X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=examples%2FjalviewLiteJs.html;h=78054d7e01a35cef4d38a968355711c38a408636;hb=02f8e0098609a768e6a1a21c5c2928f81b5bf299;hp=2a90393e2e630751650e3d69e0c2acb0928bd5e6;hpb=9e3e20c98eae9498a68bb0a770359564797a12ef;p=jalview.git diff --git a/examples/jalviewLiteJs.html b/examples/jalviewLiteJs.html index 2a90393..78054d7 100644 --- a/examples/jalviewLiteJs.html +++ b/examples/jalviewLiteJs.html @@ -1,143 +1,30 @@ - - - - -JalviewLite API documentation - - - - - - - - - - -
- - - - -
       
- - - - - -
- -
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Home
Overview
Download
Applet - Version
Screenshots
FAQ
Documentation
Release - history
Source - Code
Development Version
Links
News - Mailing List
Discussion Mailing List

Please send problems
and - bug reports to the discussion list.
-
-

- -
- 		-

 

- JalviewLite Javascript API
 -

The jalviewLite applet's application programming interface (API) includes two components. A JalviewLite Javascript Library and the public methods on the JalviewLite applet. -

The best way to learn how to use the API is to see it in action on the demonstration pages below:

- -

Notes

+ + + + + + +

The jalviewLite applet's application programming interface (API) includes two components. A JalviewLite Javascript Library and the public methods on the JalviewLite applet. +

+

Notes

  • Unfortunately Javascript - Java communication is not possible using Internet Explorer or Opera on Macs. Please use Safari or @@ -153,7 +40,7 @@ pageTracker._trackPageview();
-

JalviewLite's Java API

 +

JalviewLite's Javascript API

The following public methods on the jalviewLite applet are available to be called from javascript:

//get list of IDs of selected sequences
 public String getSelectedSequences()
@@ -215,11 +102,21 @@ public String getAlignmentFrom(AlignFrame alf, String format)
 public String getAlignmentFrom(AlignFrame alf, String format, String suffix)
 
 // add the given features or annotation to the current alignment
+// if features are loaded, feature display is automatically enabled
 public void loadAnnotation(String annotation)
 
 // add the given features or annotation to the given alignment view
+// if features are loaded, feature display is automatically enabled
 public void loadAnnotationFrom(AlignFrame alf, String annotation)
 
+// parse the given string as a jalview or GFF features file and optionally enable feature display on the current alignment
+// (v2.8)
+public abstract void loadFeatures(String features, boolean autoenabledisplay)
+
+// parse the given string as a jalview or GFF features file and optionally enable feature display on the given alignment
+// (v2.8)
+public abstract void loadFeaturesFrom(AlignFrame alf, String features, boolean autoenabledisplay)
+
 // get the sequence features in the given format (Jalview or GFF)
 public String getFeatures(String format)
 
@@ -246,6 +143,8 @@ public AlignFrame newViewFrom(AlignFrame alf)
 public AlignFrame newViewFrom(AlignFrame alf, String name)
 
 // load a new alignment 
+// remember to store the AlignFrame object reference 
+// if you want to manipulate the new alignment view.
 public AlignFrame loadAlignment(String text, String title)
 
 
@@ -371,9 +270,5 @@ public static String getVersion()
 // debug flag - controls output to standard out
 public static boolean debug
 
-
-
- - + + \ No newline at end of file