@jbrowse/plugin-gtf 1.7.0 → 1.7.1

package/dist/plugin-gtf.esm.js

@@ -1,1297 +0,0 @@
-import AdapterType from '@jbrowse/core/pluggableElementTypes/AdapterType';
-import Plugin from '@jbrowse/core/Plugin';
-import { ConfigurationSchema, readConfObject } from '@jbrowse/core/configuration';
-import { getFileName } from '@jbrowse/core/util/tracks';
-import { BaseFeatureDataAdapter } from '@jbrowse/core/data_adapters/BaseAdapter';
-import { openLocation } from '@jbrowse/core/util/io';
-import { ObservableCreate } from '@jbrowse/core/util/rxjs';
-import IntervalTree from '@flatten-js/interval-tree';
-import SimpleFeature from '@jbrowse/core/util/simpleFeature';
-import { unzip } from '@gmod/bgzf-filehandle';
-import gtf from '@gmod/gtf';
-
-function ownKeys(object, enumerableOnly) {
-  var keys = Object.keys(object);
-
-  if (Object.getOwnPropertySymbols) {
-    var symbols = Object.getOwnPropertySymbols(object);
-    enumerableOnly && (symbols = symbols.filter(function (sym) {
-      return Object.getOwnPropertyDescriptor(object, sym).enumerable;
-    })), keys.push.apply(keys, symbols);
-  }
-
-  return keys;
-}
-
-function _objectSpread2(target) {
-  for (var i = 1; i < arguments.length; i++) {
-    var source = null != arguments[i] ? arguments[i] : {};
-    i % 2 ? ownKeys(Object(source), !0).forEach(function (key) {
-      _defineProperty(target, key, source[key]);
-    }) : Object.getOwnPropertyDescriptors ? Object.defineProperties(target, Object.getOwnPropertyDescriptors(source)) : ownKeys(Object(source)).forEach(function (key) {
-      Object.defineProperty(target, key, Object.getOwnPropertyDescriptor(source, key));
-    });
-  }
-
-  return target;
-}
-
-function asyncGeneratorStep(gen, resolve, reject, _next, _throw, key, arg) {
-  try {
-    var info = gen[key](arg);
-    var value = info.value;
-  } catch (error) {
-    reject(error);
-    return;
-  }
-
-  if (info.done) {
-    resolve(value);
-  } else {
-    Promise.resolve(value).then(_next, _throw);
-  }
-}
-
-function _asyncToGenerator(fn) {
-  return function () {
-    var self = this,
-        args = arguments;
-    return new Promise(function (resolve, reject) {
-      var gen = fn.apply(self, args);
-
-      function _next(value) {
-        asyncGeneratorStep(gen, resolve, reject, _next, _throw, "next", value);
-      }
-
-      function _throw(err) {
-        asyncGeneratorStep(gen, resolve, reject, _next, _throw, "throw", err);
-      }
-
-      _next(undefined);
-    });
-  };
-}
-
-function _classCallCheck(instance, Constructor) {
-  if (!(instance instanceof Constructor)) {
-    throw new TypeError("Cannot call a class as a function");
-  }
-}
-
-function _defineProperties(target, props) {
-  for (var i = 0; i < props.length; i++) {
-    var descriptor = props[i];
-    descriptor.enumerable = descriptor.enumerable || false;
-    descriptor.configurable = true;
-    if ("value" in descriptor) descriptor.writable = true;
-    Object.defineProperty(target, descriptor.key, descriptor);
-  }
-}
-
-function _createClass(Constructor, protoProps, staticProps) {
-  if (protoProps) _defineProperties(Constructor.prototype, protoProps);
-  if (staticProps) _defineProperties(Constructor, staticProps);
-  Object.defineProperty(Constructor, "prototype", {
-    writable: false
-  });
-  return Constructor;
-}
-
-function _defineProperty(obj, key, value) {
-  if (key in obj) {
-    Object.defineProperty(obj, key, {
-      value: value,
-      enumerable: true,
-      configurable: true,
-      writable: true
-    });
-  } else {
-    obj[key] = value;
-  }
-
-  return obj;
-}
-
-function _inherits(subClass, superClass) {
-  if (typeof superClass !== "function" && superClass !== null) {
-    throw new TypeError("Super expression must either be null or a function");
-  }
-
-  subClass.prototype = Object.create(superClass && superClass.prototype, {
-    constructor: {
-      value: subClass,
-      writable: true,
-      configurable: true
-    }
-  });
-  Object.defineProperty(subClass, "prototype", {
-    writable: false
-  });
-  if (superClass) _setPrototypeOf(subClass, superClass);
-}
-
-function _getPrototypeOf(o) {
-  _getPrototypeOf = Object.setPrototypeOf ? Object.getPrototypeOf : function _getPrototypeOf(o) {
-    return o.__proto__ || Object.getPrototypeOf(o);
-  };
-  return _getPrototypeOf(o);
-}
-
-function _setPrototypeOf(o, p) {
-  _setPrototypeOf = Object.setPrototypeOf || function _setPrototypeOf(o, p) {
-    o.__proto__ = p;
-    return o;
-  };
-
-  return _setPrototypeOf(o, p);
-}
-
-function _isNativeReflectConstruct() {
-  if (typeof Reflect === "undefined" || !Reflect.construct) return false;
-  if (Reflect.construct.sham) return false;
-  if (typeof Proxy === "function") return true;
-
-  try {
-    Boolean.prototype.valueOf.call(Reflect.construct(Boolean, [], function () {}));
-    return true;
-  } catch (e) {
-    return false;
-  }
-}
-
-function _assertThisInitialized(self) {
-  if (self === void 0) {
-    throw new ReferenceError("this hasn't been initialised - super() hasn't been called");
-  }
-
-  return self;
-}
-
-function _possibleConstructorReturn(self, call) {
-  if (call && (typeof call === "object" || typeof call === "function")) {
-    return call;
-  } else if (call !== void 0) {
-    throw new TypeError("Derived constructors may only return object or undefined");
-  }
-
-  return _assertThisInitialized(self);
-}
-
-function _createSuper(Derived) {
-  var hasNativeReflectConstruct = _isNativeReflectConstruct();
-
-  return function _createSuperInternal() {
-    var Super = _getPrototypeOf(Derived),
-        result;
-
-    if (hasNativeReflectConstruct) {
-      var NewTarget = _getPrototypeOf(this).constructor;
-
-      result = Reflect.construct(Super, arguments, NewTarget);
-    } else {
-      result = Super.apply(this, arguments);
-    }
-
-    return _possibleConstructorReturn(this, result);
-  };
-}
-
-var gtfAdapterConfigSchema = /*#__PURE__*/ConfigurationSchema('GtfAdapter', {
-  gtfLocation: {
-    type: 'fileLocation',
-    defaultValue: {
-      uri: '/path/to/my.gtf',
-      locationType: 'UriLocation'
-    }
-  }
-}, {
-  explicitlyTyped: true
-});
-
-var GtfPlugin = /*#__PURE__*/function (_Plugin) {
-  _inherits(GtfPlugin, _Plugin);
-
-  var _super = /*#__PURE__*/_createSuper(GtfPlugin);
-
-  function GtfPlugin() {
-    var _this;
-
-    _classCallCheck(this, GtfPlugin);
-
-    _this = _super.apply(this, arguments);
-    _this.name = 'GTFPlugin';
-    return _this;
-  }
-
-  _createClass(GtfPlugin, [{
-    key: "install",
-    value: function install(pluginManager) {
-      pluginManager.addAdapterType(function () {
-        return new AdapterType({
-          name: 'GtfAdapter',
-          configSchema: gtfAdapterConfigSchema,
-          getAdapterClass: function getAdapterClass() {
-            return Promise.resolve().then(function () { return GtfAdapter; }).then(function (r) {
-              return r["default"];
-            });
-          }
-        });
-      });
-      pluginManager.addToExtensionPoint('Core-guessAdapterForLocation', function (adapterGuesser) {
-        return function (file, index, adapterHint) {
-          var regexGuess = /\.gtf(\.gz)?$/i;
-          var adapterName = 'GtfAdapter';
-          var fileName = getFileName(file);
-          var obj = {
-            type: adapterName,
-            gtfLocation: file
-          };
-
-          if (regexGuess.test(fileName) && !adapterHint) {
-            return obj;
-          } else if (adapterHint === adapterName) {
-            return obj;
-          }
-
-          return adapterGuesser(file, index, adapterHint);
-        };
-      });
-    }
-  }]);
-
-  return GtfPlugin;
-}(Plugin);
-
-function createCommonjsModule(fn, module) {
-	return module = { exports: {} }, fn(module, module.exports), module.exports;
-}
-
-var runtime_1 = /*#__PURE__*/createCommonjsModule(function (module) {
-  /**
-   * Copyright (c) 2014-present, Facebook, Inc.
-   *
-   * This source code is licensed under the MIT license found in the
-   * LICENSE file in the root directory of this source tree.
-   */
-  var runtime = function (exports) {
-
-    var Op = Object.prototype;
-    var hasOwn = Op.hasOwnProperty;
-    var undefined$1; // More compressible than void 0.
-
-    var $Symbol = typeof Symbol === "function" ? Symbol : {};
-    var iteratorSymbol = $Symbol.iterator || "@@iterator";
-    var asyncIteratorSymbol = $Symbol.asyncIterator || "@@asyncIterator";
-    var toStringTagSymbol = $Symbol.toStringTag || "@@toStringTag";
-
-    function define(obj, key, value) {
-      Object.defineProperty(obj, key, {
-        value: value,
-        enumerable: true,
-        configurable: true,
-        writable: true
-      });
-      return obj[key];
-    }
-
-    try {
-      // IE 8 has a broken Object.defineProperty that only works on DOM objects.
-      define({}, "");
-    } catch (err) {
-      define = function define(obj, key, value) {
-        return obj[key] = value;
-      };
-    }
-
-    function wrap(innerFn, outerFn, self, tryLocsList) {
-      // If outerFn provided and outerFn.prototype is a Generator, then outerFn.prototype instanceof Generator.
-      var protoGenerator = outerFn && outerFn.prototype instanceof Generator ? outerFn : Generator;
-      var generator = Object.create(protoGenerator.prototype);
-      var context = new Context(tryLocsList || []); // The ._invoke method unifies the implementations of the .next,
-      // .throw, and .return methods.
-
-      generator._invoke = makeInvokeMethod(innerFn, self, context);
-      return generator;
-    }
-
-    exports.wrap = wrap; // Try/catch helper to minimize deoptimizations. Returns a completion
-    // record like context.tryEntries[i].completion. This interface could
-    // have been (and was previously) designed to take a closure to be
-    // invoked without arguments, but in all the cases we care about we
-    // already have an existing method we want to call, so there's no need
-    // to create a new function object. We can even get away with assuming
-    // the method takes exactly one argument, since that happens to be true
-    // in every case, so we don't have to touch the arguments object. The
-    // only additional allocation required is the completion record, which
-    // has a stable shape and so hopefully should be cheap to allocate.
-
-    function tryCatch(fn, obj, arg) {
-      try {
-        return {
-          type: "normal",
-          arg: fn.call(obj, arg)
-        };
-      } catch (err) {
-        return {
-          type: "throw",
-          arg: err
-        };
-      }
-    }
-
-    var GenStateSuspendedStart = "suspendedStart";
-    var GenStateSuspendedYield = "suspendedYield";
-    var GenStateExecuting = "executing";
-    var GenStateCompleted = "completed"; // Returning this object from the innerFn has the same effect as
-    // breaking out of the dispatch switch statement.
-
-    var ContinueSentinel = {}; // Dummy constructor functions that we use as the .constructor and
-    // .constructor.prototype properties for functions that return Generator
-    // objects. For full spec compliance, you may wish to configure your
-    // minifier not to mangle the names of these two functions.
-
-    function Generator() {}
-
-    function GeneratorFunction() {}
-
-    function GeneratorFunctionPrototype() {} // This is a polyfill for %IteratorPrototype% for environments that
-    // don't natively support it.
-
-
-    var IteratorPrototype = {};
-    define(IteratorPrototype, iteratorSymbol, function () {
-      return this;
-    });
-    var getProto = Object.getPrototypeOf;
-    var NativeIteratorPrototype = getProto && getProto(getProto(values([])));
-
-    if (NativeIteratorPrototype && NativeIteratorPrototype !== Op && hasOwn.call(NativeIteratorPrototype, iteratorSymbol)) {
-      // This environment has a native %IteratorPrototype%; use it instead
-      // of the polyfill.
-      IteratorPrototype = NativeIteratorPrototype;
-    }
-
-    var Gp = GeneratorFunctionPrototype.prototype = Generator.prototype = Object.create(IteratorPrototype);
-    GeneratorFunction.prototype = GeneratorFunctionPrototype;
-    define(Gp, "constructor", GeneratorFunctionPrototype);
-    define(GeneratorFunctionPrototype, "constructor", GeneratorFunction);
-    GeneratorFunction.displayName = define(GeneratorFunctionPrototype, toStringTagSymbol, "GeneratorFunction"); // Helper for defining the .next, .throw, and .return methods of the
-    // Iterator interface in terms of a single ._invoke method.
-
-    function defineIteratorMethods(prototype) {
-      ["next", "throw", "return"].forEach(function (method) {
-        define(prototype, method, function (arg) {
-          return this._invoke(method, arg);
-        });
-      });
-    }
-
-    exports.isGeneratorFunction = function (genFun) {
-      var ctor = typeof genFun === "function" && genFun.constructor;
-      return ctor ? ctor === GeneratorFunction || // For the native GeneratorFunction constructor, the best we can
-      // do is to check its .name property.
-      (ctor.displayName || ctor.name) === "GeneratorFunction" : false;
-    };
-
-    exports.mark = function (genFun) {
-      if (Object.setPrototypeOf) {
-        Object.setPrototypeOf(genFun, GeneratorFunctionPrototype);
-      } else {
-        genFun.__proto__ = GeneratorFunctionPrototype;
-        define(genFun, toStringTagSymbol, "GeneratorFunction");
-      }
-
-      genFun.prototype = Object.create(Gp);
-      return genFun;
-    }; // Within the body of any async function, `await x` is transformed to
-    // `yield regeneratorRuntime.awrap(x)`, so that the runtime can test
-    // `hasOwn.call(value, "__await")` to determine if the yielded value is
-    // meant to be awaited.
-
-
-    exports.awrap = function (arg) {
-      return {
-        __await: arg
-      };
-    };
-
-    function AsyncIterator(generator, PromiseImpl) {
-      function invoke(method, arg, resolve, reject) {
-        var record = tryCatch(generator[method], generator, arg);
-
-        if (record.type === "throw") {
-          reject(record.arg);
-        } else {
-          var result = record.arg;
-          var value = result.value;
-
-          if (value && typeof value === "object" && hasOwn.call(value, "__await")) {
-            return PromiseImpl.resolve(value.__await).then(function (value) {
-              invoke("next", value, resolve, reject);
-            }, function (err) {
-              invoke("throw", err, resolve, reject);
-            });
-          }
-
-          return PromiseImpl.resolve(value).then(function (unwrapped) {
-            // When a yielded Promise is resolved, its final value becomes
-            // the .value of the Promise<{value,done}> result for the
-            // current iteration.
-            result.value = unwrapped;
-            resolve(result);
-          }, function (error) {
-            // If a rejected Promise was yielded, throw the rejection back
-            // into the async generator function so it can be handled there.
-            return invoke("throw", error, resolve, reject);
-          });
-        }
-      }
-
-      var previousPromise;
-
-      function enqueue(method, arg) {
-        function callInvokeWithMethodAndArg() {
-          return new PromiseImpl(function (resolve, reject) {
-            invoke(method, arg, resolve, reject);
-          });
-        }
-
-        return previousPromise = // If enqueue has been called before, then we want to wait until
-        // all previous Promises have been resolved before calling invoke,
-        // so that results are always delivered in the correct order. If
-        // enqueue has not been called before, then it is important to
-        // call invoke immediately, without waiting on a callback to fire,
-        // so that the async generator function has the opportunity to do
-        // any necessary setup in a predictable way. This predictability
-        // is why the Promise constructor synchronously invokes its
-        // executor callback, and why async functions synchronously
-        // execute code before the first await. Since we implement simple
-        // async functions in terms of async generators, it is especially
-        // important to get this right, even though it requires care.
-        previousPromise ? previousPromise.then(callInvokeWithMethodAndArg, // Avoid propagating failures to Promises returned by later
-        // invocations of the iterator.
-        callInvokeWithMethodAndArg) : callInvokeWithMethodAndArg();
-      } // Define the unified helper method that is used to implement .next,
-      // .throw, and .return (see defineIteratorMethods).
-
-
-      this._invoke = enqueue;
-    }
-
-    defineIteratorMethods(AsyncIterator.prototype);
-    define(AsyncIterator.prototype, asyncIteratorSymbol, function () {
-      return this;
-    });
-    exports.AsyncIterator = AsyncIterator; // Note that simple async functions are implemented on top of
-    // AsyncIterator objects; they just return a Promise for the value of
-    // the final result produced by the iterator.
-
-    exports.async = function (innerFn, outerFn, self, tryLocsList, PromiseImpl) {
-      if (PromiseImpl === void 0) PromiseImpl = Promise;
-      var iter = new AsyncIterator(wrap(innerFn, outerFn, self, tryLocsList), PromiseImpl);
-      return exports.isGeneratorFunction(outerFn) ? iter // If outerFn is a generator, return the full iterator.
-      : iter.next().then(function (result) {
-        return result.done ? result.value : iter.next();
-      });
-    };
-
-    function makeInvokeMethod(innerFn, self, context) {
-      var state = GenStateSuspendedStart;
-      return function invoke(method, arg) {
-        if (state === GenStateExecuting) {
-          throw new Error("Generator is already running");
-        }
-
-        if (state === GenStateCompleted) {
-          if (method === "throw") {
-            throw arg;
-          } // Be forgiving, per 25.3.3.3.3 of the spec:
-          // https://people.mozilla.org/~jorendorff/es6-draft.html#sec-generatorresume
-
-
-          return doneResult();
-        }
-
-        context.method = method;
-        context.arg = arg;
-
-        while (true) {
-          var delegate = context.delegate;
-
-          if (delegate) {
-            var delegateResult = maybeInvokeDelegate(delegate, context);
-
-            if (delegateResult) {
-              if (delegateResult === ContinueSentinel) continue;
-              return delegateResult;
-            }
-          }
-
-          if (context.method === "next") {
-            // Setting context._sent for legacy support of Babel's
-            // function.sent implementation.
-            context.sent = context._sent = context.arg;
-          } else if (context.method === "throw") {
-            if (state === GenStateSuspendedStart) {
-              state = GenStateCompleted;
-              throw context.arg;
-            }
-
-            context.dispatchException(context.arg);
-          } else if (context.method === "return") {
-            context.abrupt("return", context.arg);
-          }
-
-          state = GenStateExecuting;
-          var record = tryCatch(innerFn, self, context);
-
-          if (record.type === "normal") {
-            // If an exception is thrown from innerFn, we leave state ===
-            // GenStateExecuting and loop back for another invocation.
-            state = context.done ? GenStateCompleted : GenStateSuspendedYield;
-
-            if (record.arg === ContinueSentinel) {
-              continue;
-            }
-
-            return {
-              value: record.arg,
-              done: context.done
-            };
-          } else if (record.type === "throw") {
-            state = GenStateCompleted; // Dispatch the exception by looping back around to the
-            // context.dispatchException(context.arg) call above.
-
-            context.method = "throw";
-            context.arg = record.arg;
-          }
-        }
-      };
-    } // Call delegate.iterator[context.method](context.arg) and handle the
-    // result, either by returning a { value, done } result from the
-    // delegate iterator, or by modifying context.method and context.arg,
-    // setting context.delegate to null, and returning the ContinueSentinel.
-
-
-    function maybeInvokeDelegate(delegate, context) {
-      var method = delegate.iterator[context.method];
-
-      if (method === undefined$1) {
-        // A .throw or .return when the delegate iterator has no .throw
-        // method always terminates the yield* loop.
-        context.delegate = null;
-
-        if (context.method === "throw") {
-          // Note: ["return"] must be used for ES3 parsing compatibility.
-          if (delegate.iterator["return"]) {
-            // If the delegate iterator has a return method, give it a
-            // chance to clean up.
-            context.method = "return";
-            context.arg = undefined$1;
-            maybeInvokeDelegate(delegate, context);
-
-            if (context.method === "throw") {
-              // If maybeInvokeDelegate(context) changed context.method from
-              // "return" to "throw", let that override the TypeError below.
-              return ContinueSentinel;
-            }
-          }
-
-          context.method = "throw";
-          context.arg = new TypeError("The iterator does not provide a 'throw' method");
-        }
-
-        return ContinueSentinel;
-      }
-
-      var record = tryCatch(method, delegate.iterator, context.arg);
-
-      if (record.type === "throw") {
-        context.method = "throw";
-        context.arg = record.arg;
-        context.delegate = null;
-        return ContinueSentinel;
-      }
-
-      var info = record.arg;
-
-      if (!info) {
-        context.method = "throw";
-        context.arg = new TypeError("iterator result is not an object");
-        context.delegate = null;
-        return ContinueSentinel;
-      }
-
-      if (info.done) {
-        // Assign the result of the finished delegate to the temporary
-        // variable specified by delegate.resultName (see delegateYield).
-        context[delegate.resultName] = info.value; // Resume execution at the desired location (see delegateYield).
-
-        context.next = delegate.nextLoc; // If context.method was "throw" but the delegate handled the
-        // exception, let the outer generator proceed normally. If
-        // context.method was "next", forget context.arg since it has been
-        // "consumed" by the delegate iterator. If context.method was
-        // "return", allow the original .return call to continue in the
-        // outer generator.
-
-        if (context.method !== "return") {
-          context.method = "next";
-          context.arg = undefined$1;
-        }
-      } else {
-        // Re-yield the result returned by the delegate method.
-        return info;
-      } // The delegate iterator is finished, so forget it and continue with
-      // the outer generator.
-
-
-      context.delegate = null;
-      return ContinueSentinel;
-    } // Define Generator.prototype.{next,throw,return} in terms of the
-    // unified ._invoke helper method.
-
-
-    defineIteratorMethods(Gp);
-    define(Gp, toStringTagSymbol, "Generator"); // A Generator should always return itself as the iterator object when the
-    // @@iterator function is called on it. Some browsers' implementations of the
-    // iterator prototype chain incorrectly implement this, causing the Generator
-    // object to not be returned from this call. This ensures that doesn't happen.
-    // See https://github.com/facebook/regenerator/issues/274 for more details.
-
-    define(Gp, iteratorSymbol, function () {
-      return this;
-    });
-    define(Gp, "toString", function () {
-      return "[object Generator]";
-    });
-
-    function pushTryEntry(locs) {
-      var entry = {
-        tryLoc: locs[0]
-      };
-
-      if (1 in locs) {
-        entry.catchLoc = locs[1];
-      }
-
-      if (2 in locs) {
-        entry.finallyLoc = locs[2];
-        entry.afterLoc = locs[3];
-      }
-
-      this.tryEntries.push(entry);
-    }
-
-    function resetTryEntry(entry) {
-      var record = entry.completion || {};
-      record.type = "normal";
-      delete record.arg;
-      entry.completion = record;
-    }
-
-    function Context(tryLocsList) {
-      // The root entry object (effectively a try statement without a catch
-      // or a finally block) gives us a place to store values thrown from
-      // locations where there is no enclosing try statement.
-      this.tryEntries = [{
-        tryLoc: "root"
-      }];
-      tryLocsList.forEach(pushTryEntry, this);
-      this.reset(true);
-    }
-
-    exports.keys = function (object) {
-      var keys = [];
-
-      for (var key in object) {
-        keys.push(key);
-      }
-
-      keys.reverse(); // Rather than returning an object with a next method, we keep
-      // things simple and return the next function itself.
-
-      return function next() {
-        while (keys.length) {
-          var key = keys.pop();
-
-          if (key in object) {
-            next.value = key;
-            next.done = false;
-            return next;
-          }
-        } // To avoid creating an additional object, we just hang the .value
-        // and .done properties off the next function object itself. This
-        // also ensures that the minifier will not anonymize the function.
-
-
-        next.done = true;
-        return next;
-      };
-    };
-
-    function values(iterable) {
-      if (iterable) {
-        var iteratorMethod = iterable[iteratorSymbol];
-
-        if (iteratorMethod) {
-          return iteratorMethod.call(iterable);
-        }
-
-        if (typeof iterable.next === "function") {
-          return iterable;
-        }
-
-        if (!isNaN(iterable.length)) {
-          var i = -1,
-              next = function next() {
-            while (++i < iterable.length) {
-              if (hasOwn.call(iterable, i)) {
-                next.value = iterable[i];
-                next.done = false;
-                return next;
-              }
-            }
-
-            next.value = undefined$1;
-            next.done = true;
-            return next;
-          };
-
-          return next.next = next;
-        }
-      } // Return an iterator with no values.
-
-
-      return {
-        next: doneResult
-      };
-    }
-
-    exports.values = values;
-
-    function doneResult() {
-      return {
-        value: undefined$1,
-        done: true
-      };
-    }
-
-    Context.prototype = {
-      constructor: Context,
-      reset: function reset(skipTempReset) {
-        this.prev = 0;
-        this.next = 0; // Resetting context._sent for legacy support of Babel's
-        // function.sent implementation.
-
-        this.sent = this._sent = undefined$1;
-        this.done = false;
-        this.delegate = null;
-        this.method = "next";
-        this.arg = undefined$1;
-        this.tryEntries.forEach(resetTryEntry);
-
-        if (!skipTempReset) {
-          for (var name in this) {
-            // Not sure about the optimal order of these conditions:
-            if (name.charAt(0) === "t" && hasOwn.call(this, name) && !isNaN(+name.slice(1))) {
-              this[name] = undefined$1;
-            }
-          }
-        }
-      },
-      stop: function stop() {
-        this.done = true;
-        var rootEntry = this.tryEntries[0];
-        var rootRecord = rootEntry.completion;
-
-        if (rootRecord.type === "throw") {
-          throw rootRecord.arg;
-        }
-
-        return this.rval;
-      },
-      dispatchException: function dispatchException(exception) {
-        if (this.done) {
-          throw exception;
-        }
-
-        var context = this;
-
-        function handle(loc, caught) {
-          record.type = "throw";
-          record.arg = exception;
-          context.next = loc;
-
-          if (caught) {
-            // If the dispatched exception was caught by a catch block,
-            // then let that catch block handle the exception normally.
-            context.method = "next";
-            context.arg = undefined$1;
-          }
-
-          return !!caught;
-        }
-
-        for (var i = this.tryEntries.length - 1; i >= 0; --i) {
-          var entry = this.tryEntries[i];
-          var record = entry.completion;
-
-          if (entry.tryLoc === "root") {
-            // Exception thrown outside of any try block that could handle
-            // it, so set the completion value of the entire function to
-            // throw the exception.
-            return handle("end");
-          }
-
-          if (entry.tryLoc <= this.prev) {
-            var hasCatch = hasOwn.call(entry, "catchLoc");
-            var hasFinally = hasOwn.call(entry, "finallyLoc");
-
-            if (hasCatch && hasFinally) {
-              if (this.prev < entry.catchLoc) {
-                return handle(entry.catchLoc, true);
-              } else if (this.prev < entry.finallyLoc) {
-                return handle(entry.finallyLoc);
-              }
-            } else if (hasCatch) {
-              if (this.prev < entry.catchLoc) {
-                return handle(entry.catchLoc, true);
-              }
-            } else if (hasFinally) {
-              if (this.prev < entry.finallyLoc) {
-                return handle(entry.finallyLoc);
-              }
-            } else {
-              throw new Error("try statement without catch or finally");
-            }
-          }
-        }
-      },
-      abrupt: function abrupt(type, arg) {
-        for (var i = this.tryEntries.length - 1; i >= 0; --i) {
-          var entry = this.tryEntries[i];
-
-          if (entry.tryLoc <= this.prev && hasOwn.call(entry, "finallyLoc") && this.prev < entry.finallyLoc) {
-            var finallyEntry = entry;
-            break;
-          }
-        }
-
-        if (finallyEntry && (type === "break" || type === "continue") && finallyEntry.tryLoc <= arg && arg <= finallyEntry.finallyLoc) {
-          // Ignore the finally entry if control is not jumping to a
-          // location outside the try/catch block.
-          finallyEntry = null;
-        }
-
-        var record = finallyEntry ? finallyEntry.completion : {};
-        record.type = type;
-        record.arg = arg;
-
-        if (finallyEntry) {
-          this.method = "next";
-          this.next = finallyEntry.finallyLoc;
-          return ContinueSentinel;
-        }
-
-        return this.complete(record);
-      },
-      complete: function complete(record, afterLoc) {
-        if (record.type === "throw") {
-          throw record.arg;
-        }
-
-        if (record.type === "break" || record.type === "continue") {
-          this.next = record.arg;
-        } else if (record.type === "return") {
-          this.rval = this.arg = record.arg;
-          this.method = "return";
-          this.next = "end";
-        } else if (record.type === "normal" && afterLoc) {
-          this.next = afterLoc;
-        }
-
-        return ContinueSentinel;
-      },
-      finish: function finish(finallyLoc) {
-        for (var i = this.tryEntries.length - 1; i >= 0; --i) {
-          var entry = this.tryEntries[i];
-
-          if (entry.finallyLoc === finallyLoc) {
-            this.complete(entry.completion, entry.afterLoc);
-            resetTryEntry(entry);
-            return ContinueSentinel;
-          }
-        }
-      },
-      "catch": function _catch(tryLoc) {
-        for (var i = this.tryEntries.length - 1; i >= 0; --i) {
-          var entry = this.tryEntries[i];
-
-          if (entry.tryLoc === tryLoc) {
-            var record = entry.completion;
-
-            if (record.type === "throw") {
-              var thrown = record.arg;
-              resetTryEntry(entry);
-            }
-
-            return thrown;
-          }
-        } // The context.catch method must only be called with a location
-        // argument that corresponds to a known catch block.
-
-
-        throw new Error("illegal catch attempt");
-      },
-      delegateYield: function delegateYield(iterable, resultName, nextLoc) {
-        this.delegate = {
-          iterator: values(iterable),
-          resultName: resultName,
-          nextLoc: nextLoc
-        };
-
-        if (this.method === "next") {
-          // Deliberately forget the last sent value so that we don't
-          // accidentally pass it on to the delegate.
-          this.arg = undefined$1;
-        }
-
-        return ContinueSentinel;
-      }
-    }; // Regardless of whether this script is executing as a CommonJS module
-    // or not, return the runtime object so that we can declare the variable
-    // regeneratorRuntime in the outer scope, which allows this module to be
-    // injected easily by `bin/regenerator --include-runtime script.js`.
-
-    return exports;
-  }( // If this script is executing as a CommonJS module, use module.exports
-  // as the regeneratorRuntime namespace. Otherwise create a new empty
-  // object. Either way, the resulting object will be used to initialize
-  // the regeneratorRuntime variable at the top of this file.
-   module.exports );
-
-  try {
-    regeneratorRuntime = runtime;
-  } catch (accidentalStrictMode) {
-    // This module should not be running in strict mode, so the above
-    // assignment should always work unless something is misconfigured. Just
-    // in case runtime.js accidentally runs in strict mode, in modern engines
-    // we can explicitly access globalThis. In older engines we can escape
-    // strict mode using a global Function call. This could conceivably fail
-    // if a Content Security Policy forbids using Function, but in that case
-    // the proper solution is to fix the accidental strict mode problem. If
-    // you've misconfigured your bundler to force strict mode and applied a
-    // CSP to forbid Function, and you're not willing to fix either of those
-    // problems, please detail your unique predicament in a GitHub issue.
-    if (typeof globalThis === "object") {
-      globalThis.regeneratorRuntime = runtime;
-    } else {
-      Function("r", "regeneratorRuntime = r")(runtime);
-    }
-  }
-});
-
-function featureData(data) {
-  var f = _objectSpread2({}, data);
-
-  f.start -= 1; // convert to interbase
-
-  f.strand = {
-    '+': 1,
-    '-': -1,
-    '.': 0,
-    '?': undefined
-  }[data.strand]; // convert strand
-
-  f.phase = Number(data.frame);
-  f.refName = data.seq_name;
-
-  if (data.score === null) {
-    delete f.score;
-  }
-
-  if (data.frame === null) {
-    delete f.score;
-  }
-
-  var defaultFields = ['start', 'end', 'seq_name', 'score', 'featureType', 'source', 'frame', 'strand'];
-  Object.keys(data.attributes).forEach(function (a) {
-    var b = a.toLowerCase();
-
-    if (defaultFields.includes(b)) {
-      // add "suffix" to tag name if it already exists
-      // reproduces behavior of NCList
-      b += '2';
-    }
-
-    if (data.attributes[a] !== null) {
-      var attr = data.attributes[a];
-
-      if (Array.isArray(attr) && attr.length === 1) {
-        // gtf uses double quotes for text values in the attributes column, remove them
-        var formattedAttr = attr[0].replace(/^"|"$/g, '');
-        attr = formattedAttr;
-      }
-
-      f[b] = attr;
-    }
-  });
-  f.refName = f.seq_name;
-  f.type = f.featureType; // the SimpleFeature constructor takes care of recursively inflating subfeatures
-
-  if (data.child_features && data.child_features.length) {
-    f.subfeatures = data.child_features.map(function (childLocs) {
-      return childLocs.map(function (childLoc) {
-        return featureData(childLoc);
-      });
-    }).flat();
-  }
-
-  delete f.child_features;
-  delete f.data;
-  delete f.derived_features; // eslint-disable-next-line no-underscore-dangle
-
-  delete f._linehash;
-  delete f.attributes;
-  delete f.seq_name;
-  delete f.featureType;
-  delete f.frame;
-
-  if (f.transcript_id) {
-    f.name = f.transcript_id;
-  }
-
-  return f;
-}
-
-function isGzip(buf) {
-  return buf[0] === 31 && buf[1] === 139 && buf[2] === 8;
-}
-
-var _default = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
-  _inherits(_default, _BaseFeatureDataAdapt);
-
-  var _super = /*#__PURE__*/_createSuper(_default);
-
-  function _default() {
-    _classCallCheck(this, _default);
-
-    return _super.apply(this, arguments);
-  }
-
-  _createClass(_default, [{
-    key: "loadDataP",
-    value: function () {
-      var _loadDataP = /*#__PURE__*/_asyncToGenerator( /*#__PURE__*/runtime_1.mark(function _callee() {
-        var _this = this;
-
-        var buffer, buf, data, feats, intervalTree;
-        return runtime_1.wrap(function _callee$(_context) {
-          while (1) {
-            switch (_context.prev = _context.next) {
-              case 0:
-                _context.next = 2;
-                return openLocation(readConfObject(this.config, 'gtfLocation'), this.pluginManager).readFile();
-
-              case 2:
-                buffer = _context.sent;
-
-                if (!isGzip(buffer)) {
-                  _context.next = 9;
-                  break;
-                }
-
-                _context.next = 6;
-                return unzip(buffer);
-
-              case 6:
-                _context.t0 = _context.sent;
-                _context.next = 10;
-                break;
-
-              case 9:
-                _context.t0 = buffer;
-
-              case 10:
-                buf = _context.t0;
-
-                if (!(buf.length > 536870888)) {
-                  _context.next = 13;
-                  break;
-                }
-
-                throw new Error('Data exceeds maximum string length (512MB)');
-
-              case 13:
-                data = new TextDecoder('utf8', {
-                  fatal: true
-                }).decode(buf);
-                feats = gtf.parseStringSync(data, {
-                  parseFeatures: true,
-                  parseComments: false,
-                  parseDirectives: false,
-                  parseSequences: false
-                });
-                intervalTree = feats.flat().map(function (f, i) {
-                  return new SimpleFeature({
-                    data: featureData(f),
-                    id: "".concat(_this.id, "-offset-").concat(i)
-                  });
-                }).reduce(function (acc, obj) {
-                  var key = obj.get('refName');
-
-                  if (!acc[key]) {
-                    acc[key] = new IntervalTree();
-                  }
-
-                  acc[key].insert([obj.get('start'), obj.get('end')], obj);
-                  return acc;
-                }, {});
-                return _context.abrupt("return", {
-                  intervalTree: intervalTree
-                });
-
-              case 17:
-              case "end":
-                return _context.stop();
-            }
-          }
-        }, _callee, this);
-      }));
-
-      function loadDataP() {
-        return _loadDataP.apply(this, arguments);
-      }
-
-      return loadDataP;
-    }()
-  }, {
-    key: "loadData",
-    value: function () {
-      var _loadData = /*#__PURE__*/_asyncToGenerator( /*#__PURE__*/runtime_1.mark(function _callee2() {
-        var _this2 = this;
-
-        return runtime_1.wrap(function _callee2$(_context2) {
-          while (1) {
-            switch (_context2.prev = _context2.next) {
-              case 0:
-                if (!this.gtfFeatures) {
-                  this.gtfFeatures = this.loadDataP()["catch"](function (e) {
-                    _this2.gtfFeatures = undefined;
-                    throw e;
-                  });
-                }
-
-                return _context2.abrupt("return", this.gtfFeatures);
-
-              case 2:
-              case "end":
-                return _context2.stop();
-            }
-          }
-        }, _callee2, this);
-      }));
-
-      function loadData() {
-        return _loadData.apply(this, arguments);
-      }
-
-      return loadData;
-    }()
-  }, {
-    key: "getRefNames",
-    value: function () {
-      var _getRefNames = /*#__PURE__*/_asyncToGenerator( /*#__PURE__*/runtime_1.mark(function _callee3() {
-        var _yield$this$loadData,
-            intervalTree;
-
-        return runtime_1.wrap(function _callee3$(_context3) {
-          while (1) {
-            switch (_context3.prev = _context3.next) {
-              case 0:
-                _context3.next = 3;
-                return this.loadData();
-
-              case 3:
-                _yield$this$loadData = _context3.sent;
-                intervalTree = _yield$this$loadData.intervalTree;
-                return _context3.abrupt("return", Object.keys(intervalTree));
-
-              case 6:
-              case "end":
-                return _context3.stop();
-            }
-          }
-        }, _callee3, this);
-      }));
-
-      function getRefNames() {
-        return _getRefNames.apply(this, arguments);
-      }
-
-      return getRefNames;
-    }()
-  }, {
-    key: "getFeatures",
-    value: function getFeatures(query) {
-      var _this3 = this;
-
-      var opts = arguments.length > 1 && arguments[1] !== undefined ? arguments[1] : {};
-      return ObservableCreate( /*#__PURE__*/function () {
-        var _ref = _asyncToGenerator( /*#__PURE__*/runtime_1.mark(function _callee4(observer) {
-          var _intervalTree$refName, start, end, refName, _yield$_this3$loadDat, intervalTree;
-
-          return runtime_1.wrap(function _callee4$(_context4) {
-            while (1) {
-              switch (_context4.prev = _context4.next) {
-                case 0:
-                  _context4.prev = 0;
-                  start = query.start, end = query.end, refName = query.refName;
-                  _context4.next = 4;
-                  return _this3.loadData();
-
-                case 4:
-                  _yield$_this3$loadDat = _context4.sent;
-                  intervalTree = _yield$_this3$loadDat.intervalTree;
-                  (_intervalTree$refName = intervalTree[refName]) === null || _intervalTree$refName === void 0 ? void 0 : _intervalTree$refName.search([start, end]).forEach(function (f) {
-                    return observer.next(f);
-                  });
-                  observer.complete();
-                  _context4.next = 13;
-                  break;
-
-                case 10:
-                  _context4.prev = 10;
-                  _context4.t0 = _context4["catch"](0);
-                  observer.error(_context4.t0);
-
-                case 13:
-                case "end":
-                  return _context4.stop();
-              }
-            }
-          }, _callee4, null, [[0, 10]]);
-        }));
-
-        return function (_x) {
-          return _ref.apply(this, arguments);
-        };
-      }(), opts.signal);
-    }
-  }, {
-    key: "freeResources",
-    value: function
-      /* { region } */
-    freeResources() {}
-  }]);
-
-  return _default;
-}(BaseFeatureDataAdapter);
-
-var GtfAdapter = {
-  __proto__: null,
-  'default': _default
-};
-
-export default GtfPlugin;
-//# sourceMappingURL=plugin-gtf.esm.js.map