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<p>Chimera will show up as "python" in the process table. That's
one of the fixes we made with ChimeraX, it shows up as ChimeraX.
If you haven't done so already, when running Chimera, please use
the Help / Report a Bug... dialog so we have a record of how your
current system is configured (version of Linux, graphics driver
version, etc.). Are you still running Chimera remotely using
VirtualGL? If so, please state that in the description.</p>
<p> Thanks,<br>
</p>
<p> Greg<br>
</p>
<div class="moz-cite-prefix">On 10/13/2020 10:46 PM, Dieter Blaas
wrote:<br>
</div>
<blockquote type="cite"
cite="mid:e3d68d00-b789-f786-e7de-a876f2965624@meduniwien.ac.at">Hi,
<br>
<br>
it happened again: after the message that the loading of a map
was very slow chimera got stuck and I cannot get rid of its
windows. If I open something else it overlays the chimera windows.
ps -ealf|grep chimera just shows me a single process, namely the
one of ps. Please see attached screenshots! For the moment I can
push the chimera windows out of view but I cannot close them. I
possibly have to reboot again....
<br>
<br>
thanks for hints, bw Dieter
<br>
<br>
------------------------------------------------------------------------
<br>
Dieter Blaas,
<br>
Max Perutz Laboratories
<br>
Medical University of Vienna,
<br>
Inst. Med. Biochem., Vienna Biocenter (VBC),
<br>
Dr. Bohr Gasse 9/3,
<br>
A-1030 Vienna, Austria,
<br>
Tel: 0043 1 4277 61630,
<br>
Mobile: 0043 699 1942 1659
<br>
e-mail: <a class="moz-txt-link-abbreviated" href="mailto:dieter.blaas@meduniwien.ac.at">dieter.blaas@meduniwien.ac.at</a>
<br>
------------------------------------------------------------------------
<br>
<br>
On 06.10.2020 04:24, Dieter Blaas wrote:
<br>
<blockquote type="cite">Dear Tom and Eric,
<br>
<br>
thank you! In the meantime I finally decided to reboot! The
situation is difficult to reproduce but happens once within
several months either because of a very slow network (when we
experience general problems with the server) or because there is
something wrong in a saved and then modified session file.
However, I cannot exclude that the cause is something else! Fact
is that I then cannot close any of the chimera windows, they
simply stay open despite having killed all related processes.
<br>
<br>
Could it be caused from working remotely over VNC? But when
restarting the VNC server and then restarting Chimera it usually
happens again! When I observe it next time I'll try "kill -s
KILL process_id" and also take screen shots. As I am the only
user rebooting is not a problem!
<br>
<br>
best, Dieter
<br>
<br>
------------------------------------------------------------------------
<br>
Dieter Blaas,
<br>
Max Perutz Laboratories
<br>
Medical University of Vienna,
<br>
Inst. Med. Biochem., Vienna Biocenter (VBC),
<br>
Dr. Bohr Gasse 9/3,
<br>
A-1030 Vienna, Austria,
<br>
Tel: 0043 1 4277 61630,
<br>
Mobile: 0043 699 1942 1659
<br>
e-mail: <a class="moz-txt-link-abbreviated" href="mailto:dieter.blaas@meduniwien.ac.at">dieter.blaas@meduniwien.ac.at</a>
<br>
------------------------------------------------------------------------
<br>
<br>
On 05.10.2020 20:58, Tom Goddard wrote:
<br>
<blockquote type="cite">Hi Dieter,
<br>
<br>
I am curious what you are using in Chimera that uses the
network when you have to kill it? I tried fetching a large EM
map (10860, ~500 Mbytes) from EMDB with File / Fetch by ID on
Mac, then I turned off my wifi part way through and tried
ctrl-C in the shell where I had started Chimera 1.14. One try
it exited the program, and the second try it gave a keyboard
interrupt message and Chimera was no longer hung. If I left
my wifi on then the stop button in the lower left corner of
the Chimera window at the front of the status messages
successfully stopped the download. But if I disconnected the
wifi, that stop button didn't work.
<br>
<br>
Maybe you are on Linux or maybe Chimera is hung on some web
service you are using like BLAST....
<br>
<br>
Tom
<br>
<br>
<br>
<blockquote type="cite">On Oct 5, 2020, at 11:30 AM, Eric
Pettersen <a class="moz-txt-link-rfc2396E" href="mailto:pett@cgl.ucsf.edu"><pett@cgl.ucsf.edu></a> wrote:
<br>
<br>
Hi Dieter,
<br>
Instead of "kill process_id" try "kill -s KILL
process_id".
<br>
<br>
--Eric
<br>
<br>
Eric Pettersen
<br>
UCSF Computer Graphics Lab
<br>
<br>
<blockquote type="cite">On Oct 4, 2020, at 9:05 AM, Dieter
Blaas <a class="moz-txt-link-rfc2396E" href="mailto:dieter.blaas@meduniwien.ac.at"><dieter.blaas@meduniwien.ac.at></a> wrote:
<br>
<br>
Hi,
<br>
<br>
please forgive me when this question is not directly
related to Chimera: Sometimes Chimera becomes unresponsive
because of a slow network connection. When I then try
exiting it or killing it with <ctrl> c from the
terminal I used to start it or killing the chimera-related
process as shown with ps -ealf|grep UCSF or grep chimera
the chimera windows remain and I cannot remove them. Any
way of doing so?
<br>
<br>
Thanks for hints, best, Dieter
<br>
<br>
-----------------------------------------------------------------------
<br>
Dieter Blaas,
<br>
Max Perutz Labortories
<br>
Medical University of Vienna,
<br>
Inst. Med. Biochem., Vienna Biocenter (VBC),
<br>
Dr. Bohr Gasse 9/3,
<br>
A-1030 Vienna, Austria,
<br>
Tel: 0043 1 4277 61630,
<br>
Mobile: 0043 699 1942 1659
<br>
e-mail: <a class="moz-txt-link-abbreviated" href="mailto:dieter.blaas@meduniwien.ac.at">dieter.blaas@meduniwien.ac.at</a>
<br>
------------------------------------------------------------------------
<br>
<br>
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