Examples with ScanRequest org.eclipse.scanning.api.event.scan.ScanRequest used on opensource projects

Example 21 with ScanRequest

use of org.eclipse.scanning.api.event.scan.ScanRequest in project gda-core by openGDA.

the class PolarisationSubmitScanSection method submitScan.

@Override
protected void submitScan() {
    if (!polarisationCheckbox.getSelection()) {
        // Ordinary mapping scan
        super.submitScan();
        return;
    }
    final IScriptService scriptService = getService(IScriptService.class);
    final ScanRequest scanRequest = getScanRequest(getMappingBean());
    try {
        // Serialise ScanRequest to JSON and put in the Jython namespace.
        final IMarshallerService marshallerService = getService(IMarshallerService.class);
        scriptService.setNamedValue(VAR_NAME_SCAN_REQUEST_JSON, marshallerService.marshal(scanRequest));
    } catch (Exception e) {
        logger.error("Scan submission failed", e);
        MessageDialog.openError(getShell(), "Error Submitting Scan", "The scan could not be submitted. See the error log for more details.");
        return;
    }
    Async.execute(() -> runScript(scriptFilePath, "Polarisation scanning script"));
}

Example 22 with ScanRequest

use of org.eclipse.scanning.api.event.scan.ScanRequest in project gda-core by openGDA.

the class PtychographySubmitScanSection method submitScan.

@Override
protected void submitScan() {
    final IScriptService scriptService = getService(IScriptService.class);
    final ScanRequest scanRequest = getScanRequest(getMappingBean());
    try {
        final IMarshallerService marshallerService = getService(IMarshallerService.class);
        scriptService.setNamedValue(VAR_NAME_SCAN_REQUEST_JSON, marshallerService.marshal(scanRequest));
        final PtychographyParams ptychographyParams = new PtychographyParams();
        final PtychographyParams.Resolution resolution = lowResButton.getSelection() ? PtychographyParams.Resolution.LOW : PtychographyParams.Resolution.HIGH;
        ptychographyParams.setResolution(resolution);
        scriptService.setNamedValue(VAR_NAME_PTYCHO_PARAMS_JSON, marshallerService.marshal(ptychographyParams));
    } catch (Exception e) {
        logger.error("Scan submission failed", e);
        MessageDialog.openError(getShell(), "Error Submitting Scan", "The scan could not be submitted. See the error log for more details.");
        return;
    }
    Async.execute(() -> runScript(scriptFilePath, "Ptychography scanning script"));
}

Example 23 with ScanRequest

use of org.eclipse.scanning.api.event.scan.ScanRequest in project gda-core by openGDA.

the class ScanRequestFactoryTest method testEmptyTemplateFile.

@Test
public void testEmptyTemplateFile() throws Exception {
    IMalcolmModel model = Mockito.mock(IMalcolmModel.class);
    when(detectorModel.getModel()).thenReturn(model);
    ScanRequestFactory scanRequestFactory = new ScanRequestFactory(loadScanningAcquisition());
    ScanRequest scanRequest = scanRequestFactory.createScanRequest(runnableService);
    Assert.assertTrue(scanRequest.getTemplateFilePaths().isEmpty());
}

Example 24 with ScanRequest

use of org.eclipse.scanning.api.event.scan.ScanRequest in project gda-core by openGDA.

the class FocusScanResultPage method startFocusScan.

private void startFocusScan() {
    // set the page as incomplete, disables Finish button while scan is running
    setPageComplete(false);
    plotTraceRunnable.set(null);
    initialMapFile = null;
    // add a listener for map file events
    if (mapFileEventListener == null) {
        mapFileEventListener = this::handleMapEvent;
        mapFileController.addListener(mapFileEventListener);
    }
    // create the ScanBean from the focus scan bean
    final ScanBean scanBean = new ScanBean();
    scanBean.setName(String.format("%s - Focus Scan", getSampleName()));
    scanBean.setBeamline(System.getProperty("BEAMLINE"));
    ScanRequest scanRequest = converter.convertToScanRequest(focusScanBean);
    scanBean.setScanRequest(scanRequest);
    // submit the ScanBean
    try {
        statusBean = scanBean;
        submitter.submitScan(scanBean);
        messageLabel.setText("Waiting for scan to start");
        startScanButton.setEnabled(false);
        stopScanButton.setEnabled(true);
    } catch (EventException e) {
        logger.error("Scan submission failed", e);
        MessageDialog.openError(getShell(), "Error Submitting Scan", "The scan could not be submitted. See the error log for more details.");
    }
}

Example 25 with ScanRequest

use of org.eclipse.scanning.api.event.scan.ScanRequest in project gda-core by openGDA.

the class ScanRequestConverter method convertToScanRequest.

/**
 * Convert an IMappingExperimentBean to a ScanRequest so that it can be run by the
 * GDA9 scanning framework.
 * <p>
 * This will include setting the mapping scan axes with the names from the mapping axis manager.
 * <p>
 * This method is made <code>public</code> to allow testing.
 *
 * @param mappingBean
 *            the IMappingExperimentBean to be converted
 * @return the ScanRequest
 */
public ScanRequest convertToScanRequest(IMappingExperimentBean mappingBean) {
    final ScanRequest scanRequest = new ScanRequest();
    final IMappingScanRegion scanRegion = mappingBean.getScanDefinition().getMappingScanRegion();
    final IMapPathModel mapPath = getMapPathAndConfigureScanAxes(scanRegion);
    // Build the list of models for the scan
    // first get the models for any outer scannables to be included
    final List<IScanPointGeneratorModel> models = mappingBean.getScanDefinition().getOuterScannables().stream().filter(IScanModelWrapper<IScanPointGeneratorModel>::isIncludeInScan).map(IScanModelWrapper<IScanPointGeneratorModel>::getModel).filter(Objects::nonNull).collect(// use array list as we're going to add an element
    toCollection(ArrayList::new));
    // then add the actual map path model last, it's the inner most model
    models.add(mapPath);
    // Convert the list of models into a compound model
    final CompoundModel compoundModel = new CompoundModel(models);
    // Add the ROI for the mapping region
    final ScanRegion region = new ScanRegion(scanRegion.getRegion().toROI(), mapPath.getxAxisName(), mapPath.getyAxisName());
    // Convert to a List of ScanRegion<IROI> containing one item to avoid unsafe varargs warning
    compoundModel.setRegions(Arrays.asList(region));
    // Set the model on the scan request
    scanRequest.setCompoundModel(compoundModel);
    // set the scan start position (scannables not in the scan that are set to a certain value before the scan starts)
    final Map<String, Object> beamlineConfiguration = mappingBean.getBeamlineConfiguration();
    if (beamlineConfiguration != null) {
        scanRequest.setStartPosition(new MapPosition(beamlineConfiguration));
    }
    // add the required detectors to the scan
    for (IScanModelWrapper<IDetectorModel> detectorWrapper : mappingBean.getDetectorParameters()) {
        if (detectorWrapper.isIncludeInScan()) {
            IDetectorModel detectorModel = detectorWrapper.getModel();
            scanRequest.putDetector(detectorModel.getName(), detectorModel);
        }
    }
    // set the per-scan and per-point monitors according to the mapping bean
    configureMonitors(mappingBean, scanRequest);
    // set the scripts to run before and after the scan, if any
    if (mappingBean.getScriptFiles() != null) {
        final IScriptFiles scriptFiles = mappingBean.getScriptFiles();
        scanRequest.setBeforeScript(createScriptRequest(scriptFiles.getBeforeScanScript()));
        scanRequest.setAfterScript(createScriptRequest(scriptFiles.getAfterScanScript()));
        scanRequest.setAlwaysRunAfterScript(scriptFiles.isAlwaysRunAfterScript());
    }
    // add the sample metadata
    if (mappingBean.getSampleMetadata() != null) {
        setSampleMetadata(mappingBean, scanRequest);
    }
    // Add required processing
    Map<String, Collection<Object>> processingRequest = mappingBean.getProcessingRequest();
    ProcessingRequest r = new ProcessingRequest();
    r.setRequest(processingRequest);
    scanRequest.setProcessingRequest(r);
    // Add template files
    final List<TemplateFileWrapper> templateFiles = mappingBean.getTemplateFiles();
    if (templateFiles != null && !templateFiles.isEmpty()) {
        final Set<String> existingTemplateFilePaths = scanRequest.getTemplateFilePaths();
        final Set<String> allTemplateFilePaths = new TreeSet<>();
        Optional.ofNullable(existingTemplateFilePaths).ifPresent(allTemplateFilePaths::addAll);
        templateFiles.stream().filter(TemplateFileWrapper::isActive).forEach(fp -> allTemplateFilePaths.add(fp.getFilePath()));
        scanRequest.setTemplateFilePaths(allTemplateFilePaths);
    }
    // Add alternative output directory if selected and valid
    if (mappingBean.isUseAlternativeDirectory()) {
        final String outputDirString = mappingBean.getAlternativeDirectory();
        final File outputDir = new File(outputDirString);
        if (outputDir.isDirectory()) {
            scanRequest.setFilePath(outputDirString);
        } else {
            logger.warn("Cannot write output to {}: it is not a directory", outputDirString);
        }
    }
    return scanRequest;
}