From: jprocter Date: Fri, 4 Nov 2011 15:26:14 +0000 (+0000) Subject: (JAL-980) update Jmol library to 12.2.16452 (built from SVN) X-Git-Tag: Archived_Release_2_7~20^2~3 X-Git-Url: http://source.jalview.org/gitweb/?p=jalview.git;a=commitdiff_plain;h=c96d1ad3a9353b165fd761e910ecebd3e76cbe69 (JAL-980) update Jmol library to 12.2.16452 (built from SVN) --- diff --git a/.classpath b/.classpath index 1838768..f5f1631 100644 --- a/.classpath +++ b/.classpath @@ -17,8 +17,6 @@ - - @@ -40,7 +38,8 @@ + + - diff --git a/appletlib/JmolApplet-12.1.13.jar b/appletlib/JmolApplet-12.1.13.jar deleted file mode 100644 index 27c7bd6..0000000 Binary files a/appletlib/JmolApplet-12.1.13.jar and /dev/null differ diff --git a/appletlib/JmolApplet-12.2.16452.jar b/appletlib/JmolApplet-12.2.16452.jar new file mode 100644 index 0000000..697c8ce Binary files /dev/null and b/appletlib/JmolApplet-12.2.16452.jar differ diff --git a/build.xml b/build.xml index 736b5e6..aa57423 100755 --- a/build.xml +++ b/build.xml @@ -101,7 +101,7 @@ - + diff --git a/examples/appletParameters.html b/examples/appletParameters.html index 24452b6..fe13955 100644 --- a/examples/appletParameters.html +++ b/examples/appletParameters.html @@ -19,7 +19,7 @@ button by setting the embed parameter to true;
<param name="embedded" value="true"> -

**NEW FEATURES** in Jalview 2.7

  • Javascript callbacks capabilities
    • oninit parameter and methods for registering javascript handlers for selections, mouseovers and linking to Jmol applets on the page.
    • To use javascript callbacks, ensure the applet tag includes the 'mayscript' attribute - either as a parameter (<param name="mayscript" value="true"/;gt;) or as a bare attribute in the applet html tag).
  • New jalviewLite java api methods for selecting, highlighting, scrolling and reordering sequences in an alignment view.

**NEW FEATURES** in Jalview 2.6

  • Jmol compatibility updated to Jmol 12.1.x series - download the JmolApplet here
  • To use Jmol as the structure viewer for Jalview, you must include the jar file in the applet archive argument thus:
    archive="jalviewApplet.jar,Jmol-12.1.13.jar"
  • Jmol 12.x requires at least Java 1.5 to run in the clients web browser. If the client does not have Java 1.5, or if the Jmol-12.1.13.jar is not added to the archive, the original Jalview structure viewer will still be available.
  • Jalview 2.6 works only with Jmol version 12.1.13 or later. You can use the JmolApplet.jar from the Jmol binary distribution available at the Jmol Sourceforge site, or download the Jmol applet from here
  • Minimum recommended version of Java runtime for the applet is now 1.5 (JalviewLite v2.6 without the Jmol viewer may work ok on earlier Java environments but compatibility can no-longer be guaranteed).
+

** NEW FEATURES ** in Jalview 2.7.1

  • Jmol compatibility updated to Jmol 12.2.x series - download the JmolApplet here
  • To use Jmol as the structure viewer for Jalview, you must include the jar file in the applet archive argument thus:
    archive="jalviewApplet.jar,Jmol-12.2.16452.jar"
  • Jmol 12.2.x requires at least Java 1.6 to run in the clients web browser. If the client does not have Java 1.6, or if the Jmol-12.2.jar is not added to the archive, the original Jalview structure viewer will still be available.

**NEW FEATURES** in Jalview 2.7

  • Javascript callbacks capabilities
    • oninit parameter and methods for registering javascript handlers for selections, mouseovers and linking to Jmol applets on the page.
    • To use javascript callbacks, ensure the applet tag includes the 'mayscript' attribute - either as a parameter (<param name="mayscript" value="true"/;gt;) or as a bare attribute in the applet html tag).
  • New jalviewLite java api methods for selecting, highlighting, scrolling and reordering sequences in an alignment view.

**NEW FEATURES** in Jalview 2.6

  • Jmol compatibility updated to Jmol 12.1.x series
  • Jalview 2.6 works only with Jmol version 12.1.13 or later. You can use the JmolApplet.jar from the Jmol binary distribution available at the Jmol Sourceforge site, or download the Jmol applet from here
  • Minimum recommended version of Java runtime for the applet is now 1.5 (JalviewLite v2.6 without the Jmol viewer may work ok on earlier Java environments but compatibility can no-longer be guaranteed).

**NEW FEATURES** in Jalview 2.5

  • New parameters to control display of tree annotation, width of alignment columns, and to disable the jalview button and check for Jmol on startup.

**NEW FEATURES** in Jalview 2.4

  • New applet API methods for feature display control, views, and obtaining current selection via javascript.
    • diff --git a/examples/applets.html b/examples/applets.html index d67c8b1..a768be6 100755 --- a/examples/applets.html +++ b/examples/applets.html @@ -79,7 +79,7 @@ + archive="jalviewApplet.jar,JmolApplet-12.2.16452.jar"> diff --git a/examples/embeddedWJmol.html b/examples/embeddedWJmol.html index 2a3e65a..3f3903d 100644 --- a/examples/embeddedWJmol.html +++ b/examples/embeddedWJmol.html @@ -19,7 +19,7 @@