error in IE 9 loading MSketch with empty molecule

User 870ab5b546

03-10-2012 19:28:31

I recently got a dual-boot machine, so I've been trying some things on Internet Explorer 9.

Loading a JSP page with a Marvin applet recently, I got this error:

ERROR: 

No such child: -1



STACK TRACE:

java.lang.ArrayIndexOutOfBoundsException: No such child: -1

	at java.awt.Container.getComponent(Unknown Source)

	at chemaxon.marvin.sketch.swing.SketchPanel.setStatusBarVisible(Unknown Source)

	at chemaxon.marvin.sketch.swing.SketchPanel.molInit(Unknown Source)

	at chemaxon.marvin.common.swing.MolPanel.init(Unknown Source)

	at chemaxon.marvin.applet.AbstractMarvinApplet$3.run(Unknown Source)

	at java.awt.event.InvocationEvent.dispatch(Unknown Source)

	at java.awt.EventQueue.dispatchEventImpl(Unknown Source)

	at java.awt.EventQueue.access$200(Unknown Source)

	at java.awt.EventQueue$3.run(Unknown Source)

	at java.awt.EventQueue$3.run(Unknown Source)

	at java.security.AccessController.doPrivileged(Native Method)

	at java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)

	at java.awt.EventQueue.dispatchEvent(Unknown Source)

	at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)

	at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)

	at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)

	at java.awt.EventDispatchThread.pumpEvents(Unknown Source)

	at java.awt.EventDispatchThread.pumpEvents(Unknown Source)

	at java.awt.EventDispatchThread.run(Unknown Source)

MarvinSketch then hung, and never finished loading. I did not get this error in any other browser that I tried (e.g., Chrome on PC).

Here's the code we use to load MarvinSketch:

<script type="text/javascript">

// <!-- 

	startMSketch('', MARVIN, 'evalApplet', !LOAD_SELECTIONS, 'marvin');

// -->

</script>





var LOAD_SELECTIONS = true;

function startMSketch(marvinMol, qFlagsJS, appletName, loadSelections,

        marvinVersion) {

    // if qFlagsJS is negative, size of panel is opposite from usual

    var qFlagsNeg = qFlagsJS < 0;

    qFlagsJS = Math.abs(qFlagsJS);

    var majorType = qFlagsJS & MAJORTYPEMASK;

    var isMechanism = majorType == MECHANISM;

    var isSynthesis = majorType == SYNTHESIS;

    var panelWidth = 450;

    var panelHeight = (appletName == 'responseApplet'

                || appletName == 'synthAuthApplet'

                || appletName == 'hybridMarvin'

                || appletName == 'pKaMarvin'

                || appletName == 'targetapplet'

                || appletName == 'queryapplet'

                || appletName == 'evalApplet'

            ? 400 : 350);

    if (((isMechanism || isSynthesis) && !qFlagsNeg)

            || (!isMechanism && !isSynthesis && qFlagsNeg)) {

        panelWidth = 500;

        panelHeight = (appletName == 'responseApplet' ? 530 : 500);

    }

    var is3D = (qFlagsJS & THREEDIM) != 0;

    var valenceErrorVisible = new String((qFlagsJS & BADVALENCEINVISIBLE) == 0);

    // special case for public/comparetwo.jsp, skeletons.jsp, 

    // public/ACEStructure/synthTest.jsp, pasteSynthTest.jsp, 

    // authortool/evaluators/loadEvaluatorStruct.jsp.h 

    var extraBonds = (appletName == 'targetapplet'

            || appletName == 'queryapplet'

            || appletName == 'synthAuthApplet'

            || appletName == 'evalApplet'

                ? 'wedge,either,coordinate,arom,any,aromany,1or2,ctu'

                : 'wedge,either,arom,coordinate');

    // special case for public/hybrids.jsp, pKa.jsp, parity.jsp, testMarvin.jsp

    var atomNumbers = (appletName == 'hybridMarvin' ? 'true' : 'false');



    msketch_name = appletName;

    msketch_begin('/nosession/' + marvinVersion, panelWidth, panelHeight);

    msketch_param('molbg', '#ffffff');

    var hydrogensVisible = getHVisibility(qFlagsJS);

    var configurationFile = 'configuration'

            + (appletName == 'synthAuthApplet'

                    || appletName == 'targetapplet'

                    || appletName == 'queryapplet' ? 'SynthAuth'

                : isSynthesis ? 'Synth'

                : isMechanism ? 'Mech'

                : is3D ? '3D'

                : hydrogensVisible != 'heteroterm' ? 'ImplicitH'

                : 'Normal')

            + '.xml';

    msketch_param('menuconfig', configurationFile);

    // tried to change name of ACENewmanProjs.mrv to ACEConformers.mrv, but

    // wouldn't work; don't know why not

    msketch_param('ttmpls0', '*Generic*chemaxon/marvin/templates/ACE'

            + (is3D ? 'NewmanProjs.mrv' : 'Generics.t'));

    if (!is3D) msketch_param('tmpls6',

            ':Conformers:chemaxon/marvin/templates/ACENewmanProjs.mrv');

    msketch_param('abbrevgroups', 'chemaxon/marvin/templates/ACE.abbrevgroups');

    msketch_param('scale', '32'); // C-C bond length in pixels; also increases font size

    msketch_param('implicitH', hydrogensVisible);

    msketch_param('sketchCarbonVisibility', getCVisibility(qFlagsJS));

    msketch_param('lonePairsVisible', getLonePairsVisible(qFlagsJS));

    msketch_param('valenceErrorVisible', valenceErrorVisible);

    msketch_param('valencePropertyVisible', 'false');

    msketch_param('chiralitySupport', getRSLabelsVisible(qFlagsJS));

    msketch_param('atomMappingVisible', getAtomMapping(qFlagsJS));

    msketch_param('atomNumbersVisible', atomNumbers);

    msketch_param('atomPropertiesVisible', 'false');

    msketch_param('mol', marvinMol);

    msketch_param('extraBonds', extraBonds);

    msketch_param('reactionSupport', 'false');

    msketch_param('skin', 'javax.swing.plaf.metal.MetalLookAndFeel');

    msketch_param('legacy_lifecycle', !isLeopardSafari());

    msketch_param('statusBar', 'true');

    msketch_param('defaultTool', 'select');

    if (loadSelections) msketch_param('molLoaderFinishedEvent',

            'javascript:loadSelections();');

    msketch_mayscript = true;

    msketch_end();

} // startMSketch()

I did not get the error when the molecule to load into MarvinSketch was not empty:

<script type="text/javascript">

// <!-- 

	startMSketch('<?xml version="1.0" ?>\r\n<MDocument>\r\n  <MChemicalStruct>\r\n    <molecule molID="m1">\r\n      <atomArray\r\n          atomID="a1 a2 a3 a4 a5 a6 a7 a8 a9 a10 a11"\r\n          elementType="C C C C C C C C C S C"\r\n          x2="-7.350000000000001 -7.350000000000001 -8.683733333333334 -6.0162666666666675 -1.9282666666666668 -3.2522933333333337 -1.915386666666667 -0.5848266666666668 -0.5913600000000001 -4.682720000000001 -3.2586400000000006"\r\n          y2="6.381760000000001 4.841760000000001 4.07176 4.07176 4.637360000000001 2.3215733333333337 1.5571733333333337 2.332773333333334 3.872960000000001 4.841760000000001 3.8617600000000003"\r\n          \/>\r\n      <bondArray>\r\n        <bond atomRefs2="a2 a4" order="1" \/>\r\n        <bond atomRefs2="a2 a1" order="1" \/>\r\n        <bond atomRefs2="a2 a3" order="1" \/>\r\n        <bond atomRefs2="a4 a10" order="1" \/>\r\n        <bond atomRefs2="a5 a11" order="1" \/>\r\n        <bond atomRefs2="a11 a6" order="2" \/>\r\n        <bond atomRefs2="a6 a7" order="1" \/>\r\n        <bond atomRefs2="a7 a8" order="2" \/>\r\n        <bond atomRefs2="a8 a9" order="1" \/>\r\n        <bond atomRefs2="a5 a9" order="2" \/>\r\n        <bond atomRefs2="a10 a11" order="1" \/>\r\n      <\/bondArray>\r\n    <\/molecule>\r\n  <\/MChemicalStruct>\r\n<\/MDocument>\r\n', 

			MARVIN, 'evalApplet', !LOAD_SELECTIONS, 

			'marvin');

// -->

</script>

Any ideas?