@jbrowse/core 2.0.0 → 2.1.2

package/util/color/index.js

@@ -1,28 +1,10 @@
 "use strict";
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
-});
-exports.contrastingTextColor = contrastingTextColor;
-exports.emphasize = emphasize;
-Object.defineProperty(exports, "isNamedColor", {
-  enumerable: true,
-  get: function get() {
-    return _cssColorsLevel.isNamedColor;
-  }
-});
-exports.makeContrasting = makeContrasting;
-Object.defineProperty(exports, "namedColorToHex", {
-  enumerable: true,
-  get: function get() {
-    return _cssColorsLevel.namedColorToHex;
-  }
-});
-
-var _styles = require("@mui/material/styles");
-
-var _cssColorsLevel = require("./cssColorsLevel4");
-
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.makeContrasting = exports.emphasize = exports.contrastingTextColor = exports.isNamedColor = exports.namedColorToHex = void 0;
+const styles_1 = require("@mui/material/styles");
+const cssColorsLevel4_1 = require("./cssColorsLevel4");
+Object.defineProperty(exports, "namedColorToHex", { enumerable: true, get: function () { return cssColorsLevel4_1.namedColorToHex; } });
+Object.defineProperty(exports, "isNamedColor", { enumerable: true, get: function () { return cssColorsLevel4_1.isNamedColor; } });
 /**
  * Algorithmically pick a contrasting text color that will
  * be visible on top of the given background color. Either
@@ -33,9 +15,10 @@ var _cssColorsLevel = require("./cssColorsLevel4");
  * @returns 'black' or 'white'
  */
 function contrastingTextColor(color) {
-  var luminance = getLuminance(color);
-  return luminance > 0.5 ? 'black' : 'white';
+    const luminance = getLuminance(color);
+    return luminance > 0.5 ? 'black' : 'white';
 }
+exports.contrastingTextColor = contrastingTextColor;
 /**
  * The relative brightness of any point in a color space,
  * normalized to 0 for darkest black and 1 for lightest white.
@@ -47,11 +30,9 @@ function contrastingTextColor(color) {
  *  hsl(), hsla(), or named color
  * @returns The relative brightness of the color in the range 0 - 1
  */
-
-
 function getLuminance(color) {
-  var convertedColor = (0, _cssColorsLevel.namedColorToHex)(color);
-  return (0, _styles.getLuminance)(convertedColor || color);
+    const convertedColor = (0, cssColorsLevel4_1.namedColorToHex)(color);
+    return (0, styles_1.getLuminance)(convertedColor || color);
 }
 /**
  * Darken or lighten a color, depending on its luminance.
@@ -63,29 +44,26 @@ function getLuminance(color) {
  * @param coefficient - multiplier in the range 0 - 1, defaults to 0.15
  * @returns A CSS color string. Hex input values are returned as rgb
  */
-
-
-function emphasize(color) {
-  var coefficient = arguments.length > 1 && arguments[1] !== undefined ? arguments[1] : 0.15;
-  var convertedColor = (0, _cssColorsLevel.namedColorToHex)(color);
-  return (0, _styles.emphasize)(convertedColor || color, coefficient);
+function emphasize(color, coefficient = 0.15) {
+    const convertedColor = (0, cssColorsLevel4_1.namedColorToHex)(color);
+    return (0, styles_1.emphasize)(convertedColor || color, coefficient);
 }
-
-function makeContrasting(foreground) {
-  var background = arguments.length > 1 && arguments[1] !== undefined ? arguments[1] : 'white';
-  var minContrastRatio = arguments.length > 2 && arguments[2] !== undefined ? arguments[2] : 3;
-  var convertedForeground = (0, _cssColorsLevel.namedColorToHex)(foreground) || foreground;
-  var convertedBackground = (0, _cssColorsLevel.namedColorToHex)(background) || background;
-  var backgroundLuminance = getLuminance(convertedBackground);
-  var contrastRatio = (0, _styles.getContrastRatio)(convertedForeground, convertedBackground);
-  var originalColor = convertedForeground;
-  var coefficient = 0.05;
-
-  while (contrastRatio < minContrastRatio) {
-    convertedForeground = backgroundLuminance > 0.5 ? (0, _styles.darken)(originalColor, coefficient) : (0, _styles.lighten)(originalColor, coefficient);
-    coefficient += 0.05;
-    contrastRatio = (0, _styles.getContrastRatio)(convertedForeground, convertedBackground);
-  }
-
-  return convertedForeground;
-}
+exports.emphasize = emphasize;
+function makeContrasting(foreground, background = 'white', minContrastRatio = 3) {
+    let convertedForeground = (0, cssColorsLevel4_1.namedColorToHex)(foreground) || foreground;
+    const convertedBackground = (0, cssColorsLevel4_1.namedColorToHex)(background) || background;
+    const backgroundLuminance = getLuminance(convertedBackground);
+    let contrastRatio = (0, styles_1.getContrastRatio)(convertedForeground, convertedBackground);
+    const originalColor = convertedForeground;
+    let coefficient = 0.05;
+    while (contrastRatio < minContrastRatio) {
+        convertedForeground =
+            backgroundLuminance > 0.5
+                ? (0, styles_1.darken)(originalColor, coefficient)
+                : (0, styles_1.lighten)(originalColor, coefficient);
+        coefficient += 0.05;
+        contrastRatio = (0, styles_1.getContrastRatio)(convertedForeground, convertedBackground);
+    }
+    return convertedForeground;
+}
+exports.makeContrasting = makeContrasting;

package/util/compositeMap.js

@@ -1,347 +1,63 @@
 "use strict";
-
-var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
-});
-exports.default = void 0;
-
-var _regenerator = _interopRequireDefault(require("@babel/runtime/regenerator"));
-
-var _classCallCheck2 = _interopRequireDefault(require("@babel/runtime/helpers/classCallCheck"));
-
-var _createClass2 = _interopRequireDefault(require("@babel/runtime/helpers/createClass"));
-
-function _createForOfIteratorHelper(o, allowArrayLike) { var it = typeof Symbol !== "undefined" && o[Symbol.iterator] || o["@@iterator"]; if (!it) { if (Array.isArray(o) || (it = _unsupportedIterableToArray(o)) || allowArrayLike && o && typeof o.length === "number") { if (it) o = it; var i = 0; var F = function F() {}; return { s: F, n: function n() { if (i >= o.length) return { done: true }; return { done: false, value: o[i++] }; }, e: function e(_e) { throw _e; }, f: F }; } throw new TypeError("Invalid attempt to iterate non-iterable instance.\nIn order to be iterable, non-array objects must have a [Symbol.iterator]() method."); } var normalCompletion = true, didErr = false, err; return { s: function s() { it = it.call(o); }, n: function n() { var step = it.next(); normalCompletion = step.done; return step; }, e: function e(_e2) { didErr = true; err = _e2; }, f: function f() { try { if (!normalCompletion && it.return != null) it.return(); } finally { if (didErr) throw err; } } }; }
-
-function _unsupportedIterableToArray(o, minLen) { if (!o) return; if (typeof o === "string") return _arrayLikeToArray(o, minLen); var n = Object.prototype.toString.call(o).slice(8, -1); if (n === "Object" && o.constructor) n = o.constructor.name; if (n === "Map" || n === "Set") return Array.from(o); if (n === "Arguments" || /^(?:Ui|I)nt(?:8|16|32)(?:Clamped)?Array$/.test(n)) return _arrayLikeToArray(o, minLen); }
-
-function _arrayLikeToArray(arr, len) { if (len == null || len > arr.length) len = arr.length; for (var i = 0, arr2 = new Array(len); i < len; i++) { arr2[i] = arr[i]; } return arr2; }
-
+Object.defineProperty(exports, "__esModule", { value: true });
 // takes an array or Map or Set (anything iterable with values()) of Maps
 // and lets you query them as one Map
-var CompositeMap = /*#__PURE__*/function (_Symbol$iterator) {
-  function CompositeMap(submaps) {
-    (0, _classCallCheck2.default)(this, CompositeMap);
-    this.submaps = submaps;
-  }
-
-  (0, _createClass2.default)(CompositeMap, [{
-    key: "has",
-    value: function has(id) {
-      var _iterator = _createForOfIteratorHelper(this.submaps.values()),
-          _step;
-
-      try {
-        for (_iterator.s(); !(_step = _iterator.n()).done;) {
-          var submap = _step.value;
-
-          if (submap.has(id)) {
-            return true;
-          }
+class CompositeMap {
+    constructor(submaps) {
+        this.submaps = submaps;
+    }
+    has(id) {
+        for (const submap of this.submaps.values()) {
+            if (submap.has(id)) {
+                return true;
+            }
         }
-      } catch (err) {
-        _iterator.e(err);
-      } finally {
-        _iterator.f();
-      }
-
-      return false;
+        return false;
     }
-  }, {
-    key: "get",
-    value: function get(id) {
-      var _iterator2 = _createForOfIteratorHelper(this.submaps.values()),
-          _step2;
-
-      try {
-        for (_iterator2.s(); !(_step2 = _iterator2.n()).done;) {
-          var submap = _step2.value;
-
-          if (submap.has(id)) {
-            return submap.get(id);
-          }
+    get(id) {
+        for (const submap of this.submaps.values()) {
+            if (submap.has(id)) {
+                return submap.get(id);
+            }
         }
-      } catch (err) {
-        _iterator2.e(err);
-      } finally {
-        _iterator2.f();
-      }
-
-      return undefined;
+        return undefined;
     }
-  }, {
-    key: "values",
-    value: /*#__PURE__*/_regenerator.default.mark(function values() {
-      var _iterator3, _step3, key;
-
-      return _regenerator.default.wrap(function values$(_context) {
-        while (1) {
-          switch (_context.prev = _context.next) {
-            case 0:
-              _iterator3 = _createForOfIteratorHelper(this.keys());
-              _context.prev = 1;
-
-              _iterator3.s();
-
-            case 3:
-              if ((_step3 = _iterator3.n()).done) {
-                _context.next = 9;
-                break;
-              }
-
-              key = _step3.value;
-              _context.next = 7;
-              return this.get(key);
-
-            case 7:
-              _context.next = 3;
-              break;
-
-            case 9:
-              _context.next = 14;
-              break;
-
-            case 11:
-              _context.prev = 11;
-              _context.t0 = _context["catch"](1);
-
-              _iterator3.e(_context.t0);
-
-            case 14:
-              _context.prev = 14;
-
-              _iterator3.f();
-
-              return _context.finish(14);
-
-            case 17:
-            case "end":
-              return _context.stop();
-          }
+    *values() {
+        for (const key of this.keys()) {
+            yield this.get(key);
         }
-      }, values, this, [[1, 11, 14, 17]]);
-    })
-  }, {
-    key: "keys",
-    value: /*#__PURE__*/_regenerator.default.mark(function keys() {
-      var keys, _iterator4, _step4, submap, _iterator6, _step6, key, _iterator5, _step5, _key;
-
-      return _regenerator.default.wrap(function keys$(_context2) {
-        while (1) {
-          switch (_context2.prev = _context2.next) {
-            case 0:
-              keys = new Set();
-              _iterator4 = _createForOfIteratorHelper(this.submaps.values());
-
-              try {
-                for (_iterator4.s(); !(_step4 = _iterator4.n()).done;) {
-                  submap = _step4.value;
-                  _iterator6 = _createForOfIteratorHelper(submap.keys());
-
-                  try {
-                    for (_iterator6.s(); !(_step6 = _iterator6.n()).done;) {
-                      key = _step6.value;
-                      keys.add(key);
-                    }
-                  } catch (err) {
-                    _iterator6.e(err);
-                  } finally {
-                    _iterator6.f();
-                  }
-                }
-              } catch (err) {
-                _iterator4.e(err);
-              } finally {
-                _iterator4.f();
-              }
-
-              _iterator5 = _createForOfIteratorHelper(keys);
-              _context2.prev = 4;
-
-              _iterator5.s();
-
-            case 6:
-              if ((_step5 = _iterator5.n()).done) {
-                _context2.next = 12;
-                break;
-              }
-
-              _key = _step5.value;
-              _context2.next = 10;
-              return _key;
-
-            case 10:
-              _context2.next = 6;
-              break;
-
-            case 12:
-              _context2.next = 17;
-              break;
-
-            case 14:
-              _context2.prev = 14;
-              _context2.t0 = _context2["catch"](4);
-
-              _iterator5.e(_context2.t0);
-
-            case 17:
-              _context2.prev = 17;
-
-              _iterator5.f();
-
-              return _context2.finish(17);
-
-            case 20:
-            case "end":
-              return _context2.stop();
-          }
+    }
+    *keys() {
+        const keys = new Set();
+        for (const submap of this.submaps.values()) {
+            for (const key of submap.keys()) {
+                keys.add(key);
+            }
         }
-      }, keys, this, [[4, 14, 17, 20]]);
-    })
-  }, {
-    key: "find",
-    value: function find(f) {
-      var _iterator7 = _createForOfIteratorHelper(this.submaps.values()),
-          _step7;
-
-      try {
-        for (_iterator7.s(); !(_step7 = _iterator7.n()).done;) {
-          var submap = _step7.value;
-
-          var _iterator8 = _createForOfIteratorHelper(submap.values()),
-              _step8;
-
-          try {
-            for (_iterator8.s(); !(_step8 = _iterator8.n()).done;) {
-              var value = _step8.value;
-              var found = f(value);
-
-              if (found) {
-                return value;
-              }
+        for (const key of keys) {
+            yield key;
+        }
+    }
+    find(f) {
+        for (const submap of this.submaps.values()) {
+            for (const value of submap.values()) {
+                const found = f(value);
+                if (found) {
+                    return value;
+                }
             }
-          } catch (err) {
-            _iterator8.e(err);
-          } finally {
-            _iterator8.f();
-          }
         }
-      } catch (err) {
-        _iterator7.e(err);
-      } finally {
-        _iterator7.f();
-      }
-
-      return undefined;
+        return undefined;
     }
-  }, {
-    key: _Symbol$iterator,
-    value: /*#__PURE__*/_regenerator.default.mark(function value() {
-      var _iterator9, _step9, key;
-
-      return _regenerator.default.wrap(function value$(_context3) {
-        while (1) {
-          switch (_context3.prev = _context3.next) {
-            case 0:
-              _iterator9 = _createForOfIteratorHelper(this.keys());
-              _context3.prev = 1;
-
-              _iterator9.s();
-
-            case 3:
-              if ((_step9 = _iterator9.n()).done) {
-                _context3.next = 9;
-                break;
-              }
-
-              key = _step9.value;
-              _context3.next = 7;
-              return [key, this.get(key)];
-
-            case 7:
-              _context3.next = 3;
-              break;
-
-            case 9:
-              _context3.next = 14;
-              break;
-
-            case 11:
-              _context3.prev = 11;
-              _context3.t0 = _context3["catch"](1);
-
-              _iterator9.e(_context3.t0);
-
-            case 14:
-              _context3.prev = 14;
-
-              _iterator9.f();
-
-              return _context3.finish(14);
-
-            case 17:
-            case "end":
-              return _context3.stop();
-          }
+    *[Symbol.iterator]() {
+        for (const key of this.keys()) {
+            yield [key, this.get(key)];
         }
-      }, value, this, [[1, 11, 14, 17]]);
-    })
-  }, {
-    key: "entries",
-    value: /*#__PURE__*/_regenerator.default.mark(function entries() {
-      var _iterator10, _step10, k;
-
-      return _regenerator.default.wrap(function entries$(_context4) {
-        while (1) {
-          switch (_context4.prev = _context4.next) {
-            case 0:
-              _iterator10 = _createForOfIteratorHelper(this.keys());
-              _context4.prev = 1;
-
-              _iterator10.s();
-
-            case 3:
-              if ((_step10 = _iterator10.n()).done) {
-                _context4.next = 9;
-                break;
-              }
-
-              k = _step10.value;
-              _context4.next = 7;
-              return [k, this.get(k)];
-
-            case 7:
-              _context4.next = 3;
-              break;
-
-            case 9:
-              _context4.next = 14;
-              break;
-
-            case 11:
-              _context4.prev = 11;
-              _context4.t0 = _context4["catch"](1);
-
-              _iterator10.e(_context4.t0);
-
-            case 14:
-              _context4.prev = 14;
-
-              _iterator10.f();
-
-              return _context4.finish(14);
-
-            case 17:
-            case "end":
-              return _context4.stop();
-          }
+    }
+    *entries() {
+        for (const k of this.keys()) {
+            yield [k, this.get(k)];
         }
-      }, entries, this, [[1, 11, 14, 17]]);
-    })
-  }]);
-  return CompositeMap;
-}(Symbol.iterator);
-
-exports.default = CompositeMap;
+    }
+}
+exports.default = CompositeMap;

package/util/formatFastaStrings.js

@@ -1,11 +1,6 @@
 "use strict";
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
-});
-exports.formatFastaLines = formatFastaLines;
-exports.formatSeqFasta = formatSeqFasta;
-
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.formatSeqFasta = exports.formatFastaLines = void 0;
 /**
  * Returns sequence with new line every 80 characters
  * ref https://stackoverflow.com/a/51506718/2129219
@@ -14,18 +9,18 @@ exports.formatSeqFasta = formatSeqFasta;
  * @returns formated sequence string
  */
 function formatFastaLines(seqString) {
-  return seqString.replace(/(.{1,80})/g, '$1\n').trimEnd();
+    return seqString.replace(/(.{1,80})/g, '$1\n').trimEnd();
 }
+exports.formatFastaLines = formatFastaLines;
 /**
  * Formats the sequences chunks into Fasta format
  *
  * @param chunks - array of seq chunks of the form `{ header: string, seq: string }`
  * @returns formatted sequence in fasta format
  */
-
-
 function formatSeqFasta(chunks) {
-  return chunks.map(function (chunk) {
-    return ">".concat(chunk.header, "\n").concat(formatFastaLines(chunk.seq));
-  }).join('\n');
-}
+    return chunks
+        .map(chunk => `>${chunk.header}\n${formatFastaLines(chunk.seq)}`)
+        .join('\n');
+}
+exports.formatSeqFasta = formatSeqFasta;

package/util/idMaker.js

@@ -1,37 +1,24 @@
 "use strict";
-
-var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
-
-Object.defineProperty(exports, "__esModule", {
-  value: true
-});
-exports.default = idMaker;
-
-var _typeof2 = _interopRequireDefault(require("@babel/runtime/helpers/typeof"));
-
-var _ = require("./");
-
+Object.defineProperty(exports, "__esModule", { value: true });
+const _1 = require("./");
 // generates a short "id fingerprint" from the config passed to the base
 // feature adapter by recursively enumerating props, but if config is too big
 // does not process entire config (FromConfigAdapter for example can be large)
 // eslint-disable-next-line @typescript-eslint/no-explicit-any
-function idMaker(args) {
-  var id = arguments.length > 1 && arguments[1] !== undefined ? arguments[1] : '';
-  var keys = Object.keys(args);
-
-  for (var i = 0; i < keys.length; i++) {
-    var key = keys[i];
-
-    if (id.length > 5000) {
-      break;
-    }
-
-    if ((0, _typeof2.default)(args[key]) === 'object' && args[key]) {
-      id += idMaker(args[key], id);
-    } else {
-      id += "".concat(key, "-").concat(args[key], ";");
+function idMaker(args, id = '') {
+    const keys = Object.keys(args);
+    for (let i = 0; i < keys.length; i++) {
+        const key = keys[i];
+        if (id.length > 5000) {
+            break;
+        }
+        if (typeof args[key] === 'object' && args[key]) {
+            id += idMaker(args[key], id);
+        }
+        else {
+            id += `${key}-${args[key]};`;
+        }
     }
-  }
-
-  return (0, _.hashCode)(id);
-}
+    return (0, _1.hashCode)(id);
+}
+exports.default = idMaker;