import {Point3D} from '../../src/math/point';
import {Index} from '../../src/math/index';
import {getStats} from '../../src/math/stats';
import {arrayEquals} from '../../src/utils/array';
import {Size} from '../../src/image/size';
import {Spacing} from '../../src/image/spacing';
import {Geometry} from '../../src/image/geometry';
import {RescaleSlopeAndIntercept} from '../../src/image/rsi';
import {Image} from '../../src/image/image';
import {ImageFactory} from '../../src/image/imageFactory';
/**
* Tests for the 'image/image.js' file.
*/
// Do not warn if these variables were not defined before.
/* global QUnit */
/**
* Compare an image and a buffer.
*
* @param {object} image The input image.
* @param {object} size The size of the input buffer.
* @param {Array} buffer The input buffer.
* @param {object} rsi The rescale slope of the input buffer.
* @returns {object} Statistics of the value and rescaled value differences.
*/
function compareImageAndBuffer(image, size, buffer, rsi) {
const diffs = [];
const diffsRescaled = [];
// calculate differences
let index = 0;
for (let k = 0; k < size.get(2); ++k) {
for (let j = 0; j < size.get(1); ++j) {
for (let i = 0; i < size.get(0); ++i) {
const diff = Math.abs(image.getValue(i, j, k) - buffer[index]);
if (diff !== 0) {
diffs.push(diff);
}
const diffRescaled = Math.abs(
image.getRescaledValue(i, j, k) - rsi.apply(buffer[index]));
if (diffRescaled !== 0) {
diffsRescaled.push(diffRescaled);
}
++index;
}
}
}
// calculate stats if necessary
let statsDiff = {min: 0, max: 0, mean: 0, stdDev: 0};
if (diffs.length !== 0) {
statsDiff = getStats(diffs);
}
let statsDiffRescaled = {min: 0, max: 0, mean: 0, stdDev: 0};
if (diffsRescaled.length !== 0) {
statsDiffRescaled = getStats(diffsRescaled);
}
// return stats
return {
valuesStats: statsDiff,
rescaledStats: statsDiffRescaled
};
}
/**
* Tests for {@link Image} getValue.
*
* @function module:tests/image~getvalue
*/
QUnit.test('Test Image getValue.', function (assert) {
const zeroStats = {min: 0, max: 0, mean: 0, stdDev: 0};
// create a simple image
const size0 = 4;
const imgSize0 = new Size([size0, size0, 1]);
const imgSpacing0 = new Spacing([1, 1, 1]);
const imgOrigin0 = new Point3D(0, 0, 0);
const imgGeometry0 = new Geometry(imgOrigin0, imgSize0, imgSpacing0);
const buffer0 = [];
for (let i = 0; i < size0 * size0; ++i) {
buffer0[i] = i;
}
const image0 = new Image(imgGeometry0, buffer0);
// test its geometry
assert.equal(image0.getGeometry(), imgGeometry0, 'Image geometry');
// test its values
const rsi0 = new RescaleSlopeAndIntercept(1, 0);
const res0 = compareImageAndBuffer(image0, imgSize0, buffer0, rsi0);
assert.propEqual(
res0.valuesStats,
zeroStats,
'Values should be equal');
assert.propEqual(
res0.rescaledStats,
zeroStats,
'Rescaled values should be equal');
// outside value
assert.equal(isNaN(image0.getValue(4, 3, 0)), true, 'Value outside is NaN');
// TODO: wrong, should not be accessed
assert.equal(image0.getValue(5, 0, 0), 1 * size0 + 1, 'Value at 5,0,0');
// check range
const theoRange0 = {min: 0, max: (size0 * size0) - 1};
const imgRange00 = image0.getDataRange();
assert.equal(imgRange00.max, theoRange0.max, 'Range max');
assert.equal(imgRange00.min, theoRange0.min, 'Range min');
const imgRange01 = image0.getRescaledDataRange();
assert.equal(imgRange01.max, theoRange0.max, 'Rescaled range max');
assert.equal(imgRange01.min, theoRange0.min, 'Rescaled range min');
// image with rescale
const image1 = new Image(imgGeometry0, buffer0);
const slope1 = 2;
const intercept1 = 10;
const rsi1 = new RescaleSlopeAndIntercept(slope1, intercept1);
image1.setRescaleSlopeAndIntercept(rsi1, new Index([0, 0, 0]));
// test its geometry
assert.equal(image1.getGeometry(), imgGeometry0, 'Image geometry');
// test its values
const res1 = compareImageAndBuffer(image1, imgSize0, buffer0, rsi1);
assert.propEqual(
res1.valuesStats,
zeroStats,
'Values should be equal');
assert.propEqual(
res1.rescaledStats,
zeroStats,
'Rescaled values should be equal');
// check range
const imgRange10 = image0.getDataRange();
assert.equal(imgRange10.max, theoRange0.max, 'Range max');
assert.equal(imgRange10.min, theoRange0.min, 'Range min');
const theoRange1 = {
min: theoRange0.min * slope1 + intercept1,
max: theoRange0.max * slope1 + intercept1
};
const imgRange11 = image1.getRescaledDataRange();
assert.equal(imgRange11.max, theoRange1.max, 'Rescaled range max');
assert.equal(imgRange11.min, theoRange1.min, 'Rescaled range min');
});
/**
* Tests for {@link Image} histogram.
*
* @function module:tests/image~histogram
*/
QUnit.test('Test Image histogram.', function (assert) {
// create a simple image
const size0 = 4;
const imgSize0 = new Size([size0, size0, 1]);
const imgSpacing0 = new Spacing([1, 1, 1]);
const imgOrigin0 = new Point3D(0, 0, 0);
const imgGeometry0 = new Geometry(imgOrigin0, imgSize0, imgSpacing0);
const buffer0 = [];
for (let i = 0; i < size0 * size0; ++i) {
buffer0[i] = i;
}
const image0 = new Image(imgGeometry0, buffer0);
// histogram
const histogram = image0.getHistogram();
assert.equal(histogram.length, size0 * size0, 'histogram size');
let histoContentTest = true;
for (let j = 0; j < size0 * size0; ++j) {
if (histogram[j][0] !== j) {
histoContentTest = false;
break;
}
if (histogram[j][1] !== 1) {
histoContentTest = false;
break;
}
}
assert.equal(histoContentTest, true, 'histogram content');
});
/**
* Tests for {@link Image} append.
*
* @function module:tests/image~append
*/
QUnit.test('Test Image append slice.', function (assert) {
/**
* Compare two arrays of vectors.
*
* @param {Array} arr0 The first array.
* @param {Array} arr1 The second array.
* @returns {boolean} True if both arrays are equal.
*/
function compareArrayOfVectors(arr0, arr1) {
return arr0.every(function (element, index) {
return element.equals(arr1[index]);
});
}
const size = 4;
const imgSize = new Size([size, size, 2]);
const imgSizeMinusOne = new Size([size, size, 1]);
const imgSpacing = new Spacing([1, 1, 1]);
const imgOrigin = new Point3D(0, 0, 0);
// slice to append
const sliceSize = new Size([size, size, 1]);
const sliceBuffer = new Int16Array(sliceSize.getTotalSize());
for (let i = 0; i < size * size; ++i) {
sliceBuffer[i] = 2;
}
// image buffer
const buffer = new Int16Array(imgSize.getTotalSize());
for (let j = 0; j < size * size; ++j) {
buffer[j] = 0;
}
for (let k = size * size; k < 2 * size * size; ++k) {
buffer[k] = 1;
}
// image 0
const imgGeometry0 = new Geometry(
imgOrigin, imgSizeMinusOne, imgSpacing);
imgGeometry0.appendOrigin(new Point3D(0, 0, 1), 1);
const image0 = new Image(imgGeometry0, buffer, ['0']);
image0.setMeta({numberOfFiles: 3});
// append null
assert.throws(function () {
image0.appendSlice(null);
}, new Error('Cannot append null slice'), 'append null slice');
// real slice
const sliceOrigin = new Point3D(0, 0, -1);
const sliceGeometry = new Geometry(
sliceOrigin, sliceSize, imgSpacing);
const slice0 = new Image(sliceGeometry, sliceBuffer, ['1']);
slice0.setMeta({numberOfFiles: 3});
// append slice before
image0.appendSlice(slice0);
// test its values
assert.equal(image0.getValue(0, 0, 0), 2, 'Value at 0,0,0 (append before)');
assert.equal(image0.getValue(3, 3, 0), 2, 'Value at 3,3,0 (append before)');
assert.equal(image0.getValue(0, 0, 1), 0, 'Value at 0,0,1 (append before)');
assert.equal(image0.getValue(3, 3, 1), 0, 'Value at 3,3,1 (append before)');
assert.equal(image0.getValue(0, 0, 2), 1, 'Value at 0,0,2 (append before)');
assert.equal(image0.getValue(3, 3, 2), 1, 'Value at 3,3,2 (append before)');
// test its positions
const sliceOrigins0 = [];
sliceOrigins0[0] = new Point3D(0, 0, -1);
sliceOrigins0[1] = new Point3D(0, 0, 0);
sliceOrigins0[2] = new Point3D(0, 0, 1);
assert.ok(
compareArrayOfVectors(imgGeometry0.getOrigins(), sliceOrigins0),
'Slice positions (append before)');
// image 1
const imgGeometry1 = new Geometry(
imgOrigin, imgSizeMinusOne, imgSpacing);
imgGeometry1.appendOrigin(new Point3D(0, 0, 1), 1);
const image1 = new Image(imgGeometry1, buffer, ['0']);
image1.setMeta({numberOfFiles: 3});
const sliceOrigin1 = new Point3D(0, 0, 2);
const sliceGeometry1 = new Geometry(
sliceOrigin1, sliceSize, imgSpacing);
const slice1 = new Image(sliceGeometry1, sliceBuffer, ['1']);
slice1.setMeta({numberOfFiles: 3});
// append slice before
image1.appendSlice(slice1);
// test its values
assert.equal(image1.getValue(0, 0, 0), 0, 'Value at 0,0,0 (append after)');
assert.equal(image1.getValue(3, 3, 0), 0, 'Value at 3,3,0 (append after)');
assert.equal(image1.getValue(0, 0, 1), 1, 'Value at 0,0,1 (append after)');
assert.equal(image1.getValue(3, 3, 1), 1, 'Value at 3,3,1 (append after)');
assert.equal(image1.getValue(0, 0, 2), 2, 'Value at 0,0,2 (append after)');
assert.equal(image1.getValue(3, 3, 2), 2, 'Value at 3,3,2 (append after)');
// test its positions
const sliceOrigins1 = [];
sliceOrigins1[0] = new Point3D(0, 0, 0);
sliceOrigins1[1] = new Point3D(0, 0, 1);
sliceOrigins1[2] = new Point3D(0, 0, 2);
assert.ok(
compareArrayOfVectors(imgGeometry1.getOrigins(), sliceOrigins1),
'Slice positions (append after)');
// image 2
const imgGeometry2 = new Geometry(
imgOrigin, imgSizeMinusOne, imgSpacing);
imgGeometry2.appendOrigin(new Point3D(0, 0, 1), 1);
const image2 = new Image(imgGeometry2, buffer, ['0']);
image2.setMeta({numberOfFiles: 3});
const sliceOrigin2 = new Point3D(0, 0, 0.4);
const sliceGeometry2 = new Geometry(
sliceOrigin2, sliceSize, imgSpacing);
const slice2 = new Image(sliceGeometry2, sliceBuffer, ['1']);
slice2.setMeta({numberOfFiles: 3});
// append slice before
image2.appendSlice(slice2);
// test its values
assert.equal(image2.getValue(0, 0, 0), 0, 'Value at 0,0,0 (append between)');
assert.equal(image2.getValue(3, 3, 0), 0, 'Value at 3,3,0 (append between)');
assert.equal(image2.getValue(0, 0, 1), 2, 'Value at 0,0,1 (append between)');
assert.equal(image2.getValue(3, 3, 1), 2, 'Value at 3,3,1 (append between)');
assert.equal(image2.getValue(0, 0, 2), 1, 'Value at 0,0,2 (append between)');
assert.equal(image2.getValue(3, 3, 2), 1, 'Value at 3,3,2 (append between)');
// test its positions
const sliceOrigins2 = [];
sliceOrigins2[0] = new Point3D(0, 0, 0);
sliceOrigins2[1] = new Point3D(0, 0, 0.4);
sliceOrigins2[2] = new Point3D(0, 0, 1);
assert.ok(
compareArrayOfVectors(imgGeometry2.getOrigins(), sliceOrigins2),
'Slice positions (append between)');
});
/**
* Tests for {@link Image} convolute2D.
*
* @function module:tests/image~convolute2D
*/
QUnit.test('Test Image convolute2D.', function (assert) {
// create a simple image
const size0 = 3;
const imgSize0 = new Size([size0, size0, 1]);
const imgSpacing0 = new Spacing([1, 1, 1]);
const imgOrigin0 = new Point3D(0, 0, 0);
const imgGeometry0 = new Geometry(imgOrigin0, imgSize0, imgSpacing0);
const buffer0 = [];
for (let i = 0; i < size0 * size0; ++i) {
buffer0[i] = i;
}
const image0 = new Image(imgGeometry0, buffer0);
// id convolution
const weights0 = [0, 0, 0, 0, 1, 0, 0, 0, 0];
const resImage0 = image0.convolute2D(weights0);
let testContent0 = true;
for (let i = 0; i < size0 * size0; ++i) {
if (image0.getValueAtOffset(i, 0) !== resImage0.getValueAtOffset(i, 0)) {
testContent0 = false;
break;
}
}
assert.equal(testContent0, true, 'convolute2D id');
// blur convolution
const weights1 = [1, 1, 1, 1, 1, 1, 1, 1, 1];
const resImage1 = image0.convolute2D(weights1);
const theoResImage1 = [12, 18, 24, 30, 36, 42, 48, 54, 60];
let testContent1 = true;
for (let i = 0; i < size0 * size0; ++i) {
if (theoResImage1[i] !== resImage1.getValueAtOffset(i, 0)) {
testContent1 = false;
break;
}
}
assert.equal(testContent1, true, 'convolute2D blur');
});
/**
* Tests for {@link Image} transform.
*
* @function module:tests/image~transform
*/
QUnit.test('Test Image transform.', function (assert) {
// create a simple image
const size0 = 3;
const imgSize0 = new Size([size0, size0, 1]);
const imgSpacing0 = new Spacing([1, 1, 1]);
const imgOrigin0 = new Point3D(0, 0, 0);
const imgGeometry0 = new Geometry(imgOrigin0, imgSize0, imgSpacing0);
const buffer0 = [];
for (let i = 0; i < size0 * size0; ++i) {
buffer0[i] = i;
}
let image0 = new Image(imgGeometry0, buffer0);
// treshold function
const func0 = function (value) {
if (value < 3 || value > 5) {
return 0;
} else {
return value;
}
};
const resImage0 = image0.transform(func0);
const theoResImage0 = [0, 0, 0, 3, 4, 5, 0, 0, 0];
let testContent0 = true;
for (let i = 0; i < size0 * size0; ++i) {
if (theoResImage0[i] !== resImage0.getValueAtOffset(i, 0)) {
testContent0 = false;
break;
}
}
assert.equal(testContent0, true, 'transform threshold');
// new image
image0 = new Image(imgGeometry0, buffer0);
// multiply function
const func1 = function (value) {
return value * 2;
};
const resImage1 = image0.transform(func1);
const theoResImage1 = [0, 2, 4, 6, 8, 10, 12, 14, 16];
let testContent1 = true;
for (let i = 0; i < size0 * size0; ++i) {
if (theoResImage1[i] !== resImage1.getValueAtOffset(i, 0)) {
testContent1 = false;
break;
}
}
assert.equal(testContent1, true, 'transform multiply');
});
/**
* Tests for {@link Image} compose.
*
* @function module:tests/image~compose
*/
QUnit.test('Test Image compose.', function (assert) {
// create two simple images
const size0 = 3;
const imgSize0 = new Size([size0, size0, 1]);
const imgSpacing0 = new Spacing([1, 1, 1]);
const imgOrigin0 = new Point3D(0, 0, 0);
const imgGeometry0 = new Geometry(imgOrigin0, imgSize0, imgSpacing0);
const buffer0 = [];
for (let i = 0; i < size0 * size0; ++i) {
buffer0[i] = i;
}
const image0 = new Image(imgGeometry0, buffer0);
const buffer1 = [];
for (let i = 0; i < size0 * size0; ++i) {
buffer1[i] = i;
}
const image1 = new Image(imgGeometry0, buffer1);
// addition function
const func0 = function (a, b) {
return a + b;
};
const resImage0 = image0.compose(image1, func0);
const theoResImage0 = [0, 2, 4, 6, 8, 10, 12, 14, 16];
let testContent0 = true;
for (let i = 0; i < size0 * size0; ++i) {
if (theoResImage0[i] !== resImage0.getValueAtOffset(i, 0)) {
testContent0 = false;
break;
}
}
assert.equal(testContent0, true, 'compose addition');
});
/**
* Tests for {@link ImageFactory}.
*
* @function module:tests/image~ImageFactory
*/
QUnit.test('Test ImageFactory.', function (assert) {
const zeroStats = {min: 0, max: 0, mean: 0, stdDev: 0};
const size0 = 3;
const imgSize0 = new Size([size0, size0, 1]);
const imgSpacing0 = new Spacing([1, 1, 1]);
const imgOrigin0 = new Point3D(0, 0, 0);
const imgGeometry0 = new Geometry(imgOrigin0, imgSize0, imgSpacing0);
const buffer0 = [];
for (let i = 0; i < size0 * size0; ++i) {
buffer0[i] = i;
}
const rsi0 = new RescaleSlopeAndIntercept(1, 0);
const dicomElements0 = [];
// columns
dicomElements0['00280011'] = {value: [imgSize0.get(0)]};
// rows
dicomElements0['00280010'] = {value: [imgSize0.get(1)]};
// spacing
dicomElements0['00280030'] = {
value: [imgSpacing0.get(1), imgSpacing0.get(2)]
};
// transfer syntax (explicit VR)
dicomElements0['00020010'] = {value: ['1.2.840.10008.1.2.1']};
// SOP class UID
dicomElements0['00080016'] = {value: ['1.2.840.10008.5.1.4.1.1.4']};
// modality
dicomElements0['00080060'] = {value: ['MR']};
// SOP instance UID
dicomElements0['00080018'] = {value: ['1.2.840.34.56.78999654.234]']};
// create the image factory
const factory0 = new ImageFactory();
// create the image
const image0 = factory0.create(dicomElements0, buffer0);
// test its geometry
assert.ok(image0.getGeometry().equals(imgGeometry0), 'Image geometry');
// test its values
const res0 = compareImageAndBuffer(image0, imgSize0, buffer0, rsi0);
assert.propEqual(
res0.valuesStats,
zeroStats,
'Values should be equal');
assert.propEqual(
res0.rescaledStats,
zeroStats,
'Rescaled values should be equal');
});
/**
* Tests for {@link Image} hasValues and getOffsets.
*
* @function module:tests/image~getOffsets
*/
QUnit.test('Test hasValues and getOffsets.', function (assert) {
const size0 = 3;
const imgSize0 = new Size([size0, size0, 1]);
const imgSpacing0 = new Spacing([1, 1, 1]);
const imgOrigin0 = new Point3D(0, 0, 0);
const imgGeometry0 = new Geometry(imgOrigin0, imgSize0, imgSpacing0);
const buffer0 = [];
buffer0[0] = 1;
for (let i0 = 1; i0 < 2 * size0; ++i0) {
buffer0[i0] = 0;
}
for (let i1 = 2 * size0; i1 < size0 * size0; ++i1) {
buffer0[i1] = 1;
}
const theoOffset0 = [1, 2, 3, 4, 5];
const theoOffset1 = [0, 6, 7, 8];
// create the image
const image0 = new Image(imgGeometry0, buffer0);
// test hasValues
assert.ok(
arrayEquals(image0.hasValues([0]), [true]),
'Image has values 0'
);
assert.ok(
arrayEquals(image0.hasValues([1]), [true]),
'Image has values 1'
);
assert.ok(
arrayEquals(image0.hasValues([2]), [false]),
'Image has values 2'
);
assert.ok(
arrayEquals(image0.hasValues([0, 1]), [true, true]),
'Image has values 0,1'
);
assert.ok(
arrayEquals(image0.hasValues([0, 2]), [true, false]),
'Image has values 0,2'
);
assert.ok(
arrayEquals(image0.hasValues([2, 0]), [false, true]),
'Image has values 2,0'
);
assert.ok(
arrayEquals(image0.hasValues([0, 2, 1]), [true, false, true]),
'Image has values 0,2,1'
);
assert.ok(
arrayEquals(image0.hasValues([2, 1, 0]), [false, true, true]),
'Image has values 2,1,0'
);
// test offsets list
const off00 = image0.getOffsets(0);
const off01 = image0.getOffsets(1);
assert.ok(arrayEquals(off00, theoOffset0), 'Image offsets 0');
assert.ok(arrayEquals(off01, theoOffset1), 'Image offsets 1');
});