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(Forgot to send reply to whole list)<br>
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-------- Original Message --------
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<th nowrap="nowrap" valign="BASELINE" align="RIGHT">Subject:
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<td>Re: [Chimera-users] Chimera on a virtualbox</td>
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<th nowrap="nowrap" valign="BASELINE" align="RIGHT">Date: </th>
<td>Tue, 05 Feb 2013 13:51:47 -0800</td>
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<th nowrap="nowrap" valign="BASELINE" align="RIGHT">From: </th>
<td>Greg Couch <a class="moz-txt-link-rfc2396E" href="mailto:gregc@cgl.ucsf.edu"><gregc@cgl.ucsf.edu></a></td>
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<th nowrap="nowrap" valign="BASELINE" align="RIGHT">To: </th>
<td><a class="moz-txt-link-abbreviated" href="mailto:chris.wood@stfc.ac.uk">chris.wood@stfc.ac.uk</a></td>
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<div class="moz-cite-prefix">Hi Chris,<br>
<br>
So what are you trying to do with Chimera inside a virtual
machine? Presumably, you're not trying to use it graphically
because virtualized graphics performance is usually abysmal.
Chimera benefits immensely from direct access to the graphics
hardware. So that leaves using Chimera as a server, and for
that the headless version of Chimera is usually better -- the
headless version uses a software implementation of OpenGL and
thus avoids any driver issues.<br>
<br>
That said, this bug is still likely to be related to OpenGL
support in VirtualBox. Make sure the computer that VirtualBox
is running on has an up-to-date OpenGL graphics driver. It
doesn't matter what VirtualBox does if the underlying system has
a bad graphics driver.<br>
<br>
To confirm that the bug is in the graphics driver, get a
backtrace of where the error occurs by using gdb as follows in a
Terminal window (and assuming there is a symbolic link to the
chimera binary on your path):<br>
<br>
% export CHIMERA=`chimera --root`<br>
% export LD_LIBRARY_PATH=$CHIMERA/lib<br>
% gdb $CHIMERA/bin/python2.7<br>
(gdb) break_exit<br>
(gdb) run $CHIMERA/share/__main__.py --debug<br>
(gdb) bt<br>
<br>
The '%' and '(gdb)' parts are the shell and gdb prompts,
respectively. The output from the bt command will probably be
in Chimera's molecular drawing code (as opposed to drawing the
UI). If you need help interpreting the chimera backtrace, you
can send it to me. <br>
<br>
HTH,<br>
<br>
Greg<br>
<br>
On 02/05/2013 12:48 PM, <a moz-do-not-send="true"
class="moz-txt-link-abbreviated"
href="mailto:chris.wood@stfc.ac.uk">chris.wood@stfc.ac.uk</a>
wrote:<br>
</div>
<blockquote
cite="mid:7BF0C7F486F2F04EACD95EF31F2841001611440D@EXCHMBX01.fed.cclrc.ac.uk"
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<p class="MsoNormal">Hello all,<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">I'm trying to run Chimera on VirtualBox.
The installation completes fine, but when I try and run the
program (<code><span
style="font-family:"Calibri","sans-serif"">cd</span></code>
to the bin directory and run <code>./chimera</code>) I see<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal"><span
style="font-size:10.0pt;font-family:"Courier
New";mso-fareast-language:EN-GB">X Error of failed
request: BadDrawable (invalid Pixmap or Window parameter)<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:10.0pt;font-family:"Courier
New";mso-fareast-language:EN-GB">Major opcode of
failed request: 72 (X_PutImage)<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:10.0pt;font-family:"Courier
New";mso-fareast-language:EN-GB">Resource id in
failed request: 0x480006a<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:10.0pt;font-family:"Courier
New";mso-fareast-language:EN-GB">Serial number of
failed request: 1382<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:10.0pt;font-family:"Courier
New";mso-fareast-language:EN-GB">Current serial
number in output stream: 1388<o:p></o:p></span></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">I've tried enabling / disabling hardware
virtualization & 3D acceleration, but to no avail.
Although people do seem to have problems with chimera on a
virtualbox, it normally seems to be a problem with OpenGL,
which this doesn't seem to be.<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Has anyone seen this error before? Is
there anything else I'm missing? I can’t even work out if
it's a hardware, VirtualBox, or OS problem…<o:p></o:p></p>
<p class="MsoNormal"><strong><span
style="font-size:10.0pt;font-family:"Verdana","sans-serif""><o:p> </o:p></span></strong></p>
<p class="MsoNormal"><strong><span
style="font-size:10.0pt;font-family:"Verdana","sans-serif"">System:</span></strong><o:p></o:p></p>
<p class="MsoNormal">VirtualBox 4.2.4<br>
Guest additions 4.2.4<o:p></o:p></p>
<p class="MsoNormal">Guest OS: Ubuntu 12.04<br>
Host OS: Windows 7 professional<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Thanks in advance!<o:p></o:p></p>
<p class="MsoNormal">Chris<o:p></o:p></p>
<p class="MsoNormal"><span
style="color:black;mso-fareast-language:EN-GB">-------------------<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="color:black;mso-fareast-language:EN-GB">Dr Chris
Wood<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="color:black;mso-fareast-language:EN-GB">STFC
Rutherford Appleton Laboratory<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="color:black;mso-fareast-language:EN-GB">Didcot<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="color:black;mso-fareast-language:EN-GB">OX11 0QX<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="color:black;mso-fareast-language:EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span
style="color:black;mso-fareast-language:EN-GB"><a
moz-do-not-send="true" class="moz-txt-link-abbreviated"
href="mailto:chris.wood@stfc.ac.uk">chris.wood@stfc.ac.uk</a><br>
<a moz-do-not-send="true" class="moz-txt-link-abbreviated"
href="http://www.ccpem.ac.uk">www.ccpem.ac.uk</a><o:p></o:p></span></p>
<p class="MsoNormal"><span
style="color:black;mso-fareast-language:EN-GB"><br>
Tel: +44(0)1235 567864<o:p></o:p></span></p>
<p class="MsoNormal"><span
style="color:black;mso-fareast-language:EN-GB">Tel:
+44(0)7909 586624<br>
Fax: +44(0)1235 567801</span><span
style="color:black;mso-fareast-language:EN-GB"><o:p></o:p></span></p>
<p class="MsoNormal"><o:p> </o:p></p>
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<br>
<p>-- <br>
Scanned by iCritical.</p>
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