igv 3.4.0 → 3.5.0

package/LICENSE

@@ -1,6 +1,6 @@
 The MIT License (MIT)
 
-Copyright (c) 2014-2019 Broad Institute of MIT and Harvard, Regents of the University of California
+Copyright (c) 2014-2025 Broad Institute of MIT and Harvard, Regents of the University of California
 
 Permission is hereby granted, free of charge, to any person obtaining a copy
 of this software and associated documentation files (the "Software"), to deal

package/README.md

@@ -18,19 +18,19 @@ Below are examples and a quickstart guide.  See the [developer documentation](ht
 
 # Examples
  
-***[Alignments](https://igv.org/web/release/3.3.0/examples/cram-vcf.html)***
+***[Alignments](https://igv.org/web/release/3.5.0/examples/cram-vcf.html)***
 
-***[Interactions](https://igv.org/web/release/3.3.0/examples/interact.html)***
+***[Interactions](https://igv.org/web/release/3.5.0/examples/interact.html)***
 
-***[Copy number](https://igv.org/web/release/3.3.0/examples/copyNumber.html)***
+***[Copy number](https://igv.org/web/release/3.5.0/examples/copyNumber.html)***
 
-***[Multiple regions](https://igv.org/web/release/3.3.0/examples/multi-locus.html)***
+***[Multiple regions](https://igv.org/web/release/3.5.0/examples/multi-locus.html)***
 
-***[Mutation Annotation Format (MAF)](https://igv.org/web/release/3.3.0/examples/maf-tcga.html)***
+***[Mutation Annotation Format (MAF)](https://igv.org/web/release/3.5.0/examples/maf-tcga.html)***
 
-***[Variant color options](https://igv.org/web/release/3.3.0/examples/variant-colors.html)***
+***[Variant color options](https://igv.org/web/release/3.5.0/examples/variant-colors.html)***
 
-***[More](https://igv.org/web/release/3.3.0/examples/)***
+***[More](https://igv.org/web/release/3.5.0/examples/)***
 
  
 # Quickstart
@@ -39,18 +39,18 @@ Below are examples and a quickstart guide.  See the [developer documentation](ht
 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@3.3.0/dist/](https://cdn.jsdelivr.net/npm/igv@3.3.0/dist/). 
+can be downloaded from [https://cdn.jsdelivr.net/npm/igv@3.5.0/dist/](https://cdn.jsdelivr.net/npm/igv@3.5.0/dist/). 
 
 To import igv as an ES6 module
 
 ```javascript
-import igv from "https://cdn.jsdelivr.net/npm/igv@3.3.0/dist/igv.esm.min.js"
+import igv from "https://cdn.jsdelivr.net/npm/igv@3.5.0/dist/igv.esm.min.js"
 ``` 
 
 Or as a script include (defines the "igv" global)
 
 ```html
-<script src="https://cdn.jsdelivr.net/npm/igv@3.3.0/dist/igv.min.js"></script>
+<script src="https://cdn.jsdelivr.net/npm/igv@3.5.0/dist/igv.min.js"></script>
 ```   
  
 Alternatively you can install with npm  
@@ -106,7 +106,12 @@ Windows users can use [Windows Subsystem for Linux](https://docs.microsoft.com/e
 
 ### Building
 
-Building igv.js and running the examples requires [node.js](https://nodejs.org/).
+Building igv.js and running the examples requires [node.js](https://nodejs.org/).  
+
+Development can be done directly from the source files by importing igv.js from ```js/index.js```.  
+See the html files in the ```dev``` folder for examples of how to import igv.js from the source
+directory. The ```dist```files are not required for development, however you must build at least 
+once to compile the CSS and create the required file  ```js/embedCss.js```.  
 
 
 ```  
@@ -123,6 +128,10 @@ This creates a dist folder with the following files
 * igv.esm.js --  ES6 module 
 * igv.esm.min.js --  minified version of igv.esm.js
 
+Additionally the file ```embedCSS.js``` is created in the ```js``` folder.  This contains the CSS required for igv.js,
+which is injected into a shadow root containing igv.js.
+
+
 ### Tests
 
 To run the tests from the command line

package/dist/igv.d.ts

@@ -216,7 +216,7 @@ export namespace Tracks {
         color?: string,
         altColor?: string,
         guidelines?: { color: string, y: number, dotted: boolean }[];
-        graphType?: "points" | "bar";
+        graphType?: "points" | "bar" | "line" | "heatmap" | "dynseq"
         flipAxis?: boolean;
         windowFunction?: "mean" | "max" | "min";