@teselagen/ove 0.8.12 → 0.8.14

package/index.cjs.js

@@ -56614,10 +56614,7 @@ const DataTable = /* @__PURE__ */ __name((_w) => {
     });
   }
   const __schema = useDeepEqualMemo(_schema);
-  const convertedSchema = React.useMemo(
-    () => convertSchema(__schema),
-    [__schema]
-  );
+  const convertedSchema = React.useMemo(() => convertSchema(__schema), [__schema]);
   if (isLocalCall) {
     if (!noForm && (!formName || formName === "tgDataTable")) {
       throw new Error(
@@ -84842,7 +84839,9 @@ function validateSequence(sequence2, options = {}) {
         if (!sequence2[type2]) {
           sequence2[type2] = [];
         }
-        feature.type = type2.slice(0, -1);
+        if (type2 !== "parts") {
+          feature.type = type2.slice(0, -1);
+        }
         delete feature.notes.pragma;
         sequence2[type2].push(feature);
         return false;
@@ -85561,6 +85560,11 @@ function genbankToJson(string2, options = {}) {
       feat.arrowheadType = feat.notes.direction[0].toUpperCase() === "BOTH" ? "BOTH" : feat.notes.direction[0].toUpperCase() === "NONE" ? "NONE" : void 0;
       delete feat.notes.direction;
     }
+    if (feat.locations && feat.locations.length > 1 && feat.locations[0].start > feat.locations[feat.locations.length - 1].end) {
+      if (parsedSequence.circular === void 0) {
+        parsedSequence.circular = true;
+      }
+    }
     if (parsedSequence.circular) {
       const { inclusive1BasedStart: inclusive1BasedStart2, inclusive1BasedEnd: inclusive1BasedEnd2 } = options2;
       feat.locations = wrapOriginSpanningFeatures(
@@ -85569,6 +85573,8 @@ function genbankToJson(string2, options = {}) {
         inclusive1BasedStart2,
         inclusive1BasedEnd2
       );
+    } else if (feat.locations && feat.locations.length > 1) {
+      feat.locations.sort((a2, b3) => a2.start - b3.start);
     }
     return feat;
   }
@@ -116634,7 +116640,7 @@ function showFileDialog({ multiple = false, onSelect }) {
   input.click();
 }
 __name(showFileDialog, "showFileDialog");
-const version = "0.8.11";
+const version = "0.8.13";
 const packageJson = {
   version
 };
@@ -140116,10 +140122,10 @@ const AlignmentView$1 = compose(
           togglableAlignmentAnnotationSettings[annotation] = alignmentAnnotationVisibility[annotation];
         }
       });
-      const tracks = parseTracks(alignmentTracks);
-      const labileSites = getLabileSites(tracks, 0.5);
       const annotationsWithCounts = [];
       if (alignmentTracks) {
+        const tracks = parseTracks(alignmentTracks);
+        const labileSites = getLabileSites(tracks, 0.5);
         let totalNumOfFeatures = 0;
         let totalNumOfParts = 0;
         alignmentTracks.forEach((seq) => {

package/index.es.js

@@ -56596,10 +56596,7 @@ const DataTable = /* @__PURE__ */ __name((_w) => {
     });
   }
   const __schema = useDeepEqualMemo(_schema);
-  const convertedSchema = useMemo$1(
-    () => convertSchema(__schema),
-    [__schema]
-  );
+  const convertedSchema = useMemo$1(() => convertSchema(__schema), [__schema]);
   if (isLocalCall) {
     if (!noForm && (!formName || formName === "tgDataTable")) {
       throw new Error(
@@ -84824,7 +84821,9 @@ function validateSequence(sequence2, options = {}) {
         if (!sequence2[type2]) {
           sequence2[type2] = [];
         }
-        feature.type = type2.slice(0, -1);
+        if (type2 !== "parts") {
+          feature.type = type2.slice(0, -1);
+        }
         delete feature.notes.pragma;
         sequence2[type2].push(feature);
         return false;
@@ -85543,6 +85542,11 @@ function genbankToJson(string2, options = {}) {
       feat.arrowheadType = feat.notes.direction[0].toUpperCase() === "BOTH" ? "BOTH" : feat.notes.direction[0].toUpperCase() === "NONE" ? "NONE" : void 0;
       delete feat.notes.direction;
     }
+    if (feat.locations && feat.locations.length > 1 && feat.locations[0].start > feat.locations[feat.locations.length - 1].end) {
+      if (parsedSequence.circular === void 0) {
+        parsedSequence.circular = true;
+      }
+    }
     if (parsedSequence.circular) {
       const { inclusive1BasedStart: inclusive1BasedStart2, inclusive1BasedEnd: inclusive1BasedEnd2 } = options2;
       feat.locations = wrapOriginSpanningFeatures(
@@ -85551,6 +85555,8 @@ function genbankToJson(string2, options = {}) {
         inclusive1BasedStart2,
         inclusive1BasedEnd2
       );
+    } else if (feat.locations && feat.locations.length > 1) {
+      feat.locations.sort((a2, b3) => a2.start - b3.start);
     }
     return feat;
   }
@@ -116616,7 +116622,7 @@ function showFileDialog({ multiple = false, onSelect }) {
   input.click();
 }
 __name(showFileDialog, "showFileDialog");
-const version = "0.8.11";
+const version = "0.8.13";
 const packageJson = {
   version
 };
@@ -140098,10 +140104,10 @@ const AlignmentView$1 = compose(
           togglableAlignmentAnnotationSettings[annotation] = alignmentAnnotationVisibility[annotation];
         }
       });
-      const tracks = parseTracks(alignmentTracks);
-      const labileSites = getLabileSites(tracks, 0.5);
       const annotationsWithCounts = [];
       if (alignmentTracks) {
+        const tracks = parseTracks(alignmentTracks);
+        const labileSites = getLabileSites(tracks, 0.5);
         let totalNumOfFeatures = 0;
         let totalNumOfParts = 0;
         alignmentTracks.forEach((seq) => {

package/index.umd.js

@@ -85645,10 +85645,7 @@ ${latestSubscriptionCallbackError.current.stack}
       });
     }
     const __schema = useDeepEqualMemo(_schema);
-    const convertedSchema = reactExports.useMemo(
-      () => convertSchema(__schema),
-      [__schema]
-    );
+    const convertedSchema = reactExports.useMemo(() => convertSchema(__schema), [__schema]);
     if (isLocalCall) {
       if (!noForm && (!formName || formName === "tgDataTable")) {
         throw new Error(
@@ -113745,7 +113742,9 @@ ${latestSubscriptionCallbackError.current.stack}
           if (!sequence2[type2]) {
             sequence2[type2] = [];
           }
-          feature.type = type2.slice(0, -1);
+          if (type2 !== "parts") {
+            feature.type = type2.slice(0, -1);
+          }
           delete feature.notes.pragma;
           sequence2[type2].push(feature);
           return false;
@@ -114464,6 +114463,11 @@ ${latestSubscriptionCallbackError.current.stack}
         feat.arrowheadType = feat.notes.direction[0].toUpperCase() === "BOTH" ? "BOTH" : feat.notes.direction[0].toUpperCase() === "NONE" ? "NONE" : void 0;
         delete feat.notes.direction;
       }
+      if (feat.locations && feat.locations.length > 1 && feat.locations[0].start > feat.locations[feat.locations.length - 1].end) {
+        if (parsedSequence.circular === void 0) {
+          parsedSequence.circular = true;
+        }
+      }
       if (parsedSequence.circular) {
         const { inclusive1BasedStart: inclusive1BasedStart2, inclusive1BasedEnd: inclusive1BasedEnd2 } = options2;
         feat.locations = wrapOriginSpanningFeatures(
@@ -114472,6 +114476,8 @@ ${latestSubscriptionCallbackError.current.stack}
           inclusive1BasedStart2,
           inclusive1BasedEnd2
         );
+      } else if (feat.locations && feat.locations.length > 1) {
+        feat.locations.sort((a2, b3) => a2.start - b3.start);
       }
       return feat;
     }
@@ -144732,7 +144738,7 @@ Part of ${annotation.translationType} Translation from BPs ${annotation.start +
     input.click();
   }
   __name(showFileDialog, "showFileDialog");
-  const version = "0.8.11";
+  const version = "0.8.13";
   const packageJson = {
     version
   };
@@ -166612,10 +166618,10 @@ ${seqDataToCopy}\r
             togglableAlignmentAnnotationSettings[annotation] = alignmentAnnotationVisibility[annotation];
           }
         });
-        const tracks = parseTracks(alignmentTracks);
-        const labileSites = getLabileSites(tracks, 0.5);
         const annotationsWithCounts = [];
         if (alignmentTracks) {
+          const tracks = parseTracks(alignmentTracks);
+          const labileSites = getLabileSites(tracks, 0.5);
           let totalNumOfFeatures = 0;
           let totalNumOfParts = 0;
           alignmentTracks.forEach((seq) => {

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@teselagen/ove",
-  "version": "0.8.12",
+  "version": "0.8.14",
   "main": "./src/index.js",
   "type": "module",
   "exports": {
@@ -14,7 +14,7 @@
     "@blueprintjs/core": "3.54.0",
     "@hello-pangea/dnd": "16.2.0",
     "@risingstack/react-easy-state": "^6.3.0",
-    "@teselagen/bio-parsers": "0.4.28",
+    "@teselagen/bio-parsers": "0.4.29",
     "@teselagen/file-utils": "0.3.20",
     "@teselagen/range-utils": "0.3.13",
     "@teselagen/react-list": "0.8.18",

package/src/AlignmentView/index.js

@@ -1970,11 +1970,10 @@ export default compose(
         }
       });
 
-      const tracks = parseTracks(alignmentTracks);
-      const labileSites = getLabileSites(tracks, 0.5);
-
       const annotationsWithCounts = [];
       if (alignmentTracks) {
+        const tracks = parseTracks(alignmentTracks);
+        const labileSites = getLabileSites(tracks, 0.5);
         let totalNumOfFeatures = 0;
         let totalNumOfParts = 0;
         alignmentTracks.forEach(seq => {

package/src/redux/restrictionEnzymes.js

@@ -19,17 +19,6 @@ export const filteredRestrictionEnzymesAdd = createAction(
 // Reducer
 // ------------------------------------
 const defaultInitialState = [specialCutsiteFilterOptions.single];
-// let initialState = defaultInitialState;
-// const localDefault = window.localStorage.getItem("tgInitialCutsiteFilter");
-
-// if (localDefault) {
-//   try {
-//     initialState = JSON.parse(localDefault);
-//     if (!Array.isArray(initialState)) throw new Error("Must be an array");
-//   } catch (e) {
-//     initialState = defaultInitialState;
-//   }
-// }
 
 export default combineReducers({
   //filteredRestrictionEnzymes refer to the enzymes actively included in the react-select filter component