igv 2.15.0 → 2.15.1

package/README.md

@@ -18,19 +18,19 @@ Below are examples and a quickstart guide.  See the [Wiki](https://github.com/ig
 
 # Examples
  
-***[Alignments](https://igv.org/web/release/2.13.9/examples/cram-vcf.html)***
+***[Alignments](https://igv.org/web/release/2.15.1/examples/cram-vcf.html)***
 
-***[Interactions](https://igv.org/web/release/2.13.9/examples/interact.html)***
+***[Interactions](https://igv.org/web/release/2.15.1/examples/interact.html)***
 
-***[Copy number](https://igv.org/web/release/2.13.9/examples/copyNumber.html)***
+***[Copy number](https://igv.org/web/release/2.15.1/examples/copyNumber.html)***
 
-***[Multiple regions](https://igv.org/web/release/2.13.9/examples/multi-locus.html)***
+***[Multiple regions](https://igv.org/web/release/2.15.1/examples/multi-locus.html)***
 
-***[Mutation Annotation Format (MAF)](https://igv.org/web/release/2.13.9/examples/maf-tcga.html)***
+***[Mutation Annotation Format (MAF)](https://igv.org/web/release/2.15.1/examples/maf-tcga.html)***
 
-***[Variant color options](https://igv.org/web/release/2.13.9/examples/variant-colors.html)***
+***[Variant color options](https://igv.org/web/release/2.15.1/examples/variant-colors.html)***
 
-***[More](https://igv.org/web/release/2.13.9/examples/)***
+***[More](https://igv.org/web/release/2.15.1/examples/)***
 
  
 # Quickstart
@@ -39,18 +39,18 @@ Below are examples and a quickstart guide.  See the [Wiki](https://github.com/ig
 igv.js consists of a single javascript file with no external dependencies.  
 
 Pre-built files for script include, AMD, or CJS module systems (igv.min.js) and an ES6 module (igv.esm.min.js)
-can be downloaded from [https://cdn.jsdelivr.net/npm/igv@2.13.9/dist/](https://cdn.jsdelivr.net/npm/igv@2.13.9/dist/). 
+can be downloaded from [https://cdn.jsdelivr.net/npm/igv@2.15.1/dist/](https://cdn.jsdelivr.net/npm/igv@2.15.1/dist/). 
 
 To import igv as an ES6 module
 
 ```javascript
-import igv from "https://cdn.jsdelivr.net/npm/igv@2.13.9/dist/igv.esm.min.js"
+import igv from "https://cdn.jsdelivr.net/npm/igv@2.15.1/dist/igv.esm.min.js"
 ``` 
 
 Or as a script include (defines the "igv" global)
 
 ```html
-<script src="https://cdn.jsdelivr.net/npm/igv@2.13.9/dist/igv.min.js"></script>
+<script src="https://cdn.jsdelivr.net/npm/igv@2.15.1/dist/igv.min.js"></script>
 ```   
  
 Alternatively you can install with npm  

package/dist/igv.esm.js

@@ -23922,7 +23922,7 @@ const Cytoband = function (start, end, name, typestain) {
     }
 };
 
-const _version = "2.15.0";
+const _version = "2.15.1";
 function version() {
     return _version
 }
@@ -25916,7 +25916,25 @@ function decodeBed(tokens, header) {
         }
 
         if (tokens.length > 11) {
-            const exons = decodeExons(tokens[9], tokens[10], tokens[11]);
+            const exonCount = parseInt(tokens[9]);
+            // Some basic validation
+            if (exonCount > 1000) {
+                // unlikely
+                return feature
+            }
+
+            const exonSizes = tokens[10].replace(/,$/, '').split(',');
+            const exonStarts = tokens[11].replace(/,$/, '').split(',');
+            if (!(exonSizes.length === exonStarts.length && exonCount === exonSizes.length)) {
+                return feature
+            }
+
+            const exons = [];
+            for (let i = 0; i < exonCount; i++) {
+                const eStart = start + parseInt(exonStarts[i]);
+                const eEnd = eStart + parseInt(exonSizes[i]);
+                exons.push({start: eStart, end: eEnd});
+            }
             if (exons.length > 0) {
                 findUTRs$1(exons, feature.cdStart, feature.cdEnd);
                 feature.exons = exons;
@@ -25940,7 +25958,6 @@ function decodeBed(tokens, header) {
     }
 
     return feature
-
 }
 
 /**