three-stdlib
Version:
stand-alone library of threejs examples
404 lines (403 loc) • 11.8 kB
JavaScript
;
Object.defineProperty(exports, Symbol.toStringTag, { value: "Module" });
const THREE = require("three");
const fflate = require("fflate");
const Volume = require("../misc/Volume.cjs");
class NRRDLoader extends THREE.Loader {
constructor(manager) {
super(manager);
}
load(url, onLoad, onProgress, onError) {
const scope = this;
const loader = new THREE.FileLoader(scope.manager);
loader.setPath(scope.path);
loader.setResponseType("arraybuffer");
loader.setRequestHeader(scope.requestHeader);
loader.setWithCredentials(scope.withCredentials);
loader.load(
url,
function(data) {
try {
onLoad(scope.parse(data));
} catch (e) {
if (onError) {
onError(e);
} else {
console.error(e);
}
scope.manager.itemError(url);
}
},
onProgress,
onError
);
}
parse(data) {
let _data = data;
let _dataPointer = 0;
const _nativeLittleEndian = new Int8Array(new Int16Array([1]).buffer)[0] > 0;
const _littleEndian = true;
const headerObject = {};
function scan(type, chunks) {
if (chunks === void 0 || chunks === null) {
chunks = 1;
}
let _chunkSize = 1;
let _array_type = Uint8Array;
switch (type) {
case "uchar":
break;
case "schar":
_array_type = Int8Array;
break;
case "ushort":
_array_type = Uint16Array;
_chunkSize = 2;
break;
case "sshort":
_array_type = Int16Array;
_chunkSize = 2;
break;
case "uint":
_array_type = Uint32Array;
_chunkSize = 4;
break;
case "sint":
_array_type = Int32Array;
_chunkSize = 4;
break;
case "float":
_array_type = Float32Array;
_chunkSize = 4;
break;
case "complex":
_array_type = Float64Array;
_chunkSize = 8;
break;
case "double":
_array_type = Float64Array;
_chunkSize = 8;
break;
}
let _bytes2 = new _array_type(_data.slice(_dataPointer, _dataPointer += chunks * _chunkSize));
if (_nativeLittleEndian != _littleEndian) {
_bytes2 = flipEndianness(_bytes2, _chunkSize);
}
if (chunks == 1) {
return _bytes2[0];
}
return _bytes2;
}
function flipEndianness(array, chunkSize) {
const u8 = new Uint8Array(array.buffer, array.byteOffset, array.byteLength);
for (let i2 = 0; i2 < array.byteLength; i2 += chunkSize) {
for (let j = i2 + chunkSize - 1, k = i2; j > k; j--, k++) {
const tmp = u8[k];
u8[k] = u8[j];
u8[j] = tmp;
}
}
return array;
}
function parseHeader(header) {
let data2, field, fn, i2, l, m, _i, _len;
const lines = header.split(/\r?\n/);
for (_i = 0, _len = lines.length; _i < _len; _i++) {
l = lines[_i];
if (l.match(/NRRD\d+/)) {
headerObject.isNrrd = true;
} else if (l.match(/^#/))
;
else if (m = l.match(/(.*):(.*)/)) {
field = m[1].trim();
data2 = m[2].trim();
fn = _fieldFunctions[field];
if (fn) {
fn.call(headerObject, data2);
} else {
headerObject[field] = data2;
}
}
}
if (!headerObject.isNrrd) {
throw new Error("Not an NRRD file");
}
if (headerObject.encoding === "bz2" || headerObject.encoding === "bzip2") {
throw new Error("Bzip is not supported");
}
if (!headerObject.vectors) {
headerObject.vectors = [new THREE.Vector3(1, 0, 0), new THREE.Vector3(0, 1, 0), new THREE.Vector3(0, 0, 1)];
if (headerObject.spacings) {
for (i2 = 0; i2 <= 2; i2++) {
if (!isNaN(headerObject.spacings[i2])) {
headerObject.vectors[i2].multiplyScalar(headerObject.spacings[i2]);
}
}
}
}
}
function parseDataAsText(data2, start, end) {
let number = "";
start = start || 0;
end = end || data2.length;
let value;
const lengthOfTheResult = headerObject.sizes.reduce(function(previous, current) {
return previous * current;
}, 1);
let base = 10;
if (headerObject.encoding === "hex") {
base = 16;
}
const result = new headerObject.__array(lengthOfTheResult);
let resultIndex = 0;
let parsingFunction = parseInt;
if (headerObject.__array === Float32Array || headerObject.__array === Float64Array) {
parsingFunction = parseFloat;
}
for (let i2 = start; i2 < end; i2++) {
value = data2[i2];
if ((value < 9 || value > 13) && value !== 32) {
number += String.fromCharCode(value);
} else {
if (number !== "") {
result[resultIndex] = parsingFunction(number, base);
resultIndex++;
}
number = "";
}
}
if (number !== "") {
result[resultIndex] = parsingFunction(number, base);
resultIndex++;
}
return result;
}
const _bytes = scan("uchar", data.byteLength);
const _length = _bytes.length;
let _header = null;
let _data_start = 0;
let i;
for (i = 1; i < _length; i++) {
if (_bytes[i - 1] == 10 && _bytes[i] == 10) {
_header = this.parseChars(_bytes, 0, i - 2);
_data_start = i + 1;
break;
}
}
parseHeader(_header);
_data = _bytes.subarray(_data_start);
if (headerObject.encoding.substring(0, 2) === "gz") {
_data = fflate.gunzipSync(new Uint8Array(_data));
} else if (headerObject.encoding === "ascii" || headerObject.encoding === "text" || headerObject.encoding === "txt" || headerObject.encoding === "hex") {
_data = parseDataAsText(_data);
} else if (headerObject.encoding === "raw") {
const _copy = new Uint8Array(_data.length);
for (let i2 = 0; i2 < _data.length; i2++) {
_copy[i2] = _data[i2];
}
_data = _copy;
}
_data = _data.buffer;
const volume = new Volume.Volume();
volume.header = headerObject;
volume.data = new headerObject.__array(_data);
const min_max = volume.computeMinMax();
const min = min_max[0];
const max = min_max[1];
volume.windowLow = min;
volume.windowHigh = max;
volume.dimensions = [headerObject.sizes[0], headerObject.sizes[1], headerObject.sizes[2]];
volume.xLength = volume.dimensions[0];
volume.yLength = volume.dimensions[1];
volume.zLength = volume.dimensions[2];
const spacingX = new THREE.Vector3(
headerObject.vectors[0][0],
headerObject.vectors[0][1],
headerObject.vectors[0][2]
).length();
const spacingY = new THREE.Vector3(
headerObject.vectors[1][0],
headerObject.vectors[1][1],
headerObject.vectors[1][2]
).length();
const spacingZ = new THREE.Vector3(
headerObject.vectors[2][0],
headerObject.vectors[2][1],
headerObject.vectors[2][2]
).length();
volume.spacing = [spacingX, spacingY, spacingZ];
volume.matrix = new THREE.Matrix4();
let _spaceX = 1;
let _spaceY = 1;
const _spaceZ = 1;
if (headerObject.space == "left-posterior-superior") {
_spaceX = -1;
_spaceY = -1;
} else if (headerObject.space === "left-anterior-superior") {
_spaceX = -1;
}
if (!headerObject.vectors) {
volume.matrix.set(_spaceX, 0, 0, 0, 0, _spaceY, 0, 0, 0, 0, _spaceZ, 0, 0, 0, 0, 1);
} else {
const v = headerObject.vectors;
volume.matrix.set(
_spaceX * v[0][0],
_spaceX * v[1][0],
_spaceX * v[2][0],
0,
_spaceY * v[0][1],
_spaceY * v[1][1],
_spaceY * v[2][1],
0,
_spaceZ * v[0][2],
_spaceZ * v[1][2],
_spaceZ * v[2][2],
0,
0,
0,
0,
1
);
}
volume.inverseMatrix = new THREE.Matrix4();
volume.inverseMatrix.copy(volume.matrix).invert();
volume.RASDimensions = new THREE.Vector3(volume.xLength, volume.yLength, volume.zLength).applyMatrix4(volume.matrix).round().toArray().map(Math.abs);
if (volume.lowerThreshold === -Infinity) {
volume.lowerThreshold = min;
}
if (volume.upperThreshold === Infinity) {
volume.upperThreshold = max;
}
return volume;
}
parseChars(array, start, end) {
if (start === void 0) {
start = 0;
}
if (end === void 0) {
end = array.length;
}
let output = "";
let i = 0;
for (i = start; i < end; ++i) {
output += String.fromCharCode(array[i]);
}
return output;
}
}
const _fieldFunctions = {
type: function(data) {
switch (data) {
case "uchar":
case "unsigned char":
case "uint8":
case "uint8_t":
this.__array = Uint8Array;
break;
case "signed char":
case "int8":
case "int8_t":
this.__array = Int8Array;
break;
case "short":
case "short int":
case "signed short":
case "signed short int":
case "int16":
case "int16_t":
this.__array = Int16Array;
break;
case "ushort":
case "unsigned short":
case "unsigned short int":
case "uint16":
case "uint16_t":
this.__array = Uint16Array;
break;
case "int":
case "signed int":
case "int32":
case "int32_t":
this.__array = Int32Array;
break;
case "uint":
case "unsigned int":
case "uint32":
case "uint32_t":
this.__array = Uint32Array;
break;
case "float":
this.__array = Float32Array;
break;
case "double":
this.__array = Float64Array;
break;
default:
throw new Error("Unsupported NRRD data type: " + data);
}
return this.type = data;
},
endian: function(data) {
return this.endian = data;
},
encoding: function(data) {
return this.encoding = data;
},
dimension: function(data) {
return this.dim = parseInt(data, 10);
},
sizes: function(data) {
let i;
return this.sizes = function() {
const _ref = data.split(/\s+/);
const _results = [];
for (let _i = 0, _len = _ref.length; _i < _len; _i++) {
i = _ref[_i];
_results.push(parseInt(i, 10));
}
return _results;
}();
},
space: function(data) {
return this.space = data;
},
"space origin": function(data) {
return this.space_origin = data.split("(")[1].split(")")[0].split(",");
},
"space directions": function(data) {
let f, v;
const parts = data.match(/\(.*?\)/g);
return this.vectors = function() {
const _results = [];
for (let _i = 0, _len = parts.length; _i < _len; _i++) {
v = parts[_i];
_results.push(
function() {
const _ref = v.slice(1, -1).split(/,/);
const _results2 = [];
for (let _j = 0, _len2 = _ref.length; _j < _len2; _j++) {
f = _ref[_j];
_results2.push(parseFloat(f));
}
return _results2;
}()
);
}
return _results;
}();
},
spacings: function(data) {
let f;
const parts = data.split(/\s+/);
return this.spacings = function() {
const _results = [];
for (let _i = 0, _len = parts.length; _i < _len; _i++) {
f = parts[_i];
_results.push(parseFloat(f));
}
return _results;
}();
}
};
exports.NRRDLoader = NRRDLoader;
//# sourceMappingURL=NRRDLoader.cjs.map