File:
[LON-CAPA] /
loncom /
html /
adm /
jmol /
Jmol.js
Revision
1.3:
download - view:
text,
annotated -
select for diffs
Thu Oct 11 00:42:00 2007 UTC (16 years, 11 months ago) by
albertel
Branches:
MAIN
CVS tags:
version_2_9_X,
version_2_9_99_0,
version_2_9_1,
version_2_9_0,
version_2_8_X,
version_2_8_99_1,
version_2_8_99_0,
version_2_8_2,
version_2_8_1,
version_2_8_0,
version_2_7_X,
version_2_7_99_1,
version_2_7_99_0,
version_2_7_1,
version_2_7_0,
version_2_6_X,
version_2_6_99_1,
version_2_6_99_0,
version_2_6_3,
version_2_6_2,
version_2_6_1,
version_2_6_0,
version_2_5_99_1,
version_2_5_99_0,
version_2_11_X,
version_2_11_5_msu,
version_2_11_5,
version_2_11_4_uiuc,
version_2_11_4_msu,
version_2_11_4,
version_2_11_3_uiuc,
version_2_11_3_msu,
version_2_11_3,
version_2_11_2_uiuc,
version_2_11_2_msu,
version_2_11_2_educog,
version_2_11_2,
version_2_11_1,
version_2_11_0_RC3,
version_2_11_0_RC2,
version_2_11_0_RC1,
version_2_11_0,
version_2_10_X,
version_2_10_1,
version_2_10_0_RC2,
version_2_10_0_RC1,
version_2_10_0,
loncapaMITrelate_1,
language_hyphenation_merge,
language_hyphenation,
bz6209-base,
bz6209,
bz5969,
bz2851,
PRINT_INCOMPLETE_base,
PRINT_INCOMPLETE,
HEAD,
GCI_3,
GCI_2,
GCI_1,
BZ5971-printing-apage,
BZ5434-fox,
BZ4492-merge,
BZ4492-feature_horizontal_radioresponse
- version 11.2.13 of Jmol
/* Jmol 11.0 script library Jmol.js (aka Jmol-11.js) 1:34 AM 3/19/2007
checkbox heirarchy -- see http://www.stolaf.edu/academics/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
// 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 <span> 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
var defaultdir = "."
var defaultjar = "JmolApplet.jar"
var undefined; // for IE 5 ... wherein undefined is undefined
////////////////////////////////////////////////////////////////
// Basic Scripting infrastruture
////////////////////////////////////////////////////////////////
function jmolInitialize(codebaseDirectory, fileNameOrUseSignedApplet) {
if (_jmol.initialized) {
//alert("jmolInitialize() should only be called *ONCE* within a page");
return;
}
if (! codebaseDirectory) {
alert("codebaseDirectory is a required parameter to jmolInitialize");
codebaseDirectory = ".";
}
if (codebaseDirectory.indexOf("http://") == 0 ||
codebaseDirectory.indexOf("https://") == 0)
alert("In general, an absolute URL is not recommended for codebaseDirectory.\n" +
"A directory- or docroot-relative reference is recommended.\n\n" +
"If you need to use an absolute URL (because, for example, the JAR and data\n" +
"files are on another server), then insert a space before\n" +
"\"http\" in your URL to avoid this warning message.");
_jmolSetCodebase(codebaseDirectory);
_jmolGetJarFilename(fileNameOrUseSignedApplet);
_jmolOnloadResetForms();
_jmol.initialized = true;
}
function jmolSetTranslation(TF) {
_jmol.params.doTranslate = ''+TF;
}
function _jmolGetJarFilename(fileNameOrFlag) {
_jmol.archivePath =
(typeof(fileNameOrFlag) == "string" ? fileNameOrFlag : (fileNameOrFlag ? "JmolAppletSigned" : "JmolApplet") + "0.jar");
}
function jmolSetDocument(doc) {
_jmol.currentDocument = doc;
}
function jmolSetAppletColor(boxbgcolor, boxfgcolor, progresscolor) {
_jmolInitCheck();
_jmol.params.boxbgcolor = boxbgcolor;
if (boxfgcolor)
_jmol.params.boxfgcolor = boxfgcolor
else if (boxbgcolor == "white" || boxbgcolor == "#FFFFFF")
_jmol.params.boxfgcolor = "black";
else
_jmol.params.boxfgcolor = "white";
if (progresscolor)
_jmol.params.progresscolor = progresscolor;
if (_jmol.debugAlert)
alert(" boxbgcolor=" + _jmol.params.boxbgcolor +
" boxfgcolor=" + _jmol.params.boxfgcolor +
" progresscolor=" + _jmol.params.progresscolor);
}
function jmolApplet(size, script, nameSuffix) {
_jmolInitCheck();
return _jmolApplet(size, null, script, nameSuffix);
}
////////////////////////////////////////////////////////////////
// Basic controls
////////////////////////////////////////////////////////////////
function jmolButton(script, label, id, title) {
_jmolInitCheck();
if (id == undefined || id == null)
id = "jmolButton" + _jmol.buttonCount;
if (label == undefined || label == null)
label = script.substring(0, 32);
++_jmol.buttonCount;
var scriptIndex = _jmolAddScript(script);
var t = "<span id=\"span_"+id+"\""+(title ? " title =\"" + title + "\"":"")+"><input type='button' name='" + id + "' id='" + id +
"' value='" + label +
"' onClick='_jmolClick(" + scriptIndex + _jmol.targetText +
")' onMouseover='_jmolMouseOver(" + scriptIndex +
");return true' onMouseout='_jmolMouseOut()' " +
_jmol.buttonCssText + "/></span>";
if (_jmol.debugAlert)
alert(t);
return _jmolDocumentWrite(t);
}
function jmolCheckbox(scriptWhenChecked, scriptWhenUnchecked,
labelHtml, isChecked, id, title) {
_jmolInitCheck();
if (id == undefined || id == null)
id = "jmolCheckbox" + _jmol.checkboxCount;
++_jmol.checkboxCount;
if (scriptWhenChecked == undefined || scriptWhenChecked == null ||
scriptWhenUnchecked == undefined || scriptWhenUnchecked == null) {
alert("jmolCheckbox requires two scripts");
return;
}
if (labelHtml == undefined || labelHtml == null) {
alert("jmolCheckbox requires a label");
return;
}
var indexChecked = _jmolAddScript(scriptWhenChecked);
var indexUnchecked = _jmolAddScript(scriptWhenUnchecked);
var eospan = "</span>"
var t = "<span id=\"span_"+id+"\""+(title ? " title =\"" + title + "\"":"")+"><input type='checkbox' name='" + id + "' id='" + id +
"' onClick='_jmolCbClick(this," +
indexChecked + "," + indexUnchecked + _jmol.targetText +
")' onMouseover='_jmolCbOver(this," + indexChecked + "," +
indexUnchecked +
");return true' onMouseout='_jmolMouseOut()' " +
(isChecked ? "checked " : "") + _jmol.checkboxCssText + "/>"
if (labelHtml.toLowerCase().indexOf("<td>")>=0) {
t += eospan
eospan = "";
}
t += labelHtml +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 = "<span id='"+(id ? id : groupName)+"'>";
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+="</span>"
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 = "<span id=\"span_"+id+"\""+(title ? " title =\"" + title + "\"":"")+"><a name='" + id + "' id='" + id +
"' href='javascript:_jmolClick(" + scriptIndex + _jmol.targetText + ");' onMouseover='_jmolMouseOver(" + scriptIndex +
");return true;' onMouseout='_jmolMouseOut()' " +
_jmol.linkCssText + ">" + label + "</a></span>";
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 = "<span id=\"span_"+id+"\""+(title ? " title =\"" + title + "\"":"")+"><input name='" + id + "' id='" + id +
"' size='"+size+"'><input type=button value = '"+label+"' onClick='jmolScript(document.getElementById(\""+id+"\").value" + _jmol.targetText + ")'/></span>";
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 = "<span id=\"span_"+id+"\""+(title ? " title =\"" + title + "\"":"")+"><select name='" + id + "' id='" + id +
"' onChange='_jmolMenuSelected(this" + _jmol.targetText + ")'" +
sizeText + _jmol.menuCssText + ">";
for (var i = 0; i < len; ++i) {
var menuItem = arrayOfMenuItems[i];
type = typeof menuItem;
var script, text;
var isSelected = undefined;
if (type == "object" && menuItem != null) {
script = menuItem[0];
text = menuItem[1];
isSelected = menuItem[2];
} else {
script = text = menuItem;
}
if (text == undefined || text == null)
text = script;
if (script=="#optgroup") {
t += "<optgroup label='" + text + "'>";
} else if (script=="#optgroupEnd") {
t += "</optgroup>";
} else {
var scriptIndex = _jmolAddScript(script);
var selectedText = isSelected ? "' selected>" : "'>";
t += "<option value='" + scriptIndex + selectedText + text + "</option>";
}
}
t += "</select></span>";
if (_jmol.debugAlert)
alert(t);
return _jmolDocumentWrite(t);
}
}
function jmolHtml(html) {
return _jmolDocumentWrite(html);
}
function jmolBr() {
return _jmolDocumentWrite("<br />");
}
////////////////////////////////////////////////////////////////
// advanced scripting functions
////////////////////////////////////////////////////////////////
function jmolDebugAlert(enableAlerts) {
_jmol.debugAlert = (enableAlerts == undefined || enableAlerts)
}
function jmolAppletInline(size, inlineModel, script, nameSuffix) {
_jmolInitCheck();
return _jmolApplet(size, _jmolSterilizeInline(inlineModel),
script, nameSuffix);
}
function jmolSetTarget(targetSuffix) {
_jmol.targetSuffix = targetSuffix;
_jmol.targetText = targetSuffix ? ",\"" + targetSuffix + "\"" : "";
}
function jmolScript(script, targetSuffix) {
if (script) {
_jmolCheckBrowser();
if (targetSuffix == "all") {
with (_jmol) {
for (var i = 0; i < appletSuffixes.length; ++i) {
var applet = _jmolGetApplet(appletSuffixes[i]);
if (applet) applet.script(script);
}
}
} else {
var applet=_jmolGetApplet(targetSuffix);
if (applet) applet.script(script);
}
}
}
function jmolLoadInline(model, targetSuffix) {
if (!model)return
var applet=_jmolGetApplet(targetSuffix);
if (applet)applet.loadInline(model);
}
function jmolLoadInlineScript(model, script, targetSuffix) {
if (!model)return
var applet=_jmolGetApplet(targetSuffix);
if (applet)applet.loadInline(model, script);
}
function jmolLoadInlineArray(ModelArray, script, targetSuffix) {
if (!model)return
if (!script)script=""
var applet=_jmolGetApplet(targetSuffix);
if (applet)applet.loadInlineArray(ModelArray, script);
}
function jmolCheckBrowser(action, urlOrMessage, nowOrLater) {
if (typeof action == "string") {
action = action.toLowerCase();
if (action != "alert" && action != "redirect" && action != "popup")
action = null;
}
if (typeof action != "string")
alert("jmolCheckBrowser(action, urlOrMessage, nowOrLater)\n\n" +
"action must be 'alert', 'redirect', or 'popup'");
else {
if (typeof urlOrMessage != "string")
alert("jmolCheckBrowser(action, urlOrMessage, nowOrLater)\n\n" +
"urlOrMessage must be a string");
else {
_jmol.checkBrowserAction = action;
_jmol.checkBrowserUrlOrMessage = urlOrMessage;
}
}
if (typeof nowOrLater == "string" && nowOrLater.toLowerCase() == "now")
_jmolCheckBrowser();
}
////////////////////////////////////////////////////////////////
// Cascading Style Sheet Class support
////////////////////////////////////////////////////////////////
function jmolSetAppletCssClass(appletCssClass) {
if (_jmol.hasGetElementById) {
_jmol.appletCssClass = appletCssClass;
_jmol.appletCssText = appletCssClass ? "class='" + appletCssClass + "' " : "";
}
}
function jmolSetButtonCssClass(buttonCssClass) {
if (_jmol.hasGetElementById) {
_jmol.buttonCssClass = buttonCssClass;
_jmol.buttonCssText = buttonCssClass ? "class='" + buttonCssClass + "' " : "";
}
}
function jmolSetCheckboxCssClass(checkboxCssClass) {
if (_jmol.hasGetElementById) {
_jmol.checkboxCssClass = checkboxCssClass;
_jmol.checkboxCssText = checkboxCssClass ? "class='" + checkboxCssClass + "' " : "";
}
}
function jmolSetRadioCssClass(radioCssClass) {
if (_jmol.hasGetElementById) {
_jmol.radioCssClass = radioCssClass;
_jmol.radioCssText = radioCssClass ? "class='" + radioCssClass + "' " : "";
}
}
function jmolSetLinkCssClass(linkCssClass) {
if (_jmol.hasGetElementById) {
_jmol.linkCssClass = linkCssClass;
_jmol.linkCssText = linkCssClass ? "class='" + linkCssClass + "' " : "";
}
}
function jmolSetMenuCssClass(menuCssClass) {
if (_jmol.hasGetElementById) {
_jmol.menuCssClass = menuCssClass;
_jmol.menuCssText = menuCssClass ? "class='" + menuCssClass + "' " : "";
}
}
////////////////////////////////////////////////////////////////
// functions for INTERNAL USE ONLY which are subject to change
// use at your own risk ... you have been WARNED!
////////////////////////////////////////////////////////////////
var _jmol = {
currentDocument: document,
debugAlert: false,
codebase: ".",
modelbase: ".",
appletCount: 0,
appletSuffixes: [],
buttonCount: 0,
checkboxCount: 0,
linkCount: 0,
cmdCount: 0,
menuCount: 0,
radioCount: 0,
radioGroupCount: 0,
appletCssClass: null,
appletCssText: "",
buttonCssClass: null,
buttonCssText: "",
checkboxCssClass: null,
checkboxCssText: "",
radioCssClass: null,
radioCssText: "",
linkCssClass: null,
linkCssText: "",
menuCssClass: null,
menuCssText: "",
targetSuffix: 0,
targetText: "",
scripts: [""],
params: {
progressbar: "true",
progresscolor: "blue",
boxbgcolor: "black",
boxfgcolor: "white",
boxmessage: "Downloading JmolApplet ..."
},
ua: navigator.userAgent.toLowerCase(),
uaVersion: parseFloat(navigator.appVersion),
os: "unknown",
browser: "unknown",
browserVersion: 0,
hasGetElementById: !!document.getElementById,
isJavaEnabled: navigator.javaEnabled(),
isNetscape47Win: false,
isIEWin: false,
useIEObject: false,
useHtml4Object: false,
windowsClassId: "clsid:8AD9C840-044E-11D1-B3E9-00805F499D93",
windowsCabUrl:
"http://java.sun.com/update/1.5.0/jinstall-1_5_0_05-windows-i586.cab",
isBrowserCompliant: false,
isJavaCompliant: false,
isFullyCompliant: false,
initialized: false,
initChecked: false,
browserChecked: false,
checkBrowserAction: "alert",
checkBrowserUrlOrMessage: null,
archivePath: null, // JmolApplet0.jar OR JmolAppletSigned0.jar
previousOnloadHandler: null,
ready: {}
}
with (_jmol) {
function _jmolTestUA(candidate) {
var ua = _jmol.ua;
var index = ua.indexOf(candidate);
if (index < 0)
return false;
_jmol.browser = candidate;
_jmol.browserVersion = parseFloat(ua.substring(index+candidate.length+1));
return true;
}
function _jmolTestOS(candidate) {
if (_jmol.ua.indexOf(candidate) < 0)
return false;
_jmol.os = candidate;
return true;
}
_jmolTestUA("konqueror") ||
_jmolTestUA("safari") ||
_jmolTestUA("omniweb") ||
_jmolTestUA("opera") ||
_jmolTestUA("webtv") ||
_jmolTestUA("icab") ||
_jmolTestUA("msie") ||
(_jmol.ua.indexOf("compatible") < 0 && _jmolTestUA("mozilla"));
_jmolTestOS("linux") ||
_jmolTestOS("unix") ||
_jmolTestOS("mac") ||
_jmolTestOS("win");
isNetscape47Win = (os == "win" && browser == "mozilla" &&
browserVersion >= 4.78 && browserVersion <= 4.8);
if (os == "win") {
isBrowserCompliant = hasGetElementById;
} else if (os == "mac") { // mac is the problem child :-(
if (browser == "mozilla" && browserVersion >= 5) {
// miguel 2004 11 17
// checking the plugins array does not work because
// Netscape 7.2 OS X still has Java 1.3.1 listed even though
// javaplugin.sf.net is installed to upgrade to 1.4.2
eval("try {var v = java.lang.System.getProperty('java.version');" +
" _jmol.isBrowserCompliant = v >= '1.4.2';" +
" } catch (e) { }");
} else if (browser == "opera" && browserVersion <= 7.54) {
isBrowserCompliant = false;
} else {
isBrowserCompliant = hasGetElementById &&
!((browser == "msie") ||
(browser == "safari" && browserVersion < 125.12));
}
} else if (os == "linux" || os == "unix") {
if (browser == "konqueror" && browserVersion <= 3.3)
isBrowserCompliant = false;
else
isBrowserCompliant = hasGetElementById;
} else { // other OS
isBrowserCompliant = hasGetElementById;
}
// possibly more checks in the future for this
isJavaCompliant = isJavaEnabled;
isFullyCompliant = isBrowserCompliant && isJavaCompliant;
// IE5.5 works just fine ... but let's push them to Sun Java
isIEWin = (os == "win" && browser == "msie" && browserVersion >= 5.5);
useIEObject = isIEWin;
useHtml4Object =
(os != "mac" && browser == "mozilla" && browserVersion >= 5) ||
(os == "win" && browser == "opera" && browserVersion >= 8) ||
(os == "mac" && browser == "safari" && browserVersion >= 412.2);
doTranslate = true;
haveSetTranslate = false;
}
function jmolSetCallback(callbackName,funcName) {
_jmol.params[callbackName] = funcName
}
function jmolSetLogLevel(n) {
_jmol.params.logLevel = ''+n;
}
/* AngelH, mar2007:
By (re)setting these variables in the webpage before calling jmolApplet(),
a custom message can be provided (e.g. localized for user's language) when no Java is installed.
*/
if (noJavaMsg==undefined) var noJavaMsg =
"You do not have Java applets enabled in your web browser, or your browser is blocking this applet.<br />\n" +
"Check the warning message from your browser and/or enable Java applets in<br />\n" +
"your web browser preferences, or install the Java Runtime Environment from <a href='http://www.java.com'>www.java.com</a><br />";
if (noJavaMsg2==undefined) var noJavaMsg2 =
"You do not have the<br />\n" +
"Java Runtime Environment<br />\n" +
"installed for applet support.<br />\n" +
"Visit <a href='http://www.java.com'>www.java.com</a>";
function _jmolApplet(size, inlineModel, script, nameSuffix) {
/* AngelH, mar2007
Fixed percent / pixel business, to avoid browser errors:
put "px" where needed, avoid where not.
*/
with (_jmol) {
if (! nameSuffix)
nameSuffix = appletCount;
appletSuffixes.push(nameSuffix);
++appletCount;
if (! script)
script = "select *";
var sz = _jmolGetAppletSize(size);
var widthAndHeight = " width='" + sz[0] + "' height='" + sz[1] + "' ";
var tHeader, tFooter;
if (useIEObject || useHtml4Object) {
params.name = 'jmolApplet' + nameSuffix;
params.archive = archivePath;
params.mayscript = 'true';
params.codebase = codebase;
}
if (useIEObject) { // use MSFT IE6 object tag with .cab file reference
winCodebase = (windowsCabUrl ? " codebase='" + windowsCabUrl + "'\n" : "");
tHeader =
"<object name='jmolApplet" + nameSuffix +
"' id='jmolApplet" + nameSuffix + "' " + appletCssText + "\n" +
" classid='" + windowsClassId + "'\n" + winCodebase + widthAndHeight + ">\n";
params.code = 'JmolApplet';
tFooter = "</object>";
} else if (useHtml4Object) { // use HTML4 object tag
tHeader =
"<object name='jmolApplet" + nameSuffix +
"' id='jmolApplet" + nameSuffix + "' " + appletCssText + "\n" +
" classid='java:JmolApplet'\n" +
" type='application/x-java-applet'\n" +
widthAndHeight + ">\n";
tFooter = "</object>";
} else { // use applet tag
tHeader =
"<applet name='jmolApplet" + nameSuffix +
"' id='jmolApplet" + nameSuffix +
"' " + appletCssText +
" code='JmolApplet'" +
" archive='" + archivePath + "' codebase='" + codebase + "'\n" +
widthAndHeight +
" mayscript='true'>\n";
tFooter = "</applet>";
}
var visitJava;
if (isIEWin || useHtml4Object) {
var szX = "width:" + sz[0]
if ( szX.indexOf("%")==-1 ) szX+="px"
var szY = "height:" + sz[1]
if ( szY.indexOf("%")==-1 ) szY+="px"
visitJava =
"<p style='background-color:yellow; color:black; " +
szX + ";" + szY + ";" +
// why doesn't this vertical-align work?
"text-align:center;vertical-align:middle;'>\n" +
noJavaMsg +
"</p>";
} else {
visitJava =
"<table bgcolor='yellow'><tr>" +
"<td align='center' valign='middle' " + widthAndHeight + "><font color='black'>\n" +
noJavaMsg2 +
"</font></td></tr></table>";
}
params.loadInline = (inlineModel ? inlineModel : "");
params.script = (script ? _jmolSterilizeScript(script) : "");
var t = tHeader + _jmolParams() + visitJava + tFooter;
jmolSetTarget(nameSuffix);
ready["jmolApplet" + nameSuffix] = false;
if (_jmol.debugAlert)
alert(t);
return _jmolDocumentWrite(t);
}
}
function _jmolParams() {
var t = "";
for (i in _jmol.params)
if(_jmol.params[i]!="")
t+=" <param name='"+i+"' value='"+_jmol.params[i]+"' />\n";
return t
}
function _jmolInitCheck() {
if (_jmol.initChecked)
return;
_jmol.initChecked = true;
if (_jmol.initialized)
return;
jmolInitialize(defaultdir, defaultjar)
}
function _jmolCheckBrowser() {
with (_jmol) {
if (browserChecked)
return;
browserChecked = true;
if (isFullyCompliant)
return true;
if (checkBrowserAction == "redirect")
location.href = checkBrowserUrlOrMessage;
else if (checkBrowserAction == "popup")
_jmolPopup(checkBrowserUrlOrMessage);
else {
var msg = checkBrowserUrlOrMessage;
if (msg == null)
msg = "Your web browser is not fully compatible with Jmol\n\n" +
"browser: " + browser +
" version: " + browserVersion +
" os: " + os +
"\n\n" + ua;
alert(msg);
}
}
return false;
}
function _jmolDocumentWrite(text) {
if (_jmol.currentDocument)
_jmol.currentDocument.write(text);
return text;
}
function _jmolPopup(url) {
var popup = window.open(url, "JmolPopup",
"left=150,top=150,height=400,width=600," +
"directories=yes,location=yes,menubar=yes," +
"toolbar=yes," +
"resizable=yes,scrollbars=yes,status=yes");
if (popup.focus)
poup.focus();
}
function _jmolReadyCallback(name) {
if (_jmol.debugAlert)
alert(name + " is ready");
_jmol.ready["" + name] = true;
}
function _jmolSterilizeScript(script) {
var inlineScript = script.replace(/'/g, "'");
if (_jmol.debugAlert)
alert("script:\n" + inlineScript);
return inlineScript;
}
function _jmolSterilizeInline(model) {
var inlineModel =
model.replace(/\r|\n|\r\n/g, "|").replace(/'/g, "'");
if (_jmol.debugAlert)
alert("inline model:\n" + inlineModel);
return inlineModel;
}
/* AngelH, mar2007:
By (re)setting this variable in the webpage before calling jmolApplet(), limits for applet size can be overriden.
*/
/* hansonr, jun2007:
2048 standard for GeoWall (http://geowall.geo.lsa.umich.edu/home.html)
*/
if (allowedJmolSize==undefined) var allowedJmolSize = [25, 2048, 300] // min, max, default (pixels)
function _jmolGetAppletSize(size) {
/* AngelH, mar2007
Accepts single number or 2-value array, each one can be either:
percent (text string ending %), decimal 0 to 1 (percent/100), number, or text string (interpreted as nr.)
Size is now returned as string or number, no "px".
*/
var width, height;
if ( (typeof size) == "object" && size != null ) {
width = size[0]; height = size[1];
} else {
width = height = size;
}
// if percent, leave it as it is:
if ( width.toString().charAt(width.toString().length-1) != "%" ) {
width = parseFloat(width); // convert to nr., or strip text, or make zero
if ( width <= 1 && width > 0 ) { width = (width*100)+"%" } // decimal: convert to percent and quit
else if ( width >= allowedJmolSize[0] && width <= allowedJmolSize[1] ) { width = parseInt(width) } // accept only that range (pixels)
else { width = allowedJmolSize[2] } // default size 300 pixels
}
if ( height.toString().charAt(height.toString().length-1) != "%" ) {
height = parseFloat(height);
if ( height <= 1 && height > 0 ) { height = (height*100)+"%" }
else if ( height >= allowedJmolSize[0] && height <= allowedJmolSize[1] ) { height = parseInt(height) }
else { height = allowedJmolSize[2] }
}
return [width, height];
}
function _jmolRadio(script, labelHtml, isChecked, separatorHtml, groupName, id, title) {
++_jmol.radioCount;
if (groupName == undefined || groupName == null)
groupName = "jmolRadioGroup" + (_jmol.radioGroupCount - 1);
if (!script)
return "";
if (labelHtml == undefined || labelHtml == null)
labelHtml = script.substring(0, 32);
if (! separatorHtml)
separatorHtml = "";
var scriptIndex = _jmolAddScript(script);
var eospan = "</span>"
var t = "<span id=\"span_"+id+"\""+(title ? " title =\"" + title + "\"":"")+"><input name='"
+ groupName + "' id='"+id+"' type='radio' onClick='_jmolClick(" +
scriptIndex + _jmol.targetText + ");return true;' onMouseover='_jmolMouseOver(" +
scriptIndex + ");return true;' onMouseout='_jmolMouseOut()' " +
(isChecked ? "checked " : "") + _jmol.radioCssText + "/>"
if (labelHtml.toLowerCase().indexOf("<td>")>=0) {
t += eospan
eospan = "";
}
t += labelHtml +eospan + separatorHtml;
return t;
}
function _jmolFindApplet(target) {
// first look for the target in the current window
var applet = _jmolFindAppletInWindow(window, target);
// THEN look for the target in child frames
if (applet == undefined)
applet = _jmolSearchFrames(window, target);
// FINALLY look for the target in sibling frames
if (applet == undefined)
applet = _jmolSearchFrames(top, target); // look starting in top frame
return applet;
}
function _jmolGetApplet(targetSuffix){
var target = "jmolApplet" + (targetSuffix ? targetSuffix : "0");
var applet = _jmolFindApplet(target);
if (applet) return applet
if(!_jmol.alerted)alert("could not find applet " + target);
_jmol.alerted = true;
return null
}
function _jmolSearchFrames(win, target) {
var applet;
var frames = win.frames;
if (frames && frames.length) { // look in all the frames below this window
for (var i = 0; i < frames.length; ++i) {
applet = _jmolSearchFrames(frames[i], target);
if (applet)
break;
}
} else { // look for the applet in this window
applet = _jmolFindAppletInWindow(win, target)
}
return applet;
}
function _jmolFindAppletInWindow(win, target) {
var doc = win.document;
// getElementById fails on MacOSX Safari & Mozilla
if (_jmol.useHtml4Object || _jmol.useIEObject)
return doc.getElementById(target);
else if (doc.applets)
return doc.applets[target];
else
return doc[target];
}
function _jmolAddScript(script) {
if (! script)
return 0;
var index = _jmol.scripts.length;
_jmol.scripts[index] = script;
return index;
}
function _jmolClick(scriptIndex, targetSuffix) {
jmolScript(_jmol.scripts[scriptIndex], targetSuffix);
}
function _jmolMenuSelected(menuObject, targetSuffix) {
var scriptIndex = menuObject.value;
if (scriptIndex != undefined) {
jmolScript(_jmol.scripts[scriptIndex], targetSuffix);
return;
}
var len = menuObject.length;
if (typeof len == "number") {
for (var i = 0; i < len; ++i) {
if (menuObject[i].selected) {
_jmolClick(menuObject[i].value, targetSuffix);
return;
}
}
}
alert("?Que? menu selected bug #8734");
}
_jmol.checkboxMasters = new Array();
_jmol.checkboxItems = new Array();
function jmolSetCheckboxGroup(chkMaster,chkBox) {
var id = chkMaster;
if(typeof(id)=="number")id = "jmolCheckbox" + id;
chkMaster = document.getElementById(id);
if (!chkMaster)alert("jmolSetCheckboxGroup: master checkbox not found: " + id);
var m = _jmol.checkboxMasters[id] = new Array();
m.chkMaster = chkMaster;
m.chkGroup = new Array();
for (var i = 1; i < arguments.length; i++){
var id = arguments[i];
if(typeof(id)=="number")id = "jmolCheckbox" + id;
checkboxItem = document.getElementById(id);
if (!checkboxItem)alert("jmolSetCheckboxGroup: group checkbox not found: " + id);
m.chkGroup[id] = checkboxItem;
_jmol.checkboxItems[id] = m;
}
}
function _jmolNotifyMaster(m){
//called when a group item is checked
var allOn = true;
var allOff = true;
for (var chkBox in m.chkGroup){
if(m.chkGroup[chkBox].checked)
allOff = false;
else
allOn = false;
}
if (allOn)m.chkMaster.checked = true;
if (allOff)m.chkMaster.checked = false;
if ((allOn || allOff) && _jmol.checkboxItems[m.chkMaster.id])
_jmolNotifyMaster(_jmol.checkboxItems[m.chkMaster.id])
}
function _jmolNotifyGroup(m, isOn){
//called when a master item is checked
for (var chkBox in m.chkGroup){
var item = m.chkGroup[chkBox]
item.checked = isOn;
if (_jmol.checkboxMasters[item.id])
_jmolNotifyGroup(_jmol.checkboxMasters[item.id], isOn)
}
}
function _jmolCbClick(ckbox, whenChecked, whenUnchecked, targetSuffix) {
_jmolClick(ckbox.checked ? whenChecked : whenUnchecked, targetSuffix);
if(_jmol.checkboxMasters[ckbox.id])
_jmolNotifyGroup(_jmol.checkboxMasters[ckbox.id], ckbox.checked)
if(_jmol.checkboxItems[ckbox.id])
_jmolNotifyMaster(_jmol.checkboxItems[ckbox.id])
}
function _jmolCbOver(ckbox, whenChecked, whenUnchecked) {
window.status = _jmol.scripts[ckbox.checked ? whenUnchecked : whenChecked];
}
function _jmolMouseOver(scriptIndex) {
window.status = _jmol.scripts[scriptIndex];
}
function _jmolMouseOut() {
window.status = " ";
return true;
}
function _jmolSetCodebase(codebase) {
_jmol.codebase = codebase ? codebase : ".";
if (_jmol.debugAlert)
alert("jmolCodebase=" + _jmol.codebase);
}
function _jmolOnloadResetForms() {
_jmol.previousOnloadHandler = window.onload;
window.onload =
function() {
with (_jmol) {
if (buttonCount+checkboxCount+menuCount+radioCount+radioGroupCount > 0) {
var forms = document.forms;
for (var i = forms.length; --i >= 0; )
forms[i].reset();
}
if (previousOnloadHandler)
previousOnloadHandler();
}
}
}
////////////////////////////////////
/////extensions for getProperty/////
////////////////////////////////////
function _jmolEvalJSON(s,key){
s=s+""
if(!s)return []
if(s.charAt(0)!="{"){
if(s.indexOf(" | ")>=0)s=s.replace(/\ \|\ /g, "\n")
return s
}
var A = eval("("+s+")")
if(!A)return
if(key && A[key])A=A[key]
return A
}
function _jmolEnumerateObject(A,key){
var sout=""
if(typeof(A) == "string" && A!="null"){
sout+="\n"+key+"=\""+A+"\""
}else if(!isNaN(A)||A==null){
sout+="\n"+key+"="+(A+""==""?"null":A)
}else if(A.length){
sout+=key+"=new Array()"
for(var i=0;i<A.length;i++){
sout+="\n"
if(typeof(A[i]) == "object"||typeof(A[i]) == "array"){
sout+=_jmolEnumerateObject(A[i],key+"["+i+"]")
}else{
sout+=key+"["+i+"]="+(typeof(A[i]) == "string" && A[i]!="null"?"\""+A[i].replace(/\"/g,"\\\"")+"\"":A[i])
}
}
}else{
if(key != ""){
sout+=key+"=new Array()"
key+="."
}
for(var i in A){
sout+="\n"
if(typeof(A[i]) == "object"||typeof(A[i]) == "array"){
sout+=_jmolEnumerateObject(A[i],key+i)
}else{
sout+=key+i+"="+(typeof(A[i]) == "string" && A[i]!="null"?"\""+A[i].replace(/\"/g,"\\\"")+"\"":A[i])
}
}
}
return sout
}
function _jmolSortKey0(a,b){
return (a[0]<b[0]?1:a[0]>b[0]?-1:0)
}
function _jmolSortMessages(A){
if(!A || typeof(A)!="object")return []
var B = new Array()
for(var i=A.length-1;i>=0;i--)for(var j=0;j<A[i].length;j++)B[B.length]=A[i][j]
if(B.length == 0) return
B=B.sort(_jmolSortKey0)
return B
}
/////////additional extensions //////////
function _jmolDomScriptLoad(URL){
//open(URL) //to debug
_jmol.servercall=URL
var node = document.getElementById("_jmolScriptNode")
if (node && _jmol.browser!="msie"){
document.getElementsByTagName("HEAD")[0].removeChild(node)
node=null
}
if (node) {
node.setAttribute("src",URL)
} else {
node=document.createElement("script")
node.setAttribute("id","_jmolScriptNode")
node.setAttribute("type","text/javascript")
node.setAttribute("src",URL)
document.getElementsByTagName("HEAD")[0].appendChild(node)
}
}
function _jmolExtractPostData(url){
S=url.split("&POST:")
var s=""
for(var i=1;i<S.length;i++){
KV=S[i].split("=")
s+="&POSTKEY"+i+"="+KV[0]
s+="&POSTVALUE"+i+"="+KV[1]
}
return "&url="+escape(S[0])+s
}
function _jmolLoadModel(targetSuffix,remoteURL,array,isError,errorMessage){
//called by server, but in client
//overload this function to customize return
_jmol.remoteURL=remoteURL
if(isError)alert(errorMessage)
jmolLoadInlineScript(array.join("\n"),_jmol.optionalscript,targetSuffix)
}
//////////user property/status functions/////////
function jmolGetStatus(strStatus,targetSuffix){
return _jmolSortMessages(jmolGetPropertyAsArray("jmolStatus",strStatus,targetSuffix))
}
function jmolGetPropertyAsArray(sKey,sValue,targetSuffix) {
return _jmolEvalJSON(jmolGetPropertyAsJSON(sKey,sValue,targetSuffix),sKey)
}
function jmolGetPropertyAsString(sKey,sValue,targetSuffix) {
var applet = _jmolGetApplet(targetSuffix);
if(!sValue)sValue=""
return (applet ? applet.getPropertyAsString(sKey,sValue) + "" : "")
}
function jmolGetPropertyAsJSON(sKey,sValue,targetSuffix) {
if(!sValue)sValue = ""
var applet = _jmolGetApplet(targetSuffix);
try {
return (applet ? applet.getPropertyAsJSON(sKey,sValue) + "" : "")
} catch(e) {
return ""
}
}
function jmolGetPropertyAsJavaObject(sKey,sValue,targetSuffix) {
if(!sValue)sValue = ""
var applet = _jmolGetApplet(targetSuffix);
return (applet ? applet.getProperty(sKey,sValue) : null)
}
function jmolDecodeJSON(s) {
return _jmolEnumerateObject(_jmolEvalJSON(s),"")
}
///////// synchronous scripting ////////
function jmolScriptWait(script, targetSuffix) {
if(!targetSuffix)targetSuffix="0"
var Ret=jmolScriptWaitAsArray(script, targetSuffix)
var s = ""
for(i=Ret.length;--i>=0;)
for(j=0;j< Ret[i].length;j++)
s+=Ret[i][j]+"\n"
return s
}
function jmolEvaluate(molecularMath, targetSuffix) {
//carries out molecular math on a model
if(!targetSuffix)targetSuffix="0"
var result = "" + jmolGetPropertyAsJavaObject("evaluate", molecularMath, targetSuffix);
var s = result.replace(/\-*\d+/,"")
if (s == "" && !isNaN(parseInt(result)))return parseInt(result);
var s = result.replace(/\-*\d*\.\d*/,"")
if (s == "" && !isNaN(parseFloat(result)))return parseFloat(result);
return result;
}
function jmolScriptEcho(script, targetSuffix) {
// returns a newline-separated list of all echos from a script
if(!targetSuffix)targetSuffix="0"
var Ret=jmolScriptWaitAsArray(script, targetSuffix)
var s = ""
for(i=Ret.length;--i>=0;)
for(j=Ret[i].length;--j>=0;)
if (Ret[i][j][1] == "scriptEcho")s+=Ret[i][j][3]+"\n"
return s.replace(/ \| /g, "\n")
}
function jmolScriptMessage(script, targetSuffix) {
// returns a newline-separated list of all messages from a script, ending with "script completed\n"
if(!targetSuffix)targetSuffix="0"
var Ret=jmolScriptWaitAsArray(script, targetSuffix)
var s = ""
for(i=Ret.length;--i>=0;)
for(j=Ret[i].length;--j>=0;)
if (Ret[i][j][1] == "scriptStatus")s+=Ret[i][j][3]+"\n"
return s.replace(/ \| /g, "\n")
}
function jmolScriptWaitAsArray(script, targetSuffix) {
var ret = ""
try{
jmolGetStatus("scriptEcho,scriptMessage,scriptStatus,scriptError",targetSuffix)
if (script) {
_jmolCheckBrowser();
var applet=_jmolGetApplet(targetSuffix);
if (applet) ret += applet.scriptWait(script);
ret = _jmolEvalJSON(ret,"jmolStatus")
if(typeof ret == "object")
return ret
}
}catch(e){
}
return [[ret]]
}
//////////// save/restore orientation /////////////
function jmolSaveOrientation(id, targetSuffix) {
if(!targetSuffix)targetSuffix="0"
return _jmol["savedOrientation"+id] = jmolGetPropertyAsArray("orientationInfo","info",targetSuffix).moveTo
}
function jmolRestoreOrientation(id, targetSuffix) {
if(!targetSuffix)targetSuffix="0"
var s=_jmol["savedOrientation"+id]
if (!s || s == "")return
s=s.replace(/1\.0/,"0")
return jmolScriptWait(s,targetSuffix)
}
function jmolRestoreOrientationDelayed(id, delay, targetSuffix) {
if(arguments.length < 2)delay=1;
if(!targetSuffix)targetSuffix="0"
var s=_jmol["savedOrientation"+id]
if (!s || s == "")return
s=s.replace(/1\.0/,delay)
return jmolScriptWait(s,targetSuffix)
}
//////////// add parameter /////////////
/*
* for adding callbacks or other parameters. Use:
jmolSetDocument(0)
var s= jmolApplet(....)
s = jmolAppletAddParam(s,"messageCallback", "myFunctionName")
document.write(s)
jmolSetDocument(document) // if you want to then write buttons and such normally
*/
function jmolAppletAddParam(appletCode,name,value){
if(value == "")return appletCode
return appletCode.replace(/\<param/,"\n<param name='"+name+"' value='"+value+"' />\n<param")
}
///////////////auto load Research Consortium for Structural Biology (RCSB) data ///////////
function jmolLoadAjax_STOLAF_RCSB(fileformat,pdbid,optionalscript,targetSuffix){
if(!_jmol.thismodel)_jmol.thismodel = "1crn"
if(!_jmol.serverURL)_jmol.serverURL="http://fusion.stolaf.edu/chemistry/jmol/getajaxjs.cfm"
if(!_jmol.RCSBserver)_jmol.RCSBserver="http://www.rcsb.org"
if(!_jmol.defaultURL_RCSB)_jmol.defaultURL_RCSB=_jmol.RCSBserver+"/pdb/files/1CRN.CIF"
if(!fileformat)fileformat="PDB"
if(!pdbid)pdbid=prompt("Enter a 4-digit PDB ID:",_jmol.thismodel)
if(!pdbid || pdbid.length != 4)return ""
if(!targetSuffix)targetSuffix="0"
if(!optionalscript)optionalscript=""
var url=_jmol.defaultURL_RCSB.replace(/1CRN/g,pdbid.toUpperCase())
if(fileformat!="CIF")url=url.replace(/CIF/,fileformat)
_jmol.optionalscript=optionalscript
_jmol.thismodel=pdbid
_jmol.thistargetsuffix=targetSuffix
_jmol.thisurl=url
_jmol.modelArray = new Array()
url=_jmol.serverURL+"?returnfunction=_jmolLoadModel&returnArray=_jmol.modelArray&id="+targetSuffix+_jmolExtractPostData(url)
_jmolDomScriptLoad(url)
return url
}
/////////////// St. Olaf College AJAX server -- ANY URL ///////////
function jmolLoadAjax_STOLAF_ANY(url, userid, optionalscript,targetSuffix){
_jmol.serverURL="http://fusion.stolaf.edu/chemistry/jmol/getajaxjs.cfm"
if(!_jmol.thisurlANY)_jmol.thisurlANY = "http://www.stolaf.edu/depts/chemistry/mo/struc/data/ycp3-1.mol"
if(!url)url=prompt("Enter any (uncompressed file) URL:", _jmol.thisurlANY)
if(!userid)userid="0"
if(!targetSuffix)targetSuffix="0"
if(!optionalscript)optionalscript=""
_jmol.optionalscript=optionalscript
_jmol.thistargetsuffix=targetSuffix
_jmol.modelArray = new Array()
_jmol.thisurl = url
url=_jmol.serverURL+"?returnfunction=_jmolLoadModel&returnArray=_jmol.modelArray&id="+targetSuffix+_jmolExtractPostData(url)
_jmolDomScriptLoad(url)
}
/////////////// Mineralogical Society of America (MSA) data /////////
function jmolLoadAjax_MSA(key,value,optionalscript,targetSuffix){
if(!_jmol.thiskeyMSA)_jmol.thiskeyMSA = "mineral"
if(!_jmol.thismodelMSA)_jmol.thismodelMSA = "quartz"
if(!_jmol.ajaxURL_MSA)_jmol.ajaxURL_MSA="http://rruff.geo.arizona.edu/AMS/result.php?mineral=quartz&viewing=ajaxjs"
if(!key)key=prompt("Enter a field:", _jmol.thiskeyMSA)
if(!key)return ""
if(!value)value=prompt("Enter a "+key+":", _jmol.thismodelMSA)
if(!value)return ""
if(!targetSuffix)targetSuffix="0"
if(!optionalscript)optionalscript=""
if(optionalscript == 1)optionalscript='load "" {1 1 1}'
var url=_jmol.ajaxURL_MSA.replace(/mineral/g,key).replace(/quartz/g,value)
_jmol.optionalscript=optionalscript
_jmol.thiskeyMSA=key
_jmol.thismodelMSA=value
_jmol.thistargetsuffix=targetSuffix
_jmol.thisurl=url
_jmol.modelArray = new Array()
loadModel=_jmolLoadModel
_jmolDomScriptLoad(url)
return url
}
function jmolLoadAjaxJS(url, userid, optionalscript,targetSuffix){
if(!userid)userid="0"
if(!targetSuffix)targetSuffix="0"
if(!optionalscript)optionalscript=""
_jmol.optionalscript=optionalscript
_jmol.thismodel=userid
_jmol.thistargetsuffix=targetSuffix
_jmol.modelArray = new Array()
_jmol.thisurl = url
url+="&returnFunction=_jmolLoadModel&returnArray=_jmol.modelArray&id="+targetSuffix
_jmolDomScriptLoad(url)
}
//// in case Jmol library has already been loaded:
}catch(e){}
///////////////moving atoms //////////////
// HIGHLY experimental!!
function jmolSetAtomCoord(i,x,y,z,targetSuffix){
_jmolCheckBrowser();
var applet=_jmolGetApplet(targetSuffix);
if (applet) applet.getProperty('jmolViewer').setAtomCoord(i,x,y,z)
}
function jmolSetAtomCoordRelative(i,x,y,z,targetSuffix){
_jmolCheckBrowser();
var applet=_jmolGetApplet(targetSuffix);
if (applet) applet.getProperty('jmolViewer').setAtomCoordRelative(i,x,y,z)
}
///////////////applet fake for testing buttons/////////////
if(document.location.search.indexOf("NOAPPLET")>=0){
jmolApplet = function(w){
var s="<table style='background-color:black' width="+w+"><tr height="+w+">"
+"<td align=center valign=center style='background-color:white'>"
+"Applet would be here"
+"<p><textarea id=fakeApplet rows=5 cols=50></textarea>"
+"</td></tr></table>"
return _jmolDocumentWrite(s)
}
_jmolFindApplet = function(){return jmolApplet0}
jmolApplet0 = {
script: function(script){document.getElementById("fakeApplet").value="\njmolScript:\n"+script}
,scriptWait: function(script){document.getElementById("fakeApplet").value="\njmolScriptWait:\n"+script}
,loadInline: function(data,script){document.getElementById("fakeApplet").value="\njmolLoadInline data:\n"+data+"\n\nscript:\n"+script}
}
}
///////////////////////////////////////////
//new 9:49 AM 3/6/2007:
//both w and h are optional.
//if either is between 0 and 1, then it is taken as percent/100.
//if either is greater than 1, then it is taken as a size.
function jmolResize(w,h) {
_jmol.alerted = true;
var percentW = (!w ? 100 : w <= 1 && w > 0 ? w * 100 : 0)
var percentH = (!h ? percentW : h <= 1 && h > 0 ? h * 100 : 0)
if (_jmol.browser=="msie") {
var width=document.body.clientWidth;
var height=document.body.clientHeight;
} else {
var netscapeScrollWidth=15;
var width=window.innerWidth - netscapeScrollWidth;
var height=window.innerHeight-netscapeScrollWidth;
}
var applet = _jmolGetApplet(0);
if(!applet)return;
applet.style.width = (percentW ? width * percentW/100 : w)+"px"
applet.style.height = (percentH ? height * percentH/100 : h)+"px"
title=width + " " + height + " " + (new Date())
}
FreeBSD-CVSweb <freebsd-cvsweb@FreeBSD.org>