VMD-L Mailing List

From: denilson_at_dqi.ufla.br
Date: Fri Apr 19 2013 - 14:17:48 CDT

Hi Josh.

It seems that you are using the X-Org driver for Nvidia, which
apparently presents no problems when you carry out the X-Org update.
Unfortunately, that is not the case if you use the original drivers from
Nvidia.

Best regards.

Denilson.

Prof. Denilson F. Oliveira
Laboratório de produtos Naturais
Departamento de Química
Universidade Federal de Lavras
Caixa Postal 3037
Lavras (A CIDADE DAS QUEIMADAS) - MG - BRASIL
Fone: 55-35-3829-1623
Fax: 55-35-3829-1271
e-mail: denilson_at_dqi.ufla.br

Em 19-04-2013 13:49, Josh Vermaas escreveu:
> Hmm... The most recent xorg update seems to have not played very nicely
> with your video driver installation. Are you both using the 310.44
> drivers? It should be noted that it is still considered unstable (the
> driver version in the main Ubuntu/Kubuntu/*buntu repos is 304.88, with
> 310.44 being the beta/experimental version), and may be the root of the
> problem, as my machine uses 304.88 and doesn't crash. Looking at my own
> dpkg.log, it looks like nvidia-current was updated yesterday too,
> possibly to play nice with the new xorg version, so that would be where
> I would start to investigate the problem.
> -Josh
>
> On 04/19/2013 09:27 AM, denilson_at_dqi.ufla.br wrote:
>> Dear Felix,
>>
>> After the automatic actualizations carried out yesterday and this
>> morning, It also happens to me when I try to open VMD 1.9.1 (or other
>> programs like Chimera 1.7) on a Xubuntu 12.04.02 (64 bits) machine.
>> In the /var/log/dpkg.log I could find that the programs upgraded
>> during the automatic actualization were:
>>
>> 2013-04-18 16:37:29 upgrade libdrm2 2.4.39-0ubuntu0.1 2.4.39-0ubuntu0.2
>> 2013-04-18 16:37:31 upgrade libdrm2:i386 2.4.39-0ubuntu0.1
>> 2.4.39-0ubuntu0.2
>> 2013-04-18 16:37:35 upgrade libdrm-intel1:i386 2.4.39-0ubuntu0.1
>> 2.4.39-0ubuntu0.2
>> 2013-04-18 16:37:36 upgrade libdrm-intel1 2.4.39-0ubuntu0.1
>> 2.4.39-0ubuntu0.2
>> 2013-04-18 16:37:40 upgrade libdrm-nouveau1a:i386 2.4.39-0ubuntu0.1
>> 2.4.39-0ubuntu0.2
>> 2013-04-18 16:37:41 upgrade libdrm-nouveau1a 2.4.39-0ubuntu0.1
>> 2.4.39-0ubuntu0.2
>> 2013-04-18 16:37:44 upgrade libdrm-radeon1:i386 2.4.39-0ubuntu0.1
>> 2.4.39-0ubuntu0.2
>> 2013-04-18 16:37:45 upgrade libdrm-radeon1 2.4.39-0ubuntu0.1
>> 2.4.39-0ubuntu0.2
>> 2013-04-18 16:37:48 upgrade x11proto-randr-dev
>> 1.4.0+git20120101.is.really.1.4.0-0ubuntu1~precise1
>> 1.4.0+git20120101.is.really.1.4.0-0ubuntu1~precise2
>> 2013-04-18 16:37:49 upgrade xserver-common 2:1.11.4-0ubuntu10.12
>> 2:1.11.4-0ubuntu10.13
>> 2013-04-18 16:37:50 upgrade xserver-xorg-core 2:1.11.4-0ubuntu10.12
>> 2:1.11.4-0ubuntu10.13
>> 2013-04-19 09:44:40 upgrade language-selector-gnome 0.79.2 0.79.3
>> 2013-04-19 09:44:42 upgrade language-selector-common 0.79.2 0.79.3
>> 2013-04-19 09:44:44 upgrade openssh-client 1:5.9p1-5ubuntu1
>> 1:5.9p1-5ubuntu1.1
>> 2013-04-19 09:44:46 upgrade python-problem-report 2.0.1-0ubuntu17.1
>> 2.0.1-0ubuntu17.2
>> 2013-04-19 09:44:47 upgrade python-apport 2.0.1-0ubuntu17.1
>> 2.0.1-0ubuntu17.2
>> 2013-04-19 09:44:48 upgrade apport 2.0.1-0ubuntu17.1 2.0.1-0ubuntu17.2
>> 2013-04-19 09:44:51 upgrade apport-gtk 2.0.1-0ubuntu17.1
>> 2.0.1-0ubuntu17.2
>> 2013-04-19 09:44:51 upgrade dnsmasq-base 2.59-4 2.59-4ubuntu0.1
>> 2013-04-19 09:44:52 upgrade icedtea-netx-common 1.2-2ubuntu1.3
>> 1.2.3-0ubuntu0.12.04.1
>> 2013-04-19 09:44:53 upgrade icedtea-7-plugin 1.2-2ubuntu1.3
>> 1.2.3-0ubuntu0.12.04.1
>> 2013-04-19 09:44:55 upgrade icedtea-netx 1.2-2ubuntu1.3
>> 1.2.3-0ubuntu0.12.04.1
>>
>> Any hints about the procedure to solve the problem will be welcome.
>>
>> Best regards.
>>
>> Denilson.
>>
>> Denilson F. Oliveira
>> Laboratório de produtos Naturais
>> Departamento de Química
>> Universidade Federal de Lavras
>> Caixa Postal 3037
>> Lavras (A CIDADE DAS QUEIMADAS) - MG - BRASIL
>> Fone: 55-35-3829-1623
>> Fax: 55-35-3829-1271
>> e-mail: denilson_at_dqi.ufla.br
>>
>> Em 19-04-2013 08:41, Felix Rausch escreveu:
>>> Hello VMD users,
>>>
>>> this morning, I tried to start VMD as usual. But instead of the
>>> normal startup, I got a black screen and shortly after that, the KDE
>>> login page appears. It seems like, somehow, the KDE is restartet (not
>>> the computer) when i try to open VMD. I already did a reinstall, but
>>> without any effect.
>>> It worked quite well at the beginning of the week and I didn't change
>>> anything at the system since then. So I'm quite puzzled.
>>>
>>> I'm using Kubuntu 12.04 with a NVidia Quadro 4000 graphics card. The
>>> NVidia driver version is 310.44. Please let me know if you need more
>>> info.
>>>
>>> Before the screen turns black, I can get the following output from VMD:
>>>
>>> Info) VMD for LINUXAMD64, version 1.9.1 (February 1, 2012)
>>> Info) http://www.ks.uiuc.edu/Research/vmd/
>>> Info) Email questions and bug reports to vmd_at_ks.uiuc.edu
>>> Info) Please include this reference in published work using VMD:
>>> Info) Humphrey, W., Dalke, A. and Schulten, K., `VMD - Visual
>>> Info) Molecular Dynamics', J. Molec. Graphics 1996, 14.1, 33-38.
>>> Info) -------------------------------------------------------------
>>> Info) Multithreading available, 8 CPUs detected.
>>> Info) Free system memory: 15070MB (94%)
>>> Info) Creating CUDA device pool and initializing hardware...
>>> Info) Detected 1 available CUDA accelerator:
>>> Info) [0] Quadro 4000 8 SM_2.0 @ 0.95 GHz, 2.0GB RAM, KTO,
>>> OIO, ZCP
>>>
>>>
>>> Any help or hints would be very appreciated.
>>>
>>> Greetings,
>>> Felix
>>>
>>>
>>>
>