This is not a complaint, but an observation. Perhaps someone knows more
about it? Quite possibly it is a browser/java issue, not a Jmol one.
This comes up because when you use FirstGlance in Jmol in Internet
Explorer, it typically starts in a less-than-fullscreen window. You are
tempted to maximize the window while waiting for the applet to arrive. You
must then reload/refresh in order to resize the applet to fit the larger
window. I have warned users to wait until they see the molecule before
resizing the window.
If you click the browser's reload/refresh button on a Jmol page early
during applet loading, exactly when Jmol shows a blank black rectangle,
Jmol proceeds to its seconds-counting display, but stalls, never displaying
the molecule (counts as long as you wait). Reloading after the counting
starts did not cause a stall in limited tests.
I have observed this mostly with FirstGlance in Jmol
(bioinformatics.org/firstglance with Jmol 10.00.42) but also at
jmol.sourceforge.net/demo/cartoons (less reproducibly, with Jmol 10.00.43).
I see it 100% in Windows XP SP2 with Netscape 7 or 8 or Internet Explorer,
and often but not always with Firefox and Mozilla.
I see it some of the time with slightly different symptoms in Safari on Mac
OSX 10.3.9. It doesn't always happen, but when it does, Jmol may stall with
a black rectangle at the "Executing script" stage, or a second Jmol window
in the same browser session (jmol.sourceforge.net main page) may count
to >300 seconds without displaying the script.
Occasionally this premature reloading may crash the browser so that it
disappears abruptly and unceremoniously (seen with Netscape 8 and Safari).
Thanks for any insights, -Eric
/* - - - - - - - - - - - - - - - - - - - - - - - - - - -
Eric Martz, Professor Emeritus, Dept Microbiology
U Mass, Amherst -- http://www.umass.edu/molvis/martz
Protein Explorer - 3D Visualization: http://proteinexplorer.org
Workshops: http://www.umass.edu/molvis/workshop
Biochem Structure Tutorials http://MolviZ.org
World Index of Molecular Visualization Resources: http://molvisindex.org
ConSurf - Find Conserved Patches in Proteins: http://consurf.tau.ac.il
Atlas of Macromolecules: http://molvis.sdsc.edu/atlas/atlas.htm
PDB Lite Macromolecule Finder: http://pdblite.org
Molecular Visualization EMail List (molvis-list):
http://bioinformatics.org/mailman/listinfo/molvis-list
- - - - - - - - - - - - - - - - - - - - - - - - - - - */
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