new DevicesPanel(gui_, devices_, props_);
stagePosUpdater_ =
new StagePositionUpdater(positions_, props_); // needed for setup and navigation
autofocus_ =
new AutofocusUtils(
gui_, devices_, props_, prefs_, cameras_, stagePosUpdater_, positions_, controller_);
acquisitionPanel_ =
new AcquisitionPanel(
gui_,
devices_,
props_,
cameras_,
prefs_,
stagePosUpdater_,
positions_,
controller_,
autofocus_);
setupPanelA_ =
new SetupPanel(
gui_,
devices_,
props_,
joystick_,
Devices.Sides.A,
positions_,
cameras_,
prefs_,
stagePosUpdater_,
autofocus_);
if (!ASIdiSPIM.oSPIM) {
setupPanelB_ =
new SetupPanel(
gui_,
devices_,
props_,
joystick_,
Devices.Sides.B,
positions_,
cameras_,
prefs_,
stagePosUpdater_,
autofocus_);
} else {
setupPanelB_ = null;
}
navigationPanel_ =
new NavigationPanel(
gui_, devices_, props_, joystick_, positions_, prefs_, cameras_, stagePosUpdater_);
dataAnalysisPanel_ = new DataAnalysisPanel(gui_, prefs_);
autofocusPanel_ = new AutofocusPanel(gui_, devices_, props_, prefs_, autofocus_);
settingsPanel_ = new SettingsPanel(gui_, devices_, props_, prefs_, stagePosUpdater_);
stagePosUpdater_.oneTimeUpdate(); // needed for NavigationPanel
helpPanel_ = new HelpPanel();
statusSubPanel_ = new StatusSubPanel(devices_, props_, positions_, stagePosUpdater_);
// now add tabs to GUI
// all added tabs must be of type ListeningJPanel
// only use addLTab, not addTab to guarantee this
tabbedPane_ = new ListeningJTabbedPane();
if (isMac()) {
tabbedPane_.setTabPlacement(JTabbedPane.TOP);
} else {
tabbedPane_.setTabPlacement(JTabbedPane.LEFT);
}
tabbedPane_.addLTab(navigationPanel_); // tabIndex = 0
tabbedPane_.addLTab(setupPanelA_); // tabIndex = 1
if (!ASIdiSPIM.oSPIM) {
tabbedPane_.addLTab(setupPanelB_); // tabIndex = 2
}
tabbedPane_.addLTab(acquisitionPanel_); // tabIndex = 3
tabbedPane_.addLTab(dataAnalysisPanel_); // tabIndex = 4
tabbedPane_.addLTab(devicesPanel_); // tabIndex = 5
final int deviceTabIndex = tabbedPane_.getTabCount() - 1;
tabbedPane_.addLTab(autofocusPanel_); // tabIndex = 6
tabbedPane_.addLTab(settingsPanel_); // tabIndex = 7
tabbedPane_.addLTab(helpPanel_); // tabIndex = 8
final int helpTabIndex = tabbedPane_.getTabCount() - 1;
// make taller tabs for easier navigation between them
// we create own labels instead of having JTabbedPane do it from titles
final Border paddingBorder = BorderFactory.createEmptyBorder(4, 0, 4, 0);
for (int i = 0; i < tabbedPane_.getTabCount(); i++) {
JLabel lab = new JLabel(((ListeningJPanel) tabbedPane_.getComponentAt(i)).getPanelName());
lab.setBorder(paddingBorder);
tabbedPane_.setTabComponentAt(i, lab);
}
// add the testing panel explicitly by uncommenting following lines
// intended to only be done in short term for testing
// TestingPanel testingPanel = new TestingPanel();
// tabbedPane_.addLTab(testingPanel);
// attach position updaters
stagePosUpdater_.addPanel(setupPanelA_);
if (!ASIdiSPIM.oSPIM) {
stagePosUpdater_.addPanel(setupPanelB_);
}
stagePosUpdater_.addPanel(navigationPanel_);
stagePosUpdater_.addPanel(statusSubPanel_);
piezoSleepPreventer_ = new PiezoSleepPreventer(gui_, devices_, props_);
// attach live mode listeners
MMStudio.getInstance()
.getSnapLiveManager()
.addLiveModeListener((LiveModeListener) setupPanelA_);
if (!ASIdiSPIM.oSPIM) {
MMStudio.getInstance()
.getSnapLiveManager()
.addLiveModeListener((LiveModeListener) setupPanelB_);
}
MMStudio.getInstance()
.getSnapLiveManager()
.addLiveModeListener((LiveModeListener) navigationPanel_);
MMStudio.getInstance()
.getSnapLiveManager()
.addLiveModeListener(
new LiveModeListener() {
// make sure to "wake up" any piezos with autosleep enabled before we start imaging
@Override
public void liveModeEnabled(boolean enabled) {
if (enabled) {
piezoSleepPreventer_.start();
} else {
piezoSleepPreventer_.stop();
}
}
});
// set scan for live mode to be triangle (now live mode setting not affected by SPIM setting)
props_.setPropValue(
new Devices.Keys[] {Devices.Keys.GALVOA, Devices.Keys.GALVOB},
Properties.Keys.SA_PATTERN_X,
Properties.Values.SAM_TRIANGLE,
true);
// make sure gotDeSelected() and gotSelected() get called whenever we switch tabs
tabbedPane_.addChangeListener(
new ChangeListener() {
int lastSelectedIndex_ = tabbedPane_.getSelectedIndex();
@Override
public void stateChanged(ChangeEvent e) {
((ListeningJPanel) tabbedPane_.getComponentAt(lastSelectedIndex_)).gotDeSelected();
((ListeningJPanel) tabbedPane_.getSelectedComponent()).gotSelected();
lastSelectedIndex_ = tabbedPane_.getSelectedIndex();
}
});
// put frame back where it was last time
this.loadAndRestorePosition(100, 100);
// clear any previous joystick settings
joystick_.unsetAllJoysticks();
// gotSelected will be called because we put this after adding the ChangeListener
tabbedPane_.setSelectedIndex(
helpTabIndex); // setSelectedIndex(0) just after initialization doesn't fire ChangeListener,
// so switch to help panel first
tabbedPane_.setSelectedIndex(
prefs_.getInt(
MAIN_PREF_NODE,
Prefs.Keys.TAB_INDEX,
deviceTabIndex)); // default to devicesPanel_ on first run
// set up the window
add(tabbedPane_); // add the pane to the GUI window
setTitle(ASIdiSPIM.menuName + " Control");
pack(); // shrinks the window as much as it can
setResizable(false);
// take care of shutdown tasks when window is closed
setDefaultCloseOperation(JFrame.DISPOSE_ON_CLOSE);
// add status panel as an overlay that is visible from all tabs
Container glassPane = (Container) getGlassPane();
glassPane.setVisible(true);
glassPane.setLayout(
new MigLayout("", "[" + this.getWidth() + "]", "[" + this.getHeight() + "]"));
glassPane.add(statusSubPanel_, "dock south");
// restore live mode and camera
if (liveModeOriginally) {
gui_.enableLiveMode(true);
}
try {
gui_.getMMCore().setCameraDevice(cameraOriginal);
} catch (Exception ex) {
// do nothing
}
}
/**
* checks that the device has correct library, properties that we need, and correct values set as
* needed
*
* @param key
*/
private void checkDeviceLibrary(Devices.Keys key) {
Devices.Libraries deviceLibrary = devices_.getMMDeviceLibrary(key);
if (deviceLibrary == Devices.Libraries.NODEVICE) {
return;
}
switch (key) {
case CAMERAA:
case CAMERAB:
switch (deviceLibrary) {
case HAMCAM:
checkPropertyExists(key, Properties.Keys.TRIGGER_SOURCE);
checkPropertyValueEquals(
key, Properties.Keys.TRIGGER_POLARITY, Properties.Values.POSITIVE);
break;
case PCOCAM:
// trigger polarity not accessible in Micro-Manager, so we have to trust it is correct
checkPropertyExists(key, Properties.Keys.TRIGGER_MODE_PCO);
break;
case ANDORCAM:
// TODO check trigger polarity
checkPropertyExists(key, Properties.Keys.TRIGGER_MODE);
break;
case DEMOCAM:
checkPropertyValueEquals(key, Properties.Keys.PIXEL_TYPE, Properties.Values.SIXTEENBIT);
break;
default:
MyDialogUtils.showError(
"Plugin doesn't support your camera for SPIM yet;"
+ " contact the authors for support (camera must have hardware trigger)");
} // CamA/B case
break;
case GALVOA:
case GALVOB:
if (deviceLibrary == Devices.Libraries.ASITIGER) {
checkPropertyValueEquals(
key, Properties.Keys.INPUT_MODE, Properties.Values.INTERNAL_INPUT);
// PLogic use in the plugin assumes "laser + side" output mode
if (devices_.isValidMMDevice(Devices.Keys.PLOGIC)) {
checkPropertyValueEquals(
key, Properties.Keys.LASER_OUTPUT_MODE, Properties.Values.LASER_SHUTTER_SIDE);
}
} else {
MyDialogUtils.showError("Plugin doesn't support galvo devices other than ASITiger");
}
break;
case PIEZOA:
case PIEZOB:
if (deviceLibrary == Devices.Libraries.ASITIGER) {
checkPropertyValueEquals(
key, Properties.Keys.PIEZO_MODE, Properties.Values.INTERNAL_CLOSEDLOOP_INPUT);
} else {
MyDialogUtils.showError("Plugin doesn't support piezo devices other than ASITiger");
}
break;
case PLOGIC:
if (deviceLibrary == Devices.Libraries.ASITIGER) {
// would like to do below line but we need to change pre-init value and reload config
// checkPropertyValueEquals(key, Properties.Keys.PLOGIC_MODE,
// Properties.Values.DISPIM_SHUTTER);
if (!props_
.getPropValueString(key, Properties.Keys.PLOGIC_MODE)
.equals(Properties.Values.DISPIM_SHUTTER.toString())) {
MyDialogUtils.showError(
"Device "
+ devices_.getMMDevice(key)
+ ": need to set pre-initialization property PLogicMode to "
+ "diSPIM Shutter (use Hardware Config Wizard, then edit device "
+ devices_.getMMDevice(key)
+ " on Step 2). Then reload the "
+ " changed configuration and restart the diSPIM plugin.");
}
checkPropertyValueEquals(
key, Properties.Keys.PLOGIC_TRIGGER_SOURCE, Properties.Values.PLOGIC_TRIGGER_MMIRROR);
// PLogic use in the plugin assumes "laser + side" output mode
for (Devices.Keys galvoKey : Devices.GALVOS) {
if (devices_.isValidMMDevice(galvoKey)) {
checkPropertyValueEquals(
galvoKey,
Properties.Keys.LASER_OUTPUT_MODE,
Properties.Values.LASER_SHUTTER_SIDE);
}
}
} else {
MyDialogUtils.showError("Plugin doesn't support shutter devices other than ASITiger");
}
break;
default:
break;
}
}
public SetupPanel(
ScriptInterface gui,
Devices devices,
Properties props,
Joystick joystick,
final Devices.Sides side,
Positions positions,
Cameras cameras,
Prefs prefs,
StagePositionUpdater posUpdater,
AutofocusUtils autofocus) {
super(
MyStrings.PanelNames.SETUP.toString() + side.toString(),
new MigLayout("", "[center]8[center]", "[]16[]16[]"));
devices_ = devices;
props_ = props;
joystick_ = joystick;
positions_ = positions;
cameras_ = cameras;
autofocus_ = autofocus;
prefs_ = prefs;
posUpdater_ = posUpdater;
gui_ = gui;
core_ = gui_.getMMCore();
PanelUtils pu = new PanelUtils(prefs_, props_, devices);
final SetupPanel setupPanel = this;
piezoImagingDeviceKey_ = Devices.getSideSpecificKey(Devices.Keys.PIEZOA, side);
piezoIlluminationDeviceKey_ =
Devices.getSideSpecificKey(Devices.Keys.PIEZOA, Devices.getOppositeSide(side));
micromirrorDeviceKey_ = Devices.getSideSpecificKey(Devices.Keys.GALVOA, side);
sheetStartPositionLabel_ =
new StoredFloatLabel(
panelName_,
Properties.Keys.PLUGIN_SHEET_START_POS.toString(),
-0.5f,
prefs_,
" \u00B0");
sliceStartPos_ = sheetStartPositionLabel_.getFloat();
sheetStopPositionLabel_ =
new StoredFloatLabel(
panelName_, Properties.Keys.PLUGIN_SHEET_END_POS.toString(), 0.5f, prefs_, " \u00B0");
sliceStopPos_ = sheetStopPositionLabel_.getFloat();
imagingPiezoStartPositionLabel_ =
new StoredFloatLabel(
panelName_,
Properties.Keys.PLUGIN_PIEZO_START_POS.toString(),
-50f,
prefs_,
" \u00B5" + "m");
imagingPiezoStartPos_ = imagingPiezoStartPositionLabel_.getFloat();
imagingPiezoStopPositionLabel_ =
new StoredFloatLabel(
panelName_,
Properties.Keys.PLUGIN_PIEZO_END_POS.toString(),
50f,
prefs_,
" \u00B5" + "m");
imagingPiezoStopPos_ = imagingPiezoStopPositionLabel_.getFloat();
JButton tmp_but;
JPanel calibrationPanel =
new JPanel(
new MigLayout(
"", "[right]2[center]2[right]4[left]8[center]8[center]8[center]", "[]8[]"));
offsetField_ =
pu.makeFloatEntryField(
panelName_, Properties.Keys.PLUGIN_OFFSET_PIEZO_SHEET.toString(), 0, 5);
rateField_ =
pu.makeFloatEntryField(
panelName_, Properties.Keys.PLUGIN_RATE_PIEZO_SHEET.toString(), 100, 5);
piezoDeltaField_ =
pu.makeFloatEntryField(
panelName_, Properties.Keys.PLUGIN_PIEZO_SHEET_INCREMENT.toString(), 5, 3);
piezoDeltaField_.setToolTipText("Piezo increment used by up/down arrow buttons");
JButton upButton = new JButton();
upButton.setIcon(SwingResourceManager.getIcon(MMStudio.class, "icons/arrow_up.png"));
upButton.setText("");
upButton.setToolTipText("Move slice and piezo up together");
upButton.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
stepPiezoAndGalvo(1.);
}
});
JButton downButton = new JButton();
downButton.setIcon(SwingResourceManager.getIcon(MMStudio.class, "icons/arrow_down.png"));
downButton.setText("");
downButton.setToolTipText("Move slice and piezo down together");
downButton.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
stepPiezoAndGalvo(-1.);
}
});
calibrationPanel.add(new JLabel("Piezo/Slice Calibration"), "span 5, center");
calibrationPanel.add(
new JSeparator(SwingConstants.VERTICAL), "span 1 3, growy, shrinkx, center");
calibrationPanel.add(new JLabel("Step"), "wrap");
calibrationPanel.add(new JLabel("Slope: "));
calibrationPanel.add(rateField_, "span 2, right");
// TODO make calibration be in degrees instead of um
// calibrationPanel.add(new JLabel("\u00B0/\u00B5m"));
calibrationPanel.add(new JLabel("\u00B5m/\u00B0"));
tmp_but = new JButton("Update");
tmp_but.setMargin(new Insets(4, 8, 4, 8));
tmp_but.setToolTipText(
"Computes piezo vs. slice slope and offset from start and end positions");
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
updateCalibrationSlopeAndOffset();
}
});
tmp_but.setBackground(Color.green);
calibrationPanel.add(tmp_but);
calibrationPanel.add(upButton, "wrap");
calibrationPanel.add(new JLabel("Offset: "));
calibrationPanel.add(offsetField_, "span 2, right");
// calibrationPanel.add(new JLabel("\u00B0"));
calibrationPanel.add(new JLabel("\u00B5m"));
tmp_but = new JButton("Update");
tmp_but.setMargin(new Insets(4, 8, 4, 8));
tmp_but.setToolTipText("Adjusts piezo vs. slice offset from current position");
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
updateCalibrationOffset();
}
});
tmp_but.setBackground(Color.green);
calibrationPanel.add(tmp_but);
calibrationPanel.add(downButton, "wrap");
calibrationPanel.add(new JLabel("Step size: "), "span 2, left");
calibrationPanel.add(piezoDeltaField_);
calibrationPanel.add(new JLabel("\u00B5m"));
tmp_but = new JButton("Focus");
tmp_but.setMargin(new Insets(4, 8, 4, 8));
tmp_but.setToolTipText("Autofocus at current piezo position");
tmp_but.setBackground(Color.green);
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
autofocus_.runFocus(
setupPanel,
side,
true,
ASIdiSPIM.getFrame().getAcquisitionPanel().getSliceTiming(),
true);
}
});
calibrationPanel.add(tmp_but, "center, span 3, wrap");
// start 2-point calibration frame
// this frame is separate from main plugin window
slopeCalibrationFrame_ = new MMFrame();
slopeCalibrationFrame_.setTitle("Slope and Offset Calibration");
slopeCalibrationFrame_.loadPosition(100, 100);
JPanel slopeCalibrationPanel =
new JPanel(new MigLayout("", "[center]8[center]8[center]8[center]8[center]", "[]8[]"));
// TODO improve interface with multi-page UI and forward/back buttons
// e.g. \mmstudio\src\org\micromanager\conf2\ConfiguratorDlg2.java
slopeCalibrationPanel.add(new JLabel("Calibration Start Position"), "span 3, center");
slopeCalibrationPanel.add(new JLabel("Calibration End Position"), "span 3, center, wrap");
slopeCalibrationPanel.add(sheetStartPositionLabel_);
// Go to start button
tmp_but = new JButton("Go to");
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
try {
positions_.setPosition(micromirrorDeviceKey_, Directions.Y, sliceStartPos_, true);
positions_.setPosition(piezoImagingDeviceKey_, imagingPiezoStartPos_, true);
} catch (Exception ex) {
MyDialogUtils.showError(ex);
}
}
});
slopeCalibrationPanel.add(tmp_but, "");
slopeCalibrationPanel.add(new JSeparator(SwingConstants.VERTICAL), "spany 2, growy");
slopeCalibrationPanel.add(sheetStopPositionLabel_);
// go to end button
tmp_but = new JButton("Go to");
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
try {
positions_.setPosition(micromirrorDeviceKey_, Directions.Y, sliceStopPos_, true);
positions_.setPosition(piezoImagingDeviceKey_, imagingPiezoStopPos_, true);
} catch (Exception ex) {
MyDialogUtils.showError(ex);
}
}
});
slopeCalibrationPanel.add(tmp_but, "wrap");
slopeCalibrationPanel.add(imagingPiezoStartPositionLabel_);
tmp_but = new JButton("Set");
tmp_but.setToolTipText(
"Saves calibration start position for imaging piezo and scanner slice (should be focused)");
tmp_but.setBackground(Color.red);
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
try {
// bypass cached positions in positions_ in case they aren't current
sliceStartPos_ = positions_.getUpdatedPosition(micromirrorDeviceKey_, Directions.Y);
sheetStartPositionLabel_.setFloat((float) sliceStartPos_);
imagingPiezoStartPos_ = positions_.getUpdatedPosition(piezoImagingDeviceKey_);
imagingPiezoStartPositionLabel_.setFloat((float) imagingPiezoStartPos_);
} catch (Exception ex) {
MyDialogUtils.showError(ex);
}
}
});
slopeCalibrationPanel.add(tmp_but);
slopeCalibrationPanel.add(imagingPiezoStopPositionLabel_);
tmp_but = new JButton("Set");
tmp_but.setToolTipText(
"Saves calibration end position for imaging piezo and scanner slice (should be focused)");
tmp_but.setBackground(Color.red);
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
try {
// bypass cached positions in positions_ in case they aren't current
sliceStopPos_ = positions_.getUpdatedPosition(micromirrorDeviceKey_, Directions.Y);
sheetStopPositionLabel_.setFloat((float) sliceStopPos_);
imagingPiezoStopPos_ = positions_.getUpdatedPosition(piezoImagingDeviceKey_);
imagingPiezoStopPositionLabel_.setFloat((float) imagingPiezoStopPos_);
} catch (Exception ex) {
MyDialogUtils.showError(ex);
}
}
});
slopeCalibrationPanel.add(tmp_but, "wrap");
slopeCalibrationPanel.add(
new JSeparator(SwingConstants.HORIZONTAL), "span 5, growx, shrinky, wrap");
tmp_but = new JButton("Use these!");
tmp_but.setBackground(Color.green);
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
try {
double rate =
(imagingPiezoStopPos_ - imagingPiezoStartPos_) / (sliceStopPos_ - sliceStartPos_);
rateField_.setValue((Double) rate);
double offset =
(imagingPiezoStopPos_ + imagingPiezoStartPos_) / 2
- (rate * ((sliceStopPos_ + sliceStartPos_) / 2));
offsetField_.setValue((Double) offset);
} catch (Exception ex) {
MyDialogUtils.showError(ex);
}
slopeCalibrationFrame_.setVisible(false);
}
});
slopeCalibrationPanel.add(tmp_but, "span 5, split 3");
tmp_but = new JButton("Focus");
tmp_but.setToolTipText("Autofocus at current piezo position");
tmp_but.setBackground(Color.green);
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
autofocus_.runFocus(
setupPanel,
side,
true,
ASIdiSPIM.getFrame().getAcquisitionPanel().getSliceTiming(),
true);
}
});
slopeCalibrationPanel.add(tmp_but);
tmp_but = new JButton("Cancel");
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
slopeCalibrationFrame_.setVisible(false);
}
});
slopeCalibrationPanel.add(tmp_but, "wrap");
slopeCalibrationFrame_.add(slopeCalibrationPanel);
slopeCalibrationFrame_.pack();
slopeCalibrationFrame_.setResizable(false);
final int positionWidth = 50;
final int labelWidth = 80;
JPanel slicePanel =
new JPanel(
new MigLayout(
"",
"[" + labelWidth + "px!,right]8[" + positionWidth + "px!,center]8[center]8[center]",
"[]8[]"));
JLabel tmp_lbl = new JLabel("Imaging center: ", JLabel.RIGHT);
tmp_lbl.setMaximumSize(new Dimension(labelWidth, 20));
tmp_lbl.setMinimumSize(new Dimension(labelWidth, 20));
slicePanel.add(tmp_lbl);
imagingCenterPosLabel_ =
new StoredFloatLabel(
panelName_,
Properties.Keys.PLUGIN_PIEZO_CENTER_POS.toString(),
0,
prefs_,
" \u00B5" + "m");
imagingCenterPosLabel_.setMaximumSize(new Dimension(positionWidth, 20));
imagingCenterPosLabel_.setMinimumSize(new Dimension(positionWidth, 20));
slicePanel.add(imagingCenterPosLabel_);
// initialize the center position variable
imagingCenterPos_ =
prefs_.getFloat(
MyStrings.PanelNames.SETUP.toString() + side.toString(),
Properties.Keys.PLUGIN_PIEZO_CENTER_POS,
0);
tmp_but = new JButton("Go");
tmp_but.setToolTipText("Moves piezo to specified center and also slice");
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
centerPiezoAndGalvo();
}
});
slicePanel.add(tmp_but);
tmp_but = new JButton("Set");
tmp_but.setToolTipText("Sets piezo center position for acquisition");
tmp_but.setBackground(Color.red);
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
try {
imagingCenterPos_ = positions_.getUpdatedPosition(piezoImagingDeviceKey_);
imagingCenterPosLabel_.setFloat((float) imagingCenterPos_);
} catch (Exception ex) {
MyDialogUtils.showError(ex);
}
}
});
slicePanel.add(tmp_but, "wrap");
slicePanel.add(new JLabel("XY center: "));
slicePanel.add(new JLabel("")); // TODO update this label with current value
tmp_but = new JButton("Go");
tmp_but.setToolTipText("Moves XY stage to specified center");
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
// TODO replace with positions_ call to 2D position set (need to implement still)
try {
core_.setXYPosition(xyCenterPos_.x, xyCenterPos_.y);
} catch (Exception ex) {
ReportingUtils.showError(ex);
}
}
});
slicePanel.add(tmp_but);
tmp_but = new JButton("Set");
tmp_but.setToolTipText("Sets XY center position for acquisition");
tmp_but.setBackground(Color.red);
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
// TODO replace with positions_ call to 2D position set (need to implement still)
try {
xyCenterPos_ =
core_.getXYStagePosition(devices_.getMMDeviceException(Devices.Keys.XYSTAGE));
} catch (Exception ex) {
MyDialogUtils.showError(ex);
}
}
});
slicePanel.add(tmp_but, "wrap");
slicePanel.add(new JSeparator(SwingConstants.HORIZONTAL), "span 5, growx, shrinky, wrap");
slicePanel.add(new JLabel("Slice position:"));
sheetPositionLabel_ = new JLabel("");
slicePanel.add(sheetPositionLabel_);
slicePanel.add(pu.makeSetPositionField(micromirrorDeviceKey_, Directions.Y, positions_));
tmp_but = new JButton("Go to 0");
tmp_but.setMargin(new Insets(4, 4, 4, 4));
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
positions_.setPosition(micromirrorDeviceKey_, Directions.Y, 0.0, true);
}
});
slicePanel.add(tmp_but, "wrap");
slicePanel.add(new JLabel("Imaging piezo:"));
imagingPiezoPositionLabel_ = new JLabel("");
slicePanel.add(imagingPiezoPositionLabel_);
slicePanel.add(pu.makeSetPositionField(piezoImagingDeviceKey_, Directions.NONE, positions_));
tmp_but = new JButton("Go to 0");
tmp_but.setMargin(new Insets(4, 4, 4, 4));
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
positions_.setPosition(piezoImagingDeviceKey_, 0.0, true);
}
});
slicePanel.add(tmp_but, "wrap");
// Create sheet controls
JPanel sheetPanel =
new JPanel(
new MigLayout(
"",
"[" + labelWidth + "px!,right]8[" + positionWidth + "px!,center]8[center]8[center]",
"[]8[]8[]"));
tmp_lbl = new JLabel("Illum. piezo:", JLabel.RIGHT);
tmp_lbl.setMaximumSize(new Dimension(labelWidth, 20));
tmp_lbl.setMinimumSize(new Dimension(labelWidth, 20));
sheetPanel.add(tmp_lbl, "center");
illuminationPiezoPositionLabel_ = new JLabel("");
illuminationPiezoPositionLabel_.setMaximumSize(new Dimension(positionWidth, 20));
illuminationPiezoPositionLabel_.setMinimumSize(new Dimension(positionWidth, 20));
sheetPanel.add(illuminationPiezoPositionLabel_);
sheetPanel.add(
pu.makeSetPositionField(piezoIlluminationDeviceKey_, Directions.NONE, positions_));
tmp_but = new JButton("Set home");
tmp_but.setMargin(new Insets(4, 4, 4, 4));
tmp_but.setToolTipText("During SPIM, illumination piezo is moved to home position");
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
if (devices_.isValidMMDevice(piezoIlluminationDeviceKey_)) {
props_.setPropValue(
piezoIlluminationDeviceKey_,
Properties.Keys.SET_HOME_HERE,
Properties.Values.DO_IT);
}
}
});
sheetPanel.add(tmp_but);
tmp_but = new JButton("Go home");
tmp_but.setMargin(new Insets(4, 4, 4, 4));
tmp_but.setToolTipText("During SPIM, illumination piezo is moved to home position");
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
if (devices_.isValidMMDevice(piezoIlluminationDeviceKey_)) {
props_.setPropValue(
piezoIlluminationDeviceKey_,
Properties.Keys.MOVE_TO_HOME,
Properties.Values.DO_IT);
}
}
});
sheetPanel.add(tmp_but);
illumPiezoHomeEnable_ =
pu.makeCheckBox(
"Go home on tab activate",
Properties.Keys.PREFS_ENABLE_ILLUM_PIEZO_HOME,
panelName_,
false);
sheetPanel.add(illumPiezoHomeEnable_, "span 3, wrap");
sheetPanel.add(new JLabel("Sheet width:"));
sheetPanel.add(
new JLabel(""),
"span 2"); // TODO update this label with current value and/or allow user to directly enter
// value
sheetPanel.add(
makeIncrementButton(
micromirrorDeviceKey_, Properties.Keys.SA_AMPLITUDE_X_DEG, "-", (float) -0.01),
"split 2");
sheetPanel.add(
makeIncrementButton(
micromirrorDeviceKey_, Properties.Keys.SA_AMPLITUDE_X_DEG, "+", (float) 0.01));
JSlider tmp_sl =
pu.makeSlider(
0, // 0 is min amplitude
props_.getPropValueFloat(micromirrorDeviceKey_, Properties.Keys.MAX_DEFLECTION_X)
- props_.getPropValueFloat(
micromirrorDeviceKey_,
Properties.Keys.MIN_DEFLECTION_X), // compute max amplitude
1000, // the scale factor between internal integer representation and float
// representation
micromirrorDeviceKey_,
Properties.Keys.SA_AMPLITUDE_X_DEG);
sheetPanel.add(tmp_sl, "span 5, growx, center, wrap");
sheetPanel.add(new JLabel("Sheet offset:"));
sheetPanel.add(
new JLabel(""),
"span 2"); // TODO update this label with current value and/or allow user to directly enter
// value
sheetPanel.add(
makeIncrementButton(
micromirrorDeviceKey_, Properties.Keys.SA_OFFSET_X_DEG, "-", (float) -0.01),
"split 2");
sheetPanel.add(
makeIncrementButton(
micromirrorDeviceKey_, Properties.Keys.SA_OFFSET_X_DEG, "+", (float) 0.01));
tmp_but = new JButton("Center");
tmp_but.setMargin(new Insets(4, 8, 4, 8));
tmp_but.addActionListener(
new ActionListener() {
@Override
public void actionPerformed(ActionEvent e) {
props_.setPropValue(micromirrorDeviceKey_, Properties.Keys.SA_OFFSET_X_DEG, 0f, true);
props_.callListeners(); // update plot
}
});
sheetPanel.add(tmp_but);
tmp_sl =
pu.makeSlider(
props.getPropValueFloat(micromirrorDeviceKey_, Properties.Keys.MIN_DEFLECTION_X)
/ 4, // min value
props.getPropValueFloat(micromirrorDeviceKey_, Properties.Keys.MAX_DEFLECTION_X)
/ 4, // max value
1000, // the scale factor between internal integer representation and float
// representation
micromirrorDeviceKey_,
Properties.Keys.SA_OFFSET_X_DEG);
sheetPanel.add(tmp_sl, "span 4, growx, center, wrap");
// Create larger panel with slice, sheet, and calibration panels
JPanel superPanel = new JPanel(new MigLayout("", "[]8[]", "[]8[]"));
superPanel.setBorder(BorderFactory.createLineBorder(ASIdiSPIM.borderColor));
superPanel.add(slicePanel);
superPanel.add(new JSeparator(SwingConstants.VERTICAL), "growy, shrinkx, center");
superPanel.add(calibrationPanel, "wrap");
superPanel.add(new JSeparator(SwingConstants.HORIZONTAL), "span 3, growx, shrinky, wrap");
superPanel.add(sheetPanel, "span 3");
// Layout of the SetupPanel
joystickPanel_ = new JoystickSubPanel(joystick_, devices_, panelName_, side, prefs_);
add(joystickPanel_, "center");
add(superPanel, "center, aligny top, span 1 3, wrap");
beamPanel_ = new BeamSubPanel(gui_, devices_, panelName_, side, prefs_, props_);
add(beamPanel_, "center, wrap");
cameraPanel_ = new CameraSubPanel(gui_, cameras_, devices_, panelName_, side, prefs_, true);
add(cameraPanel_, "center");
} // end of SetupPanel constructor