@teselagen/ove 0.5.21 → 0.5.23

package/index.cjs.js

@@ -35202,25 +35202,16 @@ var getIntrinsic = /* @__PURE__ */ __name(function GetIntrinsic(name2, allowMiss
   return value;
 }, "GetIntrinsic");
 var callBind$3 = { exports: {} };
-var esDefineProperty;
-var hasRequiredEsDefineProperty;
-function requireEsDefineProperty() {
-  if (hasRequiredEsDefineProperty)
-    return esDefineProperty;
-  hasRequiredEsDefineProperty = 1;
-  var GetIntrinsic3 = getIntrinsic;
-  var $defineProperty2 = GetIntrinsic3("%Object.defineProperty%", true) || false;
-  if ($defineProperty2) {
-    try {
-      $defineProperty2({}, "a", { value: 1 });
-    } catch (e2) {
-      $defineProperty2 = false;
-    }
+var GetIntrinsic$4 = getIntrinsic;
+var $defineProperty$2 = GetIntrinsic$4("%Object.defineProperty%", true) || false;
+if ($defineProperty$2) {
+  try {
+    $defineProperty$2({}, "a", { value: 1 });
+  } catch (e2) {
+    $defineProperty$2 = false;
   }
-  esDefineProperty = $defineProperty2;
-  return esDefineProperty;
 }
-__name(requireEsDefineProperty, "requireEsDefineProperty");
+var esDefineProperty = $defineProperty$2;
 var GetIntrinsic$3 = getIntrinsic;
 var $gOPD$1 = GetIntrinsic$3("%Object.getOwnPropertyDescriptor%", true);
 if ($gOPD$1) {
@@ -35231,7 +35222,7 @@ if ($gOPD$1) {
   }
 }
 var gopd$1 = $gOPD$1;
-var $defineProperty$1 = requireEsDefineProperty();
+var $defineProperty$1 = esDefineProperty;
 var $SyntaxError = syntax;
 var $TypeError$4 = type$1;
 var gopd = gopd$1;
@@ -35272,7 +35263,7 @@ var defineDataProperty$1 = /* @__PURE__ */ __name(function defineDataProperty(ob
     throw new $SyntaxError("This environment does not support defining a property as non-configurable, non-writable, or non-enumerable.");
   }
 }, "defineDataProperty");
-var $defineProperty = requireEsDefineProperty();
+var $defineProperty = esDefineProperty;
 var hasPropertyDescriptors = /* @__PURE__ */ __name(function hasPropertyDescriptors2() {
   return !!$defineProperty;
 }, "hasPropertyDescriptors");
@@ -35341,7 +35332,7 @@ var setFunctionLength = /* @__PURE__ */ __name(function setFunctionLength2(fn4,
   var $apply = GetIntrinsic3("%Function.prototype.apply%");
   var $call = GetIntrinsic3("%Function.prototype.call%");
   var $reflectApply = GetIntrinsic3("%Reflect.apply%", true) || bind3.call($call, $apply);
-  var $defineProperty2 = requireEsDefineProperty();
+  var $defineProperty2 = esDefineProperty;
   var $max = GetIntrinsic3("%Math.max%");
   module2.exports = /* @__PURE__ */ __name(function callBind2(originalFunction) {
     if (typeof originalFunction !== "function") {
@@ -89529,7 +89520,13 @@ function getReverseComplementAnnotation(annotation, sequenceLength) {
     start: sequenceLength - (annotation.end + 1),
     end: sequenceLength - (annotation.start + 1),
     forward: !annotation.forward,
-    strand: annotation.strand === 1 ? -1 : 1
+    strand: annotation.strand === 1 ? -1 : 1,
+    locations: annotation.locations ? annotation.locations.map((location2) => {
+      return {
+        start: sequenceLength - (location2.end + 1),
+        end: sequenceLength - (location2.start + 1)
+      };
+    }) : void 0
   });
 }
 __name(getReverseComplementAnnotation, "getReverseComplementAnnotation");
@@ -105753,11 +105750,11 @@ function getSelFromWrappedAddon(selectionLayer2, sequenceLength) {
   return selToUse;
 }
 __name(getSelFromWrappedAddon, "getSelFromWrappedAddon");
-function getStripedPattern({ color: color2 }) {
+function getStripedPattern({ color: color2, id: id2 }) {
   return /* @__PURE__ */ React$2.createElement(
     "pattern",
     {
-      id: "diagonalHatch",
+      id: `diagonalHatch-${id2}`,
       patternUnits: "userSpaceOnUse",
       width: "4",
       height: "4"
@@ -119223,14 +119220,14 @@ function PointedAnnotation(props) {
       isProtein: isProtein2,
       readOnly: readOnly2
     })),
-    isStriped && getStripedPattern({ color: color2 }),
+    isStriped && getStripedPattern({ color: color2, id: id2 }),
     /* @__PURE__ */ React$2.createElement(
       "path",
       {
         strokeWidth: "1",
         stroke: stroke || "black",
         opacity,
-        fill: isStriped ? "url(#diagonalHatch)" : fill || color2,
+        fill: isStriped ? `url(#diagonalHatch-${id2})` : fill || color2,
         transform: forward ? null : "translate(" + width + `,${flipAnnotation ? -extraHeight + 10 : 0}) scale(-1,${flipAnnotation ? "-" : ""}1) `,
         d: path2
       }
@@ -122409,7 +122406,7 @@ function showFileDialog({ multiple = false, onSelect }) {
 }
 __name(showFileDialog, "showFileDialog");
 const name = "@teselagen/ove";
-const version = "0.5.20";
+const version = "0.5.22";
 const main = "./src/index.js";
 const type = "module";
 const exports$1 = {
@@ -133086,14 +133083,14 @@ function CircularPrimer(props) {
     hasLabel: ellipsizedName,
     labelNeedsFlip
   });
-  return /* @__PURE__ */ React$2.createElement(React$2.Fragment, null, getStripedPattern({ color: color2 }), /* @__PURE__ */ React$2.createElement(
+  return /* @__PURE__ */ React$2.createElement(React$2.Fragment, null, getStripedPattern({ color: color2, id: id2 }), /* @__PURE__ */ React$2.createElement(
     "path",
     {
       className: "vePrimer veCircularViewPrimer",
       id: id2,
       strokeWidth: ".5",
       stroke: "black",
-      fill: "url(#diagonalHatch)",
+      fill: `url(#diagonalHatch-${id2})`,
       d: path2.print()
     }
   ), getInternalLabel(__spreadProps(__spreadValues({}, props), { colorToUse: color2, textPath })));
@@ -148975,6 +148972,7 @@ exports.connectToEditor = connectToEditor;
 exports.createVectorEditor = createVectorEditor;
 exports.getOveHotkeyDefs = getOveHotkeyDefs;
 exports.getRangeAnglesSpecial = getRangeAnglesSpecial;
+exports.getStructuredBases = getStructuredBases;
 exports.getUserGroupLabel = getUserGroupLabel;
 exports.specialCutsiteFilterOptions = specialCutsiteFilterOptions;
 exports.updateEditor = updateEditor;

package/index.d.ts

@@ -16,6 +16,7 @@ export { default as PositionAnnotationOnCircle } from './CircularView/PositionAn
 export { default as EnzymeViewer } from './EnzymeViewer';
 export { default as AlignmentView } from './AlignmentView';
 export { default as getOveHotkeyDefs } from './commands/getOveHotkeyDefs';
+export { getStructuredBases } from './RowItem/StackedAnnotations/getStructuredBases';
 export { default as withEditorProps, connectToEditor } from './withEditorProps';
 export { default as Editor, Editor as EditorUnconnected } from './Editor';
 export { default as CutsiteFilter, CutsiteFilter as CutsiteFilterUnconnected } from './CutsiteFilter';

package/index.es.js

@@ -35184,25 +35184,16 @@ var getIntrinsic = /* @__PURE__ */ __name(function GetIntrinsic(name2, allowMiss
   return value;
 }, "GetIntrinsic");
 var callBind$3 = { exports: {} };
-var esDefineProperty;
-var hasRequiredEsDefineProperty;
-function requireEsDefineProperty() {
-  if (hasRequiredEsDefineProperty)
-    return esDefineProperty;
-  hasRequiredEsDefineProperty = 1;
-  var GetIntrinsic3 = getIntrinsic;
-  var $defineProperty2 = GetIntrinsic3("%Object.defineProperty%", true) || false;
-  if ($defineProperty2) {
-    try {
-      $defineProperty2({}, "a", { value: 1 });
-    } catch (e2) {
-      $defineProperty2 = false;
-    }
+var GetIntrinsic$4 = getIntrinsic;
+var $defineProperty$2 = GetIntrinsic$4("%Object.defineProperty%", true) || false;
+if ($defineProperty$2) {
+  try {
+    $defineProperty$2({}, "a", { value: 1 });
+  } catch (e2) {
+    $defineProperty$2 = false;
   }
-  esDefineProperty = $defineProperty2;
-  return esDefineProperty;
 }
-__name(requireEsDefineProperty, "requireEsDefineProperty");
+var esDefineProperty = $defineProperty$2;
 var GetIntrinsic$3 = getIntrinsic;
 var $gOPD$1 = GetIntrinsic$3("%Object.getOwnPropertyDescriptor%", true);
 if ($gOPD$1) {
@@ -35213,7 +35204,7 @@ if ($gOPD$1) {
   }
 }
 var gopd$1 = $gOPD$1;
-var $defineProperty$1 = requireEsDefineProperty();
+var $defineProperty$1 = esDefineProperty;
 var $SyntaxError = syntax;
 var $TypeError$4 = type$1;
 var gopd = gopd$1;
@@ -35254,7 +35245,7 @@ var defineDataProperty$1 = /* @__PURE__ */ __name(function defineDataProperty(ob
     throw new $SyntaxError("This environment does not support defining a property as non-configurable, non-writable, or non-enumerable.");
   }
 }, "defineDataProperty");
-var $defineProperty = requireEsDefineProperty();
+var $defineProperty = esDefineProperty;
 var hasPropertyDescriptors = /* @__PURE__ */ __name(function hasPropertyDescriptors2() {
   return !!$defineProperty;
 }, "hasPropertyDescriptors");
@@ -35323,7 +35314,7 @@ var setFunctionLength = /* @__PURE__ */ __name(function setFunctionLength2(fn4,
   var $apply = GetIntrinsic3("%Function.prototype.apply%");
   var $call = GetIntrinsic3("%Function.prototype.call%");
   var $reflectApply = GetIntrinsic3("%Reflect.apply%", true) || bind3.call($call, $apply);
-  var $defineProperty2 = requireEsDefineProperty();
+  var $defineProperty2 = esDefineProperty;
   var $max = GetIntrinsic3("%Math.max%");
   module2.exports = /* @__PURE__ */ __name(function callBind2(originalFunction) {
     if (typeof originalFunction !== "function") {
@@ -89511,7 +89502,13 @@ function getReverseComplementAnnotation(annotation, sequenceLength) {
     start: sequenceLength - (annotation.end + 1),
     end: sequenceLength - (annotation.start + 1),
     forward: !annotation.forward,
-    strand: annotation.strand === 1 ? -1 : 1
+    strand: annotation.strand === 1 ? -1 : 1,
+    locations: annotation.locations ? annotation.locations.map((location2) => {
+      return {
+        start: sequenceLength - (location2.end + 1),
+        end: sequenceLength - (location2.start + 1)
+      };
+    }) : void 0
   });
 }
 __name(getReverseComplementAnnotation, "getReverseComplementAnnotation");
@@ -105735,11 +105732,11 @@ function getSelFromWrappedAddon(selectionLayer2, sequenceLength) {
   return selToUse;
 }
 __name(getSelFromWrappedAddon, "getSelFromWrappedAddon");
-function getStripedPattern({ color: color2 }) {
+function getStripedPattern({ color: color2, id: id2 }) {
   return /* @__PURE__ */ React__default$1.createElement(
     "pattern",
     {
-      id: "diagonalHatch",
+      id: `diagonalHatch-${id2}`,
       patternUnits: "userSpaceOnUse",
       width: "4",
       height: "4"
@@ -119205,14 +119202,14 @@ function PointedAnnotation(props) {
       isProtein: isProtein2,
       readOnly: readOnly2
     })),
-    isStriped && getStripedPattern({ color: color2 }),
+    isStriped && getStripedPattern({ color: color2, id: id2 }),
     /* @__PURE__ */ React__default$1.createElement(
       "path",
       {
         strokeWidth: "1",
         stroke: stroke || "black",
         opacity,
-        fill: isStriped ? "url(#diagonalHatch)" : fill || color2,
+        fill: isStriped ? `url(#diagonalHatch-${id2})` : fill || color2,
         transform: forward ? null : "translate(" + width + `,${flipAnnotation ? -extraHeight + 10 : 0}) scale(-1,${flipAnnotation ? "-" : ""}1) `,
         d: path2
       }
@@ -122391,7 +122388,7 @@ function showFileDialog({ multiple = false, onSelect }) {
 }
 __name(showFileDialog, "showFileDialog");
 const name = "@teselagen/ove";
-const version = "0.5.20";
+const version = "0.5.22";
 const main = "./src/index.js";
 const type = "module";
 const exports$1 = {
@@ -133068,14 +133065,14 @@ function CircularPrimer(props) {
     hasLabel: ellipsizedName,
     labelNeedsFlip
   });
-  return /* @__PURE__ */ React__default$1.createElement(React__default$1.Fragment, null, getStripedPattern({ color: color2 }), /* @__PURE__ */ React__default$1.createElement(
+  return /* @__PURE__ */ React__default$1.createElement(React__default$1.Fragment, null, getStripedPattern({ color: color2, id: id2 }), /* @__PURE__ */ React__default$1.createElement(
     "path",
     {
       className: "vePrimer veCircularViewPrimer",
       id: id2,
       strokeWidth: ".5",
       stroke: "black",
-      fill: "url(#diagonalHatch)",
+      fill: `url(#diagonalHatch-${id2})`,
       d: path2.print()
     }
   ), getInternalLabel(__spreadProps(__spreadValues({}, props), { colorToUse: color2, textPath })));
@@ -148959,6 +148956,7 @@ export {
   getGaps,
   getOveHotkeyDefs,
   getRangeAnglesSpecial,
+  getStructuredBases,
   getUserGroupLabel,
   specialCutsiteFilterOptions,
   updateEditor,

package/index.umd.js

@@ -118625,7 +118625,13 @@ ${latestSubscriptionCallbackError.current.stack}
       start: sequenceLength - (annotation.end + 1),
       end: sequenceLength - (annotation.start + 1),
       forward: !annotation.forward,
-      strand: annotation.strand === 1 ? -1 : 1
+      strand: annotation.strand === 1 ? -1 : 1,
+      locations: annotation.locations ? annotation.locations.map((location2) => {
+        return {
+          start: sequenceLength - (location2.end + 1),
+          end: sequenceLength - (location2.start + 1)
+        };
+      }) : void 0
     });
   }
   __name(getReverseComplementAnnotation, "getReverseComplementAnnotation");
@@ -134254,11 +134260,11 @@ ${seq.sequence}
     return selToUse;
   }
   __name(getSelFromWrappedAddon, "getSelFromWrappedAddon");
-  function getStripedPattern({ color: color2 }) {
+  function getStripedPattern({ color: color2, id: id2 }) {
     return /* @__PURE__ */ React$2.createElement(
       "pattern",
       {
-        id: "diagonalHatch",
+        id: `diagonalHatch-${id2}`,
         patternUnits: "userSpaceOnUse",
         width: "4",
         height: "4"
@@ -147724,14 +147730,14 @@ double click --> edit`}`;
         isProtein: isProtein2,
         readOnly: readOnly2
       })),
-      isStriped && getStripedPattern({ color: color2 }),
+      isStriped && getStripedPattern({ color: color2, id: id2 }),
       /* @__PURE__ */ React$2.createElement(
         "path",
         {
           strokeWidth: "1",
           stroke: stroke || "black",
           opacity: opacity2,
-          fill: isStriped ? "url(#diagonalHatch)" : fill || color2,
+          fill: isStriped ? `url(#diagonalHatch-${id2})` : fill || color2,
           transform: forward ? null : "translate(" + width + `,${flipAnnotation ? -extraHeight + 10 : 0}) scale(-1,${flipAnnotation ? "-" : ""}1) `,
           d: path2
         }
@@ -150876,7 +150882,7 @@ Part of ${annotation.translationType} Translation from BPs ${annotation.start +
   }
   __name(showFileDialog, "showFileDialog");
   const name = "@teselagen/ove";
-  const version = "0.5.20";
+  const version = "0.5.22";
   const main = "./src/index.js";
   const type = "module";
   const exports$1 = {
@@ -159948,14 +159954,14 @@ Part of ${annotation.translationType} Translation from BPs ${annotation.start +
       hasLabel: ellipsizedName,
       labelNeedsFlip
     });
-    return /* @__PURE__ */ React$2.createElement(React$2.Fragment, null, getStripedPattern({ color: color2 }), /* @__PURE__ */ React$2.createElement(
+    return /* @__PURE__ */ React$2.createElement(React$2.Fragment, null, getStripedPattern({ color: color2, id: id2 }), /* @__PURE__ */ React$2.createElement(
       "path",
       {
         className: "vePrimer veCircularViewPrimer",
         id: id2,
         strokeWidth: ".5",
         stroke: "black",
-        fill: "url(#diagonalHatch)",
+        fill: `url(#diagonalHatch-${id2})`,
         d: path2.print()
       }
     ), getInternalLabel(__spreadProps(__spreadValues({}, props), { colorToUse: color2, textPath })));
@@ -183215,6 +183221,7 @@ ${seqDataToCopy}\r
   exports2.createVectorEditor = createVectorEditor;
   exports2.getOveHotkeyDefs = getOveHotkeyDefs;
   exports2.getRangeAnglesSpecial = getRangeAnglesSpecial;
+  exports2.getStructuredBases = getStructuredBases;
   exports2.getUserGroupLabel = getUserGroupLabel;
   exports2.specialCutsiteFilterOptions = specialCutsiteFilterOptions;
   exports2.updateEditor = updateEditor;

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@teselagen/ove",
-  "version": "0.5.21",
+  "version": "0.5.23",
   "main": "./src/index.js",
   "exports": {
     ".": {
@@ -15,7 +15,7 @@
     "@teselagen/ui": "0.4.18",
     "@teselagen/file-utils": "0.3.16",
     "@teselagen/bounce-loader": "0.3.11",
-    "@teselagen/bio-parsers": "0.4.19",
+    "@teselagen/bio-parsers": "0.4.20",
     "@blueprintjs/core": "3.52.0",
     "@blueprintjs/datetime": "3.23.19",
     "@blueprintjs/icons": "3.33.0",

package/src/CircularView/Primer.js

@@ -26,13 +26,13 @@ export default function CircularPrimer(props) {
   });
   return (
     <React.Fragment>
-      {getStripedPattern({ color })}
+      {getStripedPattern({ color, id })}
       <path
         className="vePrimer veCircularViewPrimer"
         id={id}
         strokeWidth=".5"
         stroke="black"
-        fill="url(#diagonalHatch)"
+        fill={`url(#diagonalHatch-${id})`}
         d={path.print()}
       />
       {getInternalLabel({ ...props, colorToUse: color, textPath })}

package/src/RowItem/StackedAnnotations/PointedAnnotation.js

@@ -233,13 +233,13 @@ function PointedAnnotation(props) {
           })}
         </title>
       )}
-      {isStriped && getStripedPattern({ color })}
+      {isStriped && getStripedPattern({ color, id })}
 
       <path
         strokeWidth="1"
         stroke={stroke || "black"}
         opacity={opacity}
-        fill={isStriped ? "url(#diagonalHatch)" : fill || color}
+        fill={isStriped ? `url(#diagonalHatch-${id})` : fill || color}
         transform={
           forward
             ? null

package/src/index.js

@@ -51,3 +51,4 @@ export { default as PositionAnnotationOnCircle } from "./CircularView/PositionAn
 export { default as EnzymeViewer } from "./EnzymeViewer";
 export { default as AlignmentView } from "./AlignmentView";
 export { default as getOveHotkeyDefs } from "./commands/getOveHotkeyDefs";
+export { getStructuredBases } from "./RowItem/StackedAnnotations/getStructuredBases";

package/src/utils/editorUtils.js

@@ -171,10 +171,10 @@ export function getSelFromWrappedAddon(selectionLayer, sequenceLength) {
   return selToUse;
 }
 
-export function getStripedPattern({ color }) {
+export function getStripedPattern({ color, id }) {
   return (
     <pattern
-      id="diagonalHatch"
+      id={`diagonalHatch-${id}`}
       patternUnits="userSpaceOnUse"
       width="4"
       height="4"

package/utils/editorUtils.d.ts

@@ -30,7 +30,8 @@ export function getClientX(event: any): any;
 export function getClientY(event: any): any;
 export function hideAnnByLengthFilter(hideOpts: any, ann: any, seqLen: any): any;
 export function getSelFromWrappedAddon(selectionLayer: any, sequenceLength: any): any;
-export function getStripedPattern({ color }: {
+export function getStripedPattern({ color, id }: {
     color: any;
+    id: any;
 }): import("react/jsx-runtime").JSX.Element;
 export function getEnzymeAliases(enzyme: any): any[];