Examples with SeededTest uk.ac.sussex.gdsc.test.junit5.SeededTest used on opensource projects

Example 86 with SeededTest

use of uk.ac.sussex.gdsc.test.junit5.SeededTest in project GDSC-SMLM by aherbert.

the class DynamicMultipleTargetTracingTest method checkBuilder.

@SeededTest
void checkBuilder(RandomSeed seed) {
    final UniformRandomProvider rng = RngUtils.create(seed.getSeed());
    final int temporalWindow = 2 + rng.nextInt(10);
    final double localDiffusionWeight = rng.nextDouble();
    final double diffusionCoefficientMaximum = 1 + rng.nextDouble();
    final double onIntensityWeight = rng.nextDouble();
    final double disappearanceDecayFactor = 1 + rng.nextDouble();
    final int disappearanceThreshold = 1 + rng.nextInt(10);
    final boolean disableIntensityModel = rng.nextBoolean();
    final boolean disableLocalDiffusionModel = rng.nextBoolean();
    final DmttConfiguration.Builder b = DmttConfiguration.newBuilder(45);
    final DmttConfiguration c1 = b.setTemporalWindow(temporalWindow).setLocalDiffusionWeight(localDiffusionWeight).setDiffusionCoefficientMaximum(diffusionCoefficientMaximum).setOnIntensityWeight(onIntensityWeight).setDisappearanceDecayFactor(disappearanceDecayFactor).setDisappearanceThreshold(disappearanceThreshold).setDisableIntensityModel(disableIntensityModel).setDisableLocalDiffusionModel(disableLocalDiffusionModel).build();
    // Check round-trip
    for (final DmttConfiguration config : new DmttConfiguration[] { c1, c1.toBuilder().build() }) {
        Assertions.assertEquals(diffusionCoefficientMaximum, config.getDiffusionCoefficientMaximum());
        Assertions.assertEquals(temporalWindow, config.getTemporalWindow());
        Assertions.assertEquals(localDiffusionWeight, config.getLocalDiffusionWeight());
        Assertions.assertEquals(onIntensityWeight, config.getOnIntensityWeight());
        Assertions.assertEquals(disappearanceDecayFactor, config.getDisappearanceDecayFactor());
        Assertions.assertEquals(disappearanceThreshold, config.getDisappearanceThreshold());
        Assertions.assertEquals(disableIntensityModel, config.isDisableIntensityModel());
        Assertions.assertEquals(disableLocalDiffusionModel, config.isDisableLocalDiffusionModel());
    }
}

Example 87 with SeededTest

use of uk.ac.sussex.gdsc.test.junit5.SeededTest in project GDSC-SMLM by aherbert.

the class ImageSourceTest method aggregatedInterlacedImageSourceCanReturnDataWithGet.

@SeededTest
void aggregatedInterlacedImageSourceCanReturnDataWithGet(RandomSeed seed) {
    final int width = 5;
    final int height = 3;
    final int n = 15;
    final float[][] data = createData(width, height, n);
    final int aggregate = 3;
    final int start = 4;
    final int size = 2;
    final int skip = 1;
    final ImageSource source = new AggregatedImageSource(new InterlacedImageSource(new MemoryImageSource(width, height, data), start, size, skip), aggregate);
    // Set the expected frames returned by the interlacing
    final int[] expected = new int[] { 4, 5, 7, 8, 10, 11, 13, 14 };
    // Randomly pick points from the positions used by next()
    final int[] frames = new int[source.getFrames()];
    for (int i = 0, ii = 0; ii < expected.length; i++, ii += 3) {
        frames[i] = ii;
    }
    final UniformRandomProvider rg = RngUtils.create(seed.getSeed());
    RandomUtils.shuffle(frames, rg);
    Assertions.assertTrue(source.open());
    for (int i = 0; i < frames.length; i++) {
        // Get the range for the data
        int startE = frames[i];
        final int endE = Math.min(startE + 2, expected.length - 1);
        final int startFrame = expected[startE];
        final int endFrame = expected[endE];
        // Get the data
        final float[] d = source.get(startFrame);
        // Check the correct range is returned
        Assertions.assertEquals(startFrame, source.getStartFrameNumber());
        Assertions.assertEquals(endFrame, source.getEndFrameNumber());
        // Check the data is collated correctly
        final float[] all = new float[data[0].length];
        for (; startE <= endE; startE++) {
            final int frame = expected[startE] - 1;
            for (int j = 0; j < all.length; j++) {
                all[j] += data[frame][j];
            }
        }
        Assertions.assertArrayEquals(all, d);
    }
    // Check all the data is valid but skipped interlaced points return null
    for (int i = 0; i < data.length; i++) {
        final int frame = i + 1;
        Assertions.assertTrue(source.isValid(frame));
        if (!isExpected(frame, expected)) {
            Assertions.assertNull(source.get(frame));
        }
    }
    Assertions.assertFalse(source.isValid(0));
    Assertions.assertFalse(source.isValid(data.length + 1));
}

Example 88 with SeededTest

use of uk.ac.sussex.gdsc.test.junit5.SeededTest in project GDSC-SMLM by aherbert.

the class ImageSourceTest method memoryImageSourceCanReturnCroppedDataWithGet.

@SeededTest
void memoryImageSourceCanReturnCroppedDataWithGet(RandomSeed seed) {
    final int width = 5;
    final int height = 3;
    final Rectangle bounds = new Rectangle(2, 1, 3, 1);
    final float[][] data = createData(width, height, 15);
    final MemoryImageSource source = new MemoryImageSource(width, height, data);
    final int[] frames = new int[data.length];
    for (int i = 0; i < data.length; i++) {
        frames[i] = i + 1;
    }
    final UniformRandomProvider rg = RngUtils.create(seed.getSeed());
    RandomUtils.shuffle(frames, rg);
    Assertions.assertTrue(source.open());
    for (int i = 0; i < data.length; i++) {
        final int frame = frames[i];
        Assertions.assertTrue(source.isValid(frame));
        final float[] next = source.get(frame, bounds);
        Assertions.assertEquals(bounds.width * bounds.height, next.length);
        Assertions.assertArrayEquals(crop(data[frame - 1], width, bounds), next);
    }
    Assertions.assertFalse(source.isValid(0));
    Assertions.assertFalse(source.isValid(data.length + 1));
}

Example 89 with SeededTest

use of uk.ac.sussex.gdsc.test.junit5.SeededTest in project GDSC-SMLM by aherbert.

the class ImageSourceTest method interlacedImageSourceCanReturnDataWithGet.

@SeededTest
void interlacedImageSourceCanReturnDataWithGet(RandomSeed seed) {
    final int width = 5;
    final int height = 3;
    final float[][] data = createData(width, height, 15);
    final int start = 4;
    final int size = 2;
    final int skip = 1;
    final ImageSource source = new InterlacedImageSource(new MemoryImageSource(width, height, data), start, size, skip);
    final int[] frames = new int[data.length];
    for (int i = 0; i < data.length; i++) {
        frames[i] = i + 1;
    }
    final UniformRandomProvider rg = RngUtils.create(seed.getSeed());
    RandomUtils.shuffle(frames, rg);
    final int[] expected = new int[] { 4, 5, 7, 8, 10, 11, 13, 14 };
    Assertions.assertTrue(source.open());
    for (int i = 0; i < data.length; i++) {
        final int frame = frames[i];
        Assertions.assertTrue(source.isValid(frame));
        final float[] d = source.get(frame);
        if (isExpected(frame, expected)) {
            Assertions.assertArrayEquals(data[frame - 1], d);
        } else {
            Assertions.assertNull(d);
        }
    }
    Assertions.assertFalse(source.isValid(0));
    Assertions.assertFalse(source.isValid(data.length + 1));
}

Example 90 with SeededTest

use of uk.ac.sussex.gdsc.test.junit5.SeededTest in project GDSC-SMLM by aherbert.

the class ImageSourceTest method aggregatedImageSourceCanReturnDataWithGet.

@SeededTest
void aggregatedImageSourceCanReturnDataWithGet(RandomSeed seed) {
    final int width = 5;
    final int height = 3;
    final int aggregate = 3;
    final float[][] data = createData(width, height, 15);
    final ImageSource source = new AggregatedImageSource(new MemoryImageSource(width, height, data), aggregate);
    final int[] frames = new int[data.length / 3];
    for (int i = 0, frame = 1; i < frames.length; i++, frame += 3) {
        frames[i] = frame;
    }
    final UniformRandomProvider rg = RngUtils.create(seed.getSeed());
    RandomUtils.shuffle(frames, rg);
    Assertions.assertTrue(source.open());
    for (int i = 0; i < frames.length; i++) {
        final int frame = frames[i];
        Assertions.assertTrue(source.isValid(frame), () -> "Invalid frame " + frame);
        final float[] d = source.get(frame);
        Assertions.assertEquals(frame, source.getStartFrameNumber());
        Assertions.assertEquals(frame + 2, source.getEndFrameNumber());
        final float[] all = combine(data[frame - 1], data[frame], data[frame + 1]);
        Assertions.assertArrayEquals(all, d, () -> "Invalid frame data " + frame);
    }
    Assertions.assertFalse(source.isValid(0));
    Assertions.assertFalse(source.isValid(data.length + 1));
}