Position:
Jmol._Canvas2D (Jmol) "jmolApplet1"[x]
loadScript /Jmol/j2s/core/package.js
loadScript /Jmol/j2s/core/corejmol.z.js
loadScript /Jmol/j2s/core/corescript.z.js
JSmol exec jmolApplet1 start applet null
Jmol JavaScript applet jmolApplet1__258706408392007__ initializing
Jmol getValue debug null
Jmol getValue logLevel null
Jmol getValue allowjavascript true
AppletRegistry.checkIn(jmolApplet1__258706408392007__)
vwrOptions:
{ "name":"jmolApplet1","allowJavaScript":true,"applet":true,"documentBase":"https://molsurfer.h-its.org/demo/1pvi/result.html","platform":"J.awtjs2d.Platform","fullName":"jmolApplet1__258706408392007__","codePath":"https:/Jmol/j2s/","display":"jmolApplet1_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"258706408392007","bgcolor":"#FFFFFF" }
setting document base to "https://molsurfer.h-its.org/demo/1pvi/result.html"
(C) 2015 Jmol Development
Jmol Version: 14.20.4 2017-07-27 08:15
java.vendor: Java2Script (HTML5)
java.version: 2017-07-06 02:22:33 (JSmol/j2s)
os.name: Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)
Access: ALL
memory: 0.0/0.0
processors available: 1
useCommandThread: false
appletId:jmolApplet1 (signed)
Jmol getValue emulate null
defaults = "Jmol"
Jmol getValue boxbgcolor null
Jmol getValue bgcolor #FFFFFF
backgroundColor = "#FFFFFF"
Jmol getValue ANIMFRAMECallback null
Jmol getValue APPLETREADYCallback Jmol._readyCallback
APPLETREADYCallback = "Jmol._readyCallback"
callback set for APPLETREADYCallback Jmol._readyCallback APPLETREADY
Jmol getValue ATOMMOVEDCallback null
Jmol getValue CLICKCallback null
Jmol getValue DRAGDROPCallback null
Jmol getValue ECHOCallback null
Jmol getValue ERRORCallback null
Jmol getValue EVALCallback null
Jmol getValue HOVERCallback null
Jmol getValue IMAGECallback null
Jmol getValue LOADSTRUCTCallback null
Jmol getValue MEASURECallback null
Jmol getValue MESSAGECallback null
Jmol getValue MINIMIZATIONCallback null
Jmol getValue SERVICECallback null
Jmol getValue PICKCallback null
Jmol getValue RESIZECallback null
Jmol getValue SCRIPTCallback null
Jmol getValue SYNCCallback null
Jmol getValue STRUCTUREMODIFIEDCallback null
Jmol getValue doTranslate null
language=en_US
Jmol getValue popupMenu null
Jmol getValue script null
Jmol getValue loadInline null
Jmol getValue load null
Jmol applet jmolApplet1__258706408392007__ ready
script 1 started
FileManager.getAtomSetCollectionFromFile(./adstemp/fileAll.pdb)
FileManager opening url https://molsurfer.h-its.org/demo/1pvi/adstemp/fileAll.pdb
The Resolver thinks Pdb
loadScript /Jmol/j2s/core/corebio.z.js
Time for openFile(./adstemp/fileAll.pdb): 310 ms
reading 3196 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Babel
3196 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
Jmol 14.20.4 2017-07-27 08:15 DSSP analysis for model 1.1 - null
W. Kabsch and C. Sander, Biopolymers, vol 22, 1983, pp 2577-2637
We thank Wolfgang Kabsch and Chris Sander for writing the DSSP software,
and we thank the CMBI for maintaining it to the extent that it was easy to
re-engineer in Java for our purposes.
Second generation DSSP 2.0 is used in this analysis. See Int. J. Mol. Sci. 2014, 15, 7841-7864; doi:10.3390/ijms15057841.
All bioshapes have been deleted and must be regenerated.
Time for creating model: 138 ms
selectHetero = true
showHydrogens = false
loadScript /Jmol/j2s/core/coresurface.z.js
loadScript /Jmol/j2s/J/shape/MeshCollection.js
loadScript /Jmol/j2s/J/shape/Mesh.js
loadScript /Jmol/j2s/J/render/MeshRenderer.js
reading isosurface data from https://molsurfer.h-its.org/demo/1pvi/temp/atom-to-atom_distance0_mesh.txt
FileManager opening url https://molsurfer.h-its.org/demo/1pvi/temp/atom-to-atom_distance0_mesh.txt
data file type was determined to be Pmesh
loadScript /Jmol/j2s/J/jvxl/readers/PmeshReader.js
loadScript /Jmol/j2s/J/jvxl/readers/PolygonFileReader.js
pmesh file contains 1399 vertices and 2589 polygons for 2589 triangles
boundbox corners {9.079 5.553 -17.621} {32.679 30.13 22.244}
interface created with cutoff=1.6; isosurface count: 1
1 id:interface; model:1.1; vertices:1399; polygons:2589; visible:true; dataRange:[0.0, 0.0, 0.0, 0.0]; title:isosurface ID interface pmesh ./temp/atom-to-atom_distance0_mesh.txt nomesh fill;
3196 atoms selected
0 atoms selected
Script completed
Jmol script terminated
Jmol._readyCallback failed TypeError: Cannot set properties of undefined (setting 'border')
loadScript /Jmol/j2s/J/g3d/HermiteRenderer.js