X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=examples%2FappletParameters.html;h=7eaf9f73308c8928be5404b2e46e447005191ea5;hb=b2f9a8d7bce642ff4011bc6d49e02bb0569fbb11;hp=167df36ee4c66c2a0c62710ab5433e31f9deadb3;hpb=f6d2bacccd10c9de8e86804847feb74a652e647f;p=jalview.git diff --git a/examples/appletParameters.html b/examples/appletParameters.html index 167df36..7eaf9f7 100644 --- a/examples/appletParameters.html +++ b/examples/appletParameters.html @@ -1,21 +1,22 @@ + * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.1) + * Copyright (C) 2014 The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. +--> Applet Parameters @@ -159,14 +160,15 @@ var _gaq = _gaq || [];_gaq.push(["_setAccount", "UA-9060947-1"]);_gaq.push(["_tr +

JalviewLite Applet Parameter Documentation

-

+The JalviewLite applet is configured through a series of applet parameters, +which are described below. Once initialised, +the applet can be interacted with via its +Javascript API. +

Issues arising from tightening of Java Security default settings
JalviewLite is provided as a signed applet with 'sandbox' permissions and wildcards that allow it to be run from any website. Unfortunately, earlier versions of Java are not compatible with these settings, so if you find that you cannot see any of the examples on the left, try the unsigned applet examples.

-

Additional applet deployment notes are below.

+

For additional deployment notes, see below.

Applet Parameters


The applet takes the following initialisation parameters.

@@ -234,7 +236,7 @@ href="jalviewLiteJs.html">here + Propensity, Strand Propensity, Turn Propensity, Buried Index, Nucleotide, T-Coffee Scores, RNA Helices
defaultColour One of:
Clustal, Blosum62, % Identity, Hydrophobic, Zappo, Taylor, Helix - Propensity, Strand Propensity, Turn Propensity, Buried Index, Nucleotide		 Default is no colour.