[PyMOL] SOLUTION to nVidia driver problem
Hello everyone, I found a temporary solution to the driver problem, in case there are people out there who are too lazy to roll them back (like me). Basically, when running pymol from the command-line with the new drivers, an error regarding the TLS library is produced: ImportError: libnvidia-tls.so.1: cannot handle TLS data This was the exact same error I was getting after installing the 6111 drivers for the first time - but at the time, it seemed I was the only one on this list with this problem (you can scan the archive for the thread). However, the solution remains the same. Renaming /usr/lib/tls to something else (/usr/lib/tls_backup) for instance, solved this issue. Now pymol launches and is accelerated normally. I'm running Debian SID, kernel 2.4.26, on AMD64 hardware. Regards, Peter -- Laboratory of Dr. Didier Picard University of Geneva Department of Cell Biology Sciences III 30, Quai Ernest-Ansermet 1211 Geneva 4 Switzerland Tel: +41 22 379 3254 Fax: +41 22 379 6442 Email: du...@cellbio.unige.ch http://www.picard.ch/DP/DPhome.html
[PyMOL] exporting surfaces
Dear Pymol users, Does anyone know if there is a way to export surfaces into a file format suitable for import into 3D modellers (ie. Blender, 3DSMax, Lightwave, etc)? For that matter, is it possible at all to export anything in pymol? I realize that asking for support of a particular 3D file format is a bit of a slippery slope - if one export format is supported, everyone will want support for their favourite format. This is why I embarked on a bit of a solitary crusade a few months ago - I wrote a small (and dubious) python script that converts MSMS calculated surfaces into the RAW file format, which *every* 3D modeller can import. Unfortunately, I could never figure out how to extrapolate or calculate the normals, so quite a bit of detail is lost in the conversion. How are surfaces calculated and stored in pymol? If writing an export filter/extension is trivial, I'd be willing to do it with a bit of hand holding. Cheers, Peter - Laboratory of Dr. Didier Picard University of Geneva Department of Cell Biology Sciences III 30, Quai Ernest-Ansermet 1211 Geneva 4 Switzerland Tel: +41 22 379 3254 Fax: +41 22 379 6442 Email: du...@cellbio.unige.ch http://www.picard.ch/DP/DPhome.html
Re: [PyMOL] Warning: Nvidia 6111 drivers for linux
Chen, Kernel: 2.4.26 (I observe the same with 2.4.25) Distribution: Debian (straight SARGE, and pymol was acquired with apt-get, so no funny compiling business here) Python: 2.3 (2.4 is also there, but only for testing purposes) I've noticed on other mailing lists, that people have reported similar error messages with other packages. This is how I found the original solutions. I just wanted to report that it also occurs with Pymol. Perhaps you are right, perhaps it's a python problem, but I'm not prepared to roll back to 2.2 to test it. What Linux are you using? Seems it's not a problem on RedHat linux, I am running both 7.3 and EL-AS, with 2.4.20 and 2.4.21 kernel respectively, and the exact same NVIDIA version without any problem at all. Although we are using python2.2, looks like you are using python2.3, maybe that's the problem? Best Chen Robert, According to what I've managed to learn from googling around a bit, this problem doesn't occur on 2.6.x kernels. I'm running Fedora Core 2 with: (II) Module glx: vendor=NVIDIA Corporation compiled for 4.0.2, module version = 1.0.6111 And: 2.6.8-1.521 #1 Mon Aug 16 09:01:18 EDT 2004 i686 athlon i386 GNU/Linux With no problems whatsover... Robert Well, I'm glad to hear this problem isn't as endemic for Pymol users as I had feared. What surprised me was that it happened on a fresh Debian install. The solutions I had posted earlier *do* solve the problem (they did for me), so hopefully the information will be useful to some people who encounter it. Regards, Peter _.--'`'--.__.--'`'--.__.--'`'--.__ -:`.'|`|':-. '-:`.'|`|':-. '-:`.'|`|':-. '.` : '. | | | |'. '. | | | |'. '. | | | |'. '.: '. '.| | | | '. '.| | | | '. '.| | | | '. '. '. `.:_ | :_.' '. `.:_ | :_.' '. `.:_ | :_.' '. `. `-..,..-' `-..,..-' `-..,..-' ` Laboratory of Dr. Didier Picard University of Geneva Department of Cell Biology Scinces III 30, Quai Ernest-Ansermet 1211 Geneva 4 Switzerland Tel: +41 22 379 3254 Fax: +41 22 379 6442 Email: du...@cellbio.unige.ch http://www.picard.ch/DP/DPhome.html _.--'`'--.__.--'`'--.__.--'`'--.__ -:`.'|`|':-. '-:`.'|`|':-. '-:`.'|`|':-. '.` : '. | | | |'. '. | | | |'. '. | | | |'. '.: '. '.| | | | '. '.| | | | '. '.| | | | '. '. '. `.:_ | :_.' '. `.:_ | :_.' '. `.:_ | :_.' '. `. `-..,..-' `-..,..-' `-..,..-' `
