igv 3.5.1 → 3.5.2

package/dist/igv.js

@@ -27017,14 +27017,14 @@
            if (phase) {
                stringA = sequenceInterval.getSequence(phaseExtentStart, phaseExtentEnd);
 
-               if (undefined === stringA) {
+               if (!stringA) {
                    return undefined
                }
 
                [ss, ee] = [getEonStart(riteExon), getEonStart(riteExon) + (3 - phase)];
                stringB = sequenceInterval.getSequence(ss, ee);
 
-               if (undefined === stringB) {
+               if (!stringB) {
                    return undefined
                }
 
@@ -27036,7 +27036,7 @@
            if (remainder) {
                stringB = sequenceInterval.getSequence(remainder.start, remainder.end);
 
-               if (undefined === stringB) {
+               if (!stringB) {
                    return undefined
                }
 
@@ -27044,7 +27044,7 @@
                const leftEnd = getExonEnd(leftExon);
                stringA = sequenceInterval.getSequence(leftEnd - leftPhase, leftEnd);
 
-               if (undefined === stringA) {
+               if (!stringA) {
                    return undefined
                }
 
@@ -42831,6 +42831,49 @@
            const end = Number.parseInt(se[1].replace(/,/g, ""));
            return new Locus({chr, start, end})
        }
+
+       /**
+        * Return true if the locus string represents a single base, e.g. "chr1:12345" or "chr1:12345-12345"
+        * @param locus
+        * @returns {boolean}
+        */
+       static isSingleBaseLocusString(locus) {
+
+           if (!locus || typeof locus !== 'string') {
+               return false
+           }
+
+           const parts = locus.split(':');
+           if (parts.length <= 1) {
+               return false
+           }
+
+           const range = parts[1].replace(/,/g, '');
+           if (!range) {
+               return false
+           }
+
+           const rangeParts = range.split('-');
+           const startString = rangeParts[0];
+           const start = parseInt(startString, 10);
+
+           if (String(start) !== startString || !Number.isInteger(start)) {
+               return false
+           }
+
+           if (rangeParts.length === 1) {
+               return true
+           }
+
+           const endString = rangeParts[1];
+           const end = parseInt(endString, 10);
+
+           if (String(end) !== endString || !Number.isInteger(end)) {
+               return false
+           }
+
+           return start === end
+       }
    }
 
    /*!
@@ -66986,7 +67029,7 @@ ${indent}columns: ${matrix.columns}
        })
    }
 
-   const _version = "3.5.1";
+   const _version = "3.5.2";
    function version() {
        return _version
    }
@@ -74241,6 +74284,12 @@ ${indent}columns: ${matrix.columns}
 
            await this.loadTrackList(nonLocalTrackConfigurations);
 
+           // If an initial locus is defined and represents a single basedo a "search" here.  This will force micro
+           // adjustments after width of track column(s) is known.  This can be an issue when the center gide is shown
+           // Without this adjustment the single base would be off center by a few pixels.
+           if (session.locus && Locus.isSingleBaseLocusString(session.locus)) {
+               await this.search(session.locus);
+           }
        }
 
        cleanHouseForSession() {