#!/bin/sh
# Collect -D & -m options as java arguments
command=java
while [ `echo $1 | egrep '^-D|^-m' | wc -l` != 0 ]; do
command="$command $1"
shift
done
# Determine installation location
if [ "$JMOL_HOME" = "" ]; then
binDir=${0%/*}
if [ "$binDir" = "$0" ]; then
# Ran from local directory
binDir=$PWD
fi
# Resolve symlinks.
program="$0"
while [ -L "$program" ]; do
ls=`/bin/ls -ld "$program"`
link=`/usr/bin/expr "$ls" : '.*-> \(.*\)$'`
if /usr/bin/expr "$link" : '.*/.*' > /dev/null; then
program="$link"
else
program="`/usr/bin/dirname $program`/$link"
fi
done
binDir=`dirname $program`
fi
JMOL_HOME=${JMOL_HOME:-$binDir}
libDir=${JMOL_HOME}/jars
if [ ! -e ${JMOL_HOME}/Jmol.jar ]; then
echo "Jmol could not find its installed files."
exit
fi
$command -Djmol.home="$JMOL_HOME" -jar ${JMOL_HOME}/Jmol.jar "$@"
/* Jmol 11.7 script library Jmol.js 15:32 06.12.2008 Bob Hanson
checkbox heirarchy -- see http://chemapps.stolaf.edu/jmol/docs/examples-11/check.htm
based on:
*
* Copyright (C) 2004-2005 Miguel, Jmol Development, www.jmol.org
*
* Contact: hansonr@stolaf.edu
*
* This library is free software; you can redistribute it and/or
* modify it under the terms of the GNU Lesser General Public
* License as published by the Free Software Foundation; either
* version 2.1 of the License, or (at your option) any later version.
*
* This library 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
* Lesser General Public License for more details.
*
* You should have received a copy of the GNU Lesser General Public
* License along with this library; if not, write to the Free Software
* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA
* 02111-1307 USA.
*/
// for documentation see www.jmol.org/jslibrary
try{if(typeof(_jmol)!="undefined")exit()
// place "?NOAPPLET" on your command line to check applet control action with a textarea
// place "?JMOLJAR=xxxxx" to use a specific jar file
// bob hanson -- jmolResize(w,h) -- resizes absolutely or by percent (w or h 0.5 means 50%)
// bob hanson -- jmolEvaluate -- evaluates molecular math 8:37 AM 2/23/2007
// bob hanson -- jmolScriptMessage -- returns all "scriptStatus" messages 8:37 AM 2/23/2007
// bob hanson -- jmolScriptEcho -- returns all "scriptEcho" messages 8:37 AM 2/23/2007
// bob hanson -- jmolScriptWait -- 11:31 AM 5/2/2006
// bob hanson -- remove trailing separatorHTML in radio groups -- 12:18 PM 5/6/2006
// bob hanson -- adds support for dynamic DOM script nodes 7:04 AM 5/19/2006
// bob hanson -- adds try/catch for wiki - multiple code passes 7:05 AM 5/19/2006
// bob hanson -- auto-initiates to defaultdir/defaultjar -- change as desired.
// bob hanson -- adding save/restore orientation w/ and w/o delay 11:49 AM 5/25/2006
// bob hanson -- adding AjaxJS service 11:16 AM 6/3/2006
// bob hanson -- fix for iframes not available for finding applet
// bob hanson -- added applet fake ?NOAPPLET URL flag
// bob hanson -- added jmolSetCallback(calbackName, funcName) 3:32 PM 6/13/2006
// used PRIOR to jmolApplet() or jmolAppletInline()
// added 4th array element in jmolRadioGroup -- title
// added and id around link, checkbox, radio, menu
// fixing AJAX loads for MSIE/Opera-Mozilla incompatibility
// -- renamed Jmol-11.js from Jmol-new.js; JmolApplet.jar from JmolAppletProto.jar
// renamed Jmol.js for Jmol 11 distribution
// -- modified jmolRestoreOrientation() to be immediate, no 1-second delay
// bob hanson -- jmolScriptWait always returns a string -- 11:23 AM 9/16/2006
// bh -- jmolCommandInput()
// bh -- jmolSetTranslation(TF) -- forces translation even if there might be message callback issues
// bh -- minor fixes suggested by Angel
// bh -- adds jmolSetSyncId() and jmolGetSyncId()
// bh 3/2008 -- adds jmolAppendInlineScript() and jmolAppendInlineArray()
// bh 3/2008 -- fixes IE7 bug in relation to jmolLoadInlineArray()
// bh 6/2008 -- adds jmolSetAppletWindow()
// Angel H. 6/2008 -- added html "
var t = ""
if (labelHtml.toLowerCase().indexOf("
")>=0) {
t += eospan
eospan = "";
}
t += "" +eospan;
if (_jmol.debugAlert)
alert(t);
return _jmolDocumentWrite(t);
}
function jmolStartNewRadioGroup() {
++_jmol.radioGroupCount;
}
function jmolRadioGroup(arrayOfRadioButtons, separatorHtml, groupName, id, title) {
/*
array: [radio1,radio2,radio3...]
where radioN = ["script","label",isSelected,"id","title"]
*/
_jmolInitCheck();
var type = typeof arrayOfRadioButtons;
if (type != "object" || type == null || ! arrayOfRadioButtons.length) {
alert("invalid arrayOfRadioButtons");
return;
}
if (separatorHtml == undefined || separatorHtml == null)
separatorHtml = " ";
var len = arrayOfRadioButtons.length;
jmolStartNewRadioGroup();
if (!groupName)
groupName = "jmolRadioGroup" + (_jmol.radioGroupCount - 1);
var t = "";
for (var i = 0; i < len; ++i) {
if (i == len - 1)
separatorHtml = "";
var radio = arrayOfRadioButtons[i];
type = typeof radio;
if (type == "object") {
t += _jmolRadio(radio[0], radio[1], radio[2], separatorHtml, groupName, (radio.length > 3 ? radio[3]: (id ? id : groupName)+"_"+i), (radio.length > 4 ? radio[4] : 0), title);
} else {
t += _jmolRadio(radio, null, null, separatorHtml, groupName, (id ? id : groupName)+"_"+i, title);
}
}
t+=""
if (_jmol.debugAlert)
alert(t);
return _jmolDocumentWrite(t);
}
function jmolRadio(script, labelHtml, isChecked, separatorHtml, groupName, id, title) {
_jmolInitCheck();
if (_jmol.radioGroupCount == 0)
++_jmol.radioGroupCount;
var t = _jmolRadio(script, labelHtml, isChecked, separatorHtml, groupName, (id ? id : groupName + "_" + _jmol.radioCount), title ? title : 0);
if (_jmol.debugAlert)
alert(t);
return _jmolDocumentWrite(t);
}
function jmolLink(script, label, id, title) {
_jmolInitCheck();
if (id == undefined || id == null)
id = "jmolLink" + _jmol.linkCount;
if (label == undefined || label == null)
label = script.substring(0, 32);
++_jmol.linkCount;
var scriptIndex = _jmolAddScript(script);
var t = "" + label + "";
if (_jmol.debugAlert)
alert(t);
return _jmolDocumentWrite(t);
}
function jmolCommandInput(label, size, id, title) {
_jmolInitCheck();
if (id == undefined || id == null)
id = "jmolCmd" + _jmol.cmdCount;
if (label == undefined || label == null)
label = "Execute";
if (size == undefined || isNaN(size))
size = 60;
++_jmol.cmdCount;
var t = "";
if (_jmol.debugAlert)
alert(t);
return _jmolDocumentWrite(t);
}
function jmolMenu(arrayOfMenuItems, size, id, title) {
_jmolInitCheck();
if (id == undefined || id == null)
id = "jmolMenu" + _jmol.menuCount;
++_jmol.menuCount;
var type = typeof arrayOfMenuItems;
if (type != null && type == "object" && arrayOfMenuItems.length) {
var len = arrayOfMenuItems.length;
if (typeof size != "number" || size == 1)
size = null;
else if (size < 0)
size = len;
var sizeText = size ? " size='" + size + "' " : "";
var t = "