@teselagen/ove 0.3.13 → 0.3.15

package/index.js

@@ -5422,9 +5422,18 @@ var propTypes$1 = {exports: {}};
  * LICENSE file in the root directory of this source tree.
  */
 
-var ReactPropTypesSecret$1 = 'SECRET_DO_NOT_PASS_THIS_OR_YOU_WILL_BE_FIRED';
+var ReactPropTypesSecret_1;
+var hasRequiredReactPropTypesSecret;
 
-var ReactPropTypesSecret_1 = ReactPropTypesSecret$1;
+function requireReactPropTypesSecret () {
+	if (hasRequiredReactPropTypesSecret) return ReactPropTypesSecret_1;
+	hasRequiredReactPropTypesSecret = 1;
+
+	var ReactPropTypesSecret = 'SECRET_DO_NOT_PASS_THIS_OR_YOU_WILL_BE_FIRED';
+
+	ReactPropTypesSecret_1 = ReactPropTypesSecret;
+	return ReactPropTypesSecret_1;
+}
 
 /**
  * Copyright (c) 2013-present, Facebook, Inc.
@@ -5433,60 +5442,69 @@ var ReactPropTypesSecret_1 = ReactPropTypesSecret$1;
  * LICENSE file in the root directory of this source tree.
  */
 
-var ReactPropTypesSecret = ReactPropTypesSecret_1;
+var factoryWithThrowingShims;
+var hasRequiredFactoryWithThrowingShims;
 
-function emptyFunction() {}
-function emptyFunctionWithReset() {}
-emptyFunctionWithReset.resetWarningCache = emptyFunction;
+function requireFactoryWithThrowingShims () {
+	if (hasRequiredFactoryWithThrowingShims) return factoryWithThrowingShims;
+	hasRequiredFactoryWithThrowingShims = 1;
 
-var factoryWithThrowingShims = function() {
-  function shim(props, propName, componentName, location, propFullName, secret) {
-    if (secret === ReactPropTypesSecret) {
-      // It is still safe when called from React.
-      return;
-    }
-    var err = new Error(
-      'Calling PropTypes validators directly is not supported by the `prop-types` package. ' +
-      'Use PropTypes.checkPropTypes() to call them. ' +
-      'Read more at http://fb.me/use-check-prop-types'
-    );
-    err.name = 'Invariant Violation';
-    throw err;
-  }  shim.isRequired = shim;
-  function getShim() {
-    return shim;
-  }  // Important!
-  // Keep this list in sync with production version in `./factoryWithTypeCheckers.js`.
-  var ReactPropTypes = {
-    array: shim,
-    bigint: shim,
-    bool: shim,
-    func: shim,
-    number: shim,
-    object: shim,
-    string: shim,
-    symbol: shim,
-
-    any: shim,
-    arrayOf: getShim,
-    element: shim,
-    elementType: shim,
-    instanceOf: getShim,
-    node: shim,
-    objectOf: getShim,
-    oneOf: getShim,
-    oneOfType: getShim,
-    shape: getShim,
-    exact: getShim,
-
-    checkPropTypes: emptyFunctionWithReset,
-    resetWarningCache: emptyFunction
-  };
-
-  ReactPropTypes.PropTypes = ReactPropTypes;
-
-  return ReactPropTypes;
-};
+	var ReactPropTypesSecret = requireReactPropTypesSecret();
+
+	function emptyFunction() {}
+	function emptyFunctionWithReset() {}
+	emptyFunctionWithReset.resetWarningCache = emptyFunction;
+
+	factoryWithThrowingShims = function() {
+	  function shim(props, propName, componentName, location, propFullName, secret) {
+	    if (secret === ReactPropTypesSecret) {
+	      // It is still safe when called from React.
+	      return;
+	    }
+	    var err = new Error(
+	      'Calling PropTypes validators directly is not supported by the `prop-types` package. ' +
+	      'Use PropTypes.checkPropTypes() to call them. ' +
+	      'Read more at http://fb.me/use-check-prop-types'
+	    );
+	    err.name = 'Invariant Violation';
+	    throw err;
+	  }	  shim.isRequired = shim;
+	  function getShim() {
+	    return shim;
+	  }	  // Important!
+	  // Keep this list in sync with production version in `./factoryWithTypeCheckers.js`.
+	  var ReactPropTypes = {
+	    array: shim,
+	    bigint: shim,
+	    bool: shim,
+	    func: shim,
+	    number: shim,
+	    object: shim,
+	    string: shim,
+	    symbol: shim,
+
+	    any: shim,
+	    arrayOf: getShim,
+	    element: shim,
+	    elementType: shim,
+	    instanceOf: getShim,
+	    node: shim,
+	    objectOf: getShim,
+	    oneOf: getShim,
+	    oneOfType: getShim,
+	    shape: getShim,
+	    exact: getShim,
+
+	    checkPropTypes: emptyFunctionWithReset,
+	    resetWarningCache: emptyFunction
+	  };
+
+	  ReactPropTypes.PropTypes = ReactPropTypes;
+
+	  return ReactPropTypes;
+	};
+	return factoryWithThrowingShims;
+}
 
 /**
  * Copyright (c) 2013-present, Facebook, Inc.
@@ -5495,13 +5513,20 @@ var factoryWithThrowingShims = function() {
  * LICENSE file in the root directory of this source tree.
  */
 
-{
-  // By explicitly using `prop-types` you are opting into new production behavior.
-  // http://fb.me/prop-types-in-prod
-  propTypes$1.exports = factoryWithThrowingShims();
+var hasRequiredPropTypes;
+
+function requirePropTypes () {
+	if (hasRequiredPropTypes) return propTypes$1.exports;
+	hasRequiredPropTypes = 1;
+	{
+	  // By explicitly using `prop-types` you are opting into new production behavior.
+	  // http://fb.me/prop-types-in-prod
+	  propTypes$1.exports = requireFactoryWithThrowingShims()();
+	}
+	return propTypes$1.exports;
 }
 
-var propTypesExports = propTypes$1.exports;
+var propTypesExports = requirePropTypes();
 const PropTypes = /*@__PURE__*/getDefaultExportFromCjs(propTypesExports);
 
 /******************************************************************************
@@ -37815,7 +37840,7 @@ var reactList = {};
 (function (exports) {
 	(function (global, factory) {
 	  {
-	    factory(exports, propTypesExports, React$3);
+	    factory(exports, requirePropTypes(), React$3);
 	  }
 	})(commonjsGlobal, function (_exports, _propTypes, _react) {
 
@@ -66439,11 +66464,11 @@ function tagOptionRender(vals) {
 function getSort(text, queryString) {
   let ret;
   if (text === queryString)
-    ret = 0;
+    ret = -1;
   else if (text.includes(queryString))
-    ret = 0.9;
+    ret = text.indexOf(queryString);
   else
-    ret = 1;
+    ret = text.length;
   return ret;
 }
 
@@ -101280,7 +101305,7 @@ DraggableCore$5.default = void 0;
 
 var React$2 = _interopRequireWildcard$2(React$3);
 
-var _propTypes$1 = _interopRequireDefault$1(propTypesExports);
+var _propTypes$1 = _interopRequireDefault$1(requirePropTypes());
 
 var _reactDom$1 = _interopRequireDefault$1(ReactDOM$1);
 
@@ -101856,7 +101881,7 @@ _defineProperty$5(DraggableCore$4, "defaultProps", {
 
 	var React = _interopRequireWildcard(React$3);
 
-	var _propTypes = _interopRequireDefault(propTypesExports);
+	var _propTypes = _interopRequireDefault(requirePropTypes());
 
 	var _reactDom = _interopRequireDefault(ReactDOM$1);
 
@@ -106614,8 +106639,8 @@ function getOverlapsOfPotentiallyCircularRanges(rangeA, rangeB, maxRangeLength,
     maxRangeLength
   );
   let overlaps = [];
-  normalizedRangeA.forEach(function(nonCircularRangeA, iA) {
-    normalizedRangeB.forEach(function(nonCircularRangeB, iB) {
+  normalizedRangeA.forEach(function(nonCircularRangeA) {
+    normalizedRangeB.forEach(function(nonCircularRangeB) {
       const overlap = getOverlapOfNonCircularRanges(
         nonCircularRangeA,
         nonCircularRangeB
@@ -106627,7 +106652,7 @@ function getOverlapsOfPotentiallyCircularRanges(rangeA, rangeB, maxRangeLength,
   });
   if (joinIfPossible && normalizedRangeA.length === 2 && normalizedRangeB.length === 2 && maxRangeLength) {
     const joinedOverlap = {};
-    overlaps = lodashExports.flatMap(overlaps, (o, i) => {
+    overlaps = lodashExports.flatMap(overlaps, (o) => {
       if (o.start === 0) {
         joinedOverlap.end = o.end;
         return [];
@@ -107117,7 +107142,7 @@ function translateRange(rangeToBeAdjusted, translateBy, rangeLength) {
   });
 }
 
-function flipRelativeRange(innerRange, outerRange, sequenceLength, options) {
+function flipRelativeRange(innerRange, outerRange, sequenceLength) {
   const isFullyContained = isRangeWithinRange(
     innerRange,
     outerRange,
@@ -107129,7 +107154,7 @@ function flipRelativeRange(innerRange, outerRange, sequenceLength, options) {
     return flipNonFullyContainedRange(innerRange, outerRange, sequenceLength);
   }
 }
-function flipNonFullyContainedRange(innerRange, outerRange, sequenceLength, options) {
+function flipNonFullyContainedRange(innerRange, outerRange, sequenceLength) {
   const outerFullyContained = isRangeWithinRange(
     outerRange,
     innerRange,
@@ -107170,9 +107195,8 @@ function flipNonFullyContainedRange(innerRange, outerRange, sequenceLength, opti
       sequenceLength
     );
     if (overlaps.length >= 1) {
-      let overlapExtendsForward;
       const firstOverlap = overlaps[0];
-      overlapExtendsForward = firstOverlap.start !== outerRange.start;
+      const overlapExtendsForward = firstOverlap.start !== outerRange.start;
       const flippedTruncatedInner = flipFullyContainedRange(
         firstOverlap,
         outerRange,
@@ -107193,7 +107217,7 @@ function flipNonFullyContainedRange(innerRange, outerRange, sequenceLength, opti
   }
   return flippedInnerRange;
 }
-function flipFullyContainedRange(innerRange, outerRange, sequenceLength, options) {
+function flipFullyContainedRange(innerRange, outerRange, sequenceLength) {
   const translateBy = -outerRange.start;
   const translatedOuterRange = translateRange(
     outerRange,
@@ -107321,6 +107345,7 @@ function getYOffsetForPotentiallyCircularRange(range, YOffsetLevelsWithRanges, a
       rangesAlreadyAddedToYOffset.push(range);
       return true;
     }
+    return false;
   });
   if (!openYOffsetFound) {
     yOffset = YOffsetLevelsWithRanges.length;
@@ -124024,7 +124049,6 @@ function genbankToJson(string, options = {}) {
   }
   function parseLocus(line) {
     result = createInitialSequence(options);
-    let locusName;
     let circular;
     let gbDivision;
     let date;
@@ -124035,7 +124059,7 @@ function genbankToJson(string, options = {}) {
       );
       addMessage("Import Warning: Locus line contains no values: " + line);
     }
-    locusName = lineArr[1];
+    const locusName = lineArr[1];
     for (let i = 1; i < lineArr.length; i++) {
       if (lineArr[i].match(/circular/gi)) {
         circular = true;
@@ -124182,10 +124206,10 @@ function genbankToJson(string, options = {}) {
     }
   }
   function parseFeatureNote(line) {
-    let newLine, lineArr;
+    let newLine;
     newLine = line.trimLeft();
     newLine = newLine.replace(/^\/|"$/g, "");
-    lineArr = newLine.split(/="|=/);
+    const lineArr = newLine.split(/="|=/);
     let val = lineArr.slice(1).join("=");
     if (val) {
       val = val.replace(/\\/g, " ");
@@ -137653,7 +137677,6 @@ function createGenbankLocus(serSeq, options) {
   if (serSeq.sequence.symbols) {
     serSeq.sequence = serSeq.sequence.symbols.split("");
   }
-  let tmp;
   let dnaType;
   if (serSeq.isProtein) {
     dnaType = "";
@@ -137670,7 +137693,7 @@ function createGenbankLocus(serSeq, options) {
   line += " ";
   line += StringUtil.lpad(String(serSeq.sequence.length), " ", 11);
   line += serSeq.isProtein ? " aa " : " bp ";
-  tmp = "";
+  const tmp = "";
   line += StringUtil.lpad(tmp, " ", 3);
   line += StringUtil.rpad(dnaType, " ", 6);
   line += "  ";
@@ -142904,6 +142927,7 @@ function mapStateToProps(state, ownProps) {
   if (!editorState) {
     return editorReducer({}, {});
   }
+  const sequenceLength = selectors.sequenceLengthSelector(editorState);
   const { findTool, annotationsToSupport = {} } = editorState;
   const visibilities = getVisibilities(editorState);
   let annotationToAdd;
@@ -142914,7 +142938,13 @@ function mapStateToProps(state, ownProps) {
   ].forEach(([n, type, annotationTypePlural]) => {
     const vals = reduxForm.getFormValues(n)(state);
     if (vals) {
-      annotationToAdd = getAnnToAdd(vals, n, type, annotationTypePlural);
+      annotationToAdd = getAnnToAdd(
+        vals,
+        n,
+        type,
+        annotationTypePlural,
+        sequenceLength
+      );
     }
   });
   const toReturn = {
@@ -142938,7 +142968,6 @@ function mapStateToProps(state, ownProps) {
     editorState,
     ownProps.additionalEnzymes
   );
-  const sequenceLength = selectors.sequenceLengthSelector(editorState);
   const { matchedSearchLayer, searchLayers, matchesTotal } = getSearchLayersAndMatch(editorState);
   const annotationSearchMatches = selectors.annotationSearchSelector(editorState);
   const _sequenceDataToUse = getSequenceDataToUse(
@@ -143214,21 +143243,26 @@ const getFindTool = createSelector(
     };
   }
 );
-const getAnnToAdd = defaultMemoize((vals, n, type, annotationTypePlural) => {
-  const annToAdd = {
-    color: getFeatureToColorMap({ includeHidden: true })[vals.type || "primer_bind"],
-    //we won't have the correct color yet so we set it here
-    ...vals,
-    formName: n,
-    type,
-    annotationTypePlural,
-    name: vals.name || "Untitled"
-  };
-  if (!vals.useLinkedOligo) {
-    delete annToAdd.bases;
+const getAnnToAdd = defaultMemoize(
+  (vals, n, type, annotationTypePlural, sequenceLength) => {
+    const annToAdd = normalizeRange(
+      {
+        color: getFeatureToColorMap({ includeHidden: true })[vals.type || "primer_bind"],
+        //we won't have the correct color yet so we set it here
+        ...vals,
+        formName: n,
+        type,
+        annotationTypePlural,
+        name: vals.name || "Untitled"
+      },
+      sequenceLength
+    );
+    if (!vals.useLinkedOligo) {
+      delete annToAdd.bases;
+    }
+    return annToAdd;
   }
-  return annToAdd;
-});
+);
 const getSeqDataWithAnnToAdd = defaultMemoize(
   (seqData, ann, allowMultipleFeatureDirections) => {
     if (ann) {
@@ -153938,7 +153972,7 @@ DraggableCore$2.default = void 0;
 
 var React$1 = _interopRequireWildcard(React$3);
 
-var _propTypes = _interopRequireDefault(propTypesExports);
+var _propTypes = _interopRequireDefault(requirePropTypes());
 
 var _reactDom = _interopRequireDefault(ReactDOM$1);
 
@@ -154500,7 +154534,7 @@ _defineProperty$2(DraggableCore$1, "defaultProps", {
 
 	var React = _interopRequireWildcard(React$3);
 
-	var _propTypes = _interopRequireDefault(propTypesExports);
+	var _propTypes = _interopRequireDefault(requirePropTypes());
 
 	var _reactDom = _interopRequireDefault(ReactDOM$1);
 
@@ -161139,7 +161173,7 @@ function showFileDialog({ multiple = false, onSelect }) {
 }
 
 const name = "@teselagen/ove";
-const version = "0.3.12";
+const version = "0.3.14";
 const main = "./src/index.js";
 const exports$1 = {
 	".": {
@@ -177378,30 +177412,30 @@ class AddOrEditAnnotationDialog extends React$3.Component {
   formatStart = (val) => {
     const { isProtein } = this.props.sequenceData || {};
     if (isProtein) {
-      return (val + 2) / 3;
+      return lodashExports.round((val + 2) / 3);
     }
-    return val;
+    return lodashExports.round(val);
   };
   formatEnd = (val) => {
     const { isProtein } = this.props.sequenceData || {};
     if (isProtein) {
-      return val / 3;
+      return lodashExports.round(val / 3);
     }
-    return val;
+    return lodashExports.round(val);
   };
   parseStart = (val) => {
     const { isProtein } = this.props.sequenceData || {};
     if (isProtein) {
-      return val * 3 - 2;
+      return lodashExports.round(val * 3 - 2);
     }
-    return val;
+    return lodashExports.round(val);
   };
   parseEnd = (val) => {
     const { isProtein } = this.props.sequenceData || {};
     if (isProtein) {
-      return val * 3;
+      return lodashExports.round(val * 3);
     }
-    return val;
+    return lodashExports.round(val);
   };
   renderLocations = (props) => {
     const { fields } = props;
@@ -184673,7 +184707,7 @@ class GeneralProperties extends React$3.Component {
       {
         className: "veReadOnlySelect",
         disabled: !onSave || disableSetReadOnly,
-        onChange: (val) => console.log(`val:`, val) || handleReadOnlyChange(val === "readOnly", this.props),
+        onChange: (val) => handleReadOnlyChange(val === "readOnly", this.props),
         value: readOnly ? "readOnly" : "editable",
         options: [
           { label: "Read Only", value: "readOnly" },