Examples with Time ome.units.quantity.Time used on opensource projects

Example 46 with Time

use of ome.units.quantity.Time in project bioformats by openmicroscopy.

the class GetPhysicalMetadata method printPhysicalDimensions.

/**
 * Outputs global timing details.
 */
public static void printPhysicalDimensions(IMetadata meta, int series) {
    Length physicalSizeX = meta.getPixelsPhysicalSizeX(series);
    Length physicalSizeY = meta.getPixelsPhysicalSizeY(series);
    Length physicalSizeZ = meta.getPixelsPhysicalSizeZ(series);
    Time timeIncrement = meta.getPixelsTimeIncrement(series);
    System.out.println();
    System.out.println("Physical dimensions:");
    System.out.println("\tX spacing = " + physicalSizeX.value() + " " + physicalSizeX.unit().getSymbol());
    System.out.println("\tY spacing = " + physicalSizeY.value() + " " + physicalSizeY.unit().getSymbol());
    System.out.println("\tZ spacing = " + physicalSizeZ.value() + " " + physicalSizeZ.unit().getSymbol());
    System.out.println("\tTime increment = " + timeIncrement.value(UNITS.SECOND).doubleValue() + " seconds");
}

Example 47 with Time

use of ome.units.quantity.Time in project bioformats by openmicroscopy.

the class PrintTimestamps method printGlobalTiming.

/**
 * Outputs global timing details.
 */
public static void printGlobalTiming(IMetadata meta, int series) {
    String imageName = meta.getImageName(series);
    String creationDate = null;
    if (meta.getImageAcquisitionDate(series) != null) {
        creationDate = meta.getImageAcquisitionDate(series).getValue();
    }
    Time timeInc = meta.getPixelsTimeIncrement(series);
    System.out.println();
    System.out.println("Global timing information:");
    System.out.println("\tImage name = " + imageName);
    System.out.println("\tCreation date = " + creationDate);
    if (creationDate != null) {
        System.out.println("\tCreation time (in ms since epoch) = " + DateTools.getTime(creationDate, DateTools.ISO8601_FORMAT));
    }
    System.out.println("\tTime increment (in seconds) = " + timeInc.value(UNITS.SECOND).doubleValue());
}

Example 48 with Time

use of ome.units.quantity.Time in project bioformats by openmicroscopy.

the class PrintTimestamps method printTimingPerTimepoint.

/**
 * Outputs timing details per timepoint.
 */
public static void printTimingPerTimepoint(IMetadata meta, int series) {
    System.out.println();
    System.out.println("Timing information per timepoint (from beginning of experiment):");
    int planeCount = meta.getPlaneCount(series);
    for (int i = 0; i < planeCount; i++) {
        Time deltaT = meta.getPlaneDeltaT(series, i);
        if (deltaT == null)
            continue;
        // convert plane ZCT coordinates into image plane index
        int z = meta.getPlaneTheZ(series, i).getValue().intValue();
        int c = meta.getPlaneTheC(series, i).getValue().intValue();
        int t = meta.getPlaneTheT(series, i).getValue().intValue();
        if (z == 0 && c == 0) {
            System.out.println("\tTimepoint #" + t + " = " + deltaT.value(UNITS.SECOND).doubleValue() + " s");
        }
    }
}

Example 49 with Time

use of ome.units.quantity.Time in project bioformats by openmicroscopy.

the class TillVisionReader method populateMetadataStore.

// -- Helper methods --
private void populateMetadataStore() throws FormatException {
    MetadataStore store = makeFilterMetadata();
    MetadataTools.populatePixels(store, this, true);
    for (int i = 0; i < getSeriesCount(); i++) {
        // populate Image data
        if (i < imageNames.size()) {
            store.setImageName(imageNames.get(i), i);
        }
        String date = i < dates.size() ? dates.get(i) : "";
        if (date != null && !date.equals("")) {
            store.setImageAcquisitionDate(new Timestamp(date), i);
        }
    }
    if (getMetadataOptions().getMetadataLevel() != MetadataLevel.MINIMUM) {
        for (int i = 0; i < getSeriesCount(); i++) {
            for (int q = 0; q < core.get(i).imageCount; q++) {
                if (exposureTimes.get(i) != null) {
                    store.setPlaneExposureTime(new Time(exposureTimes.get(i), UNITS.SECOND), i, q);
                }
            }
            if (i < types.size()) {
                store.setExperimentID(MetadataTools.createLSID("Experiment", i), i);
                store.setExperimentType(getExperimentType(types.get(i)), i);
            }
        }
    }
}

Example 50 with Time

use of ome.units.quantity.Time in project bioformats by openmicroscopy.

the class LociFunctions method getPlaneTimingDeltaT.

public void getPlaneTimingDeltaT(Double[] deltaT, Double no) {
    int imageIndex = r.getSeries();
    int planeIndex = getPlaneIndex(r, no.intValue());
    MetadataRetrieve retrieve = (MetadataRetrieve) r.getMetadataStore();
    Double val = Double.NaN;
    if (planeIndex >= 0) {
        Time valTime = retrieve.getPlaneDeltaT(imageIndex, planeIndex);
        if (valTime != null) {
            val = valTime.value(UNITS.SECOND).doubleValue();
        }
    }
    deltaT[0] = val;
}