Hi all, I have problems diplaying a 3D map in chimera. I recognized this problems with .mrc and .ccp4 maps. And only at my system. When I load a map, I get an image like this: http://download.dejung.net/chimera.png
My version of chimera is: $ chimera --version chimera snapshot version 1.4 (build 28596) 2009-08-20 19:46:50 GMT
I tried also other versions (chimera alpha version 1.3 (build 2577)) but they will not start at all. Tell me there is a segmentation fault at the beginning without any molecule, map or other things. Just exits directly at start up.
Friends of mine told me, it will be maybe the wrong graphic driver, but I all ready tried different ones. At the Moment I use nvidia drivers 185.18.14 on a Linux 64 bit system.
I have no idea now, so hope someone can help me at this point...
Best regards! Mario
Yes, you need chimera 1.4 for newer Linux systems.
First of all, please uses chimera's Report a Bug dialog to report this bug, so we'll have a record of which version of Linux you're running, what graphics card you have, and the version of the graphics driver.
But if updating the graphics driver to the latest version for NVidia doesn't work (185.18.36 as of today), then from the picture, it is possible that this is a hardware problem. Ideally, you would swap out the graphics card for a similar one and see if the problem persists.
- Greg
On Thu, 22 Oct 2009, maillist@dejung.net wrote:
Hi all, I have problems diplaying a 3D map in chimera. I recognized this problems with .mrc and .ccp4 maps. And only at my system. When I load a map, I get an image like this: http://download.dejung.net/chimera.png
My version of chimera is: $ chimera --version chimera snapshot version 1.4 (build 28596) 2009-08-20 19:46:50 GMT
I tried also other versions (chimera alpha version 1.3 (build 2577)) but they will not start at all. Tell me there is a segmentation fault at the beginning without any molecule, map or other things. Just exits directly at start up.
Friends of mine told me, it will be maybe the wrong graphic driver, but I all ready tried different ones. At the Moment I use nvidia drivers 185.18.14 on a Linux 64 bit system.
I have no idea now, so hope someone can help me at this point...
Best regards! Mario
The surface display bug is a bug in Mesa which is the OpenGL used by linux if you have no driver installed. We call this the sliced bread bug. Here's the bug report:
http://plato.cgl.ucsf.edu/trac/chimera/ticket/6088
and the fix:
"Fixed by installing graphics driver. Incorrect surface rendering caused by vertex buffer object bug in Mesa 6.5.1."
Tom
-------- Original Message -------- Subject: [Chimera-users] problems display a mrc or ccp4 file From: maillist@dejung.net To: chimera-users@cgl.ucsf.edu Date: 10/22/09 8:42 AM
Hi all, I have problems diplaying a 3D map in chimera. I recognized this problems with .mrc and .ccp4 maps. And only at my system. When I load a map, I get an image like this: http://download.dejung.net/chimera.png
My version of chimera is: $ chimera --version chimera snapshot version 1.4 (build 28596) 2009-08-20 19:46:50 GMT
I tried also other versions (chimera alpha version 1.3 (build 2577)) but they will not start at all. Tell me there is a segmentation fault at the beginning without any molecule, map or other things. Just exits directly at start up.
Friends of mine told me, it will be maybe the wrong graphic driver, but I all ready tried different ones. At the Moment I use nvidia drivers 185.18.14 on a Linux 64 bit system.
I have no idea now, so hope someone can help me at this point...
Best regards! Mario
Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users
Hi Tom, I allready have the nvidia drivers installed (185.18.14) and also a very new mesa driver (7.5.1) and tried 7.5.2 without any success. Greg Couch told me to try an other graphic card, so I think I have to try this... I will open a bug report for this issue later, if there are no other suggestions.
Regards Mario
The surface display bug is a bug in Mesa which is the OpenGL used by linux if you have no driver installed. We call this the sliced bread bug. Here's the bug report:
http://plato.cgl.ucsf.edu/trac/chimera/ticket/6088
and the fix:
"Fixed by installing graphics driver. Incorrect surface rendering caused by vertex buffer object bug in Mesa 6.5.1."
Tom
Hi Mario,
I have seen the sliced bread volume contour surface appearance many times before and every time it was with Mesa. I've never seen it with an nvidia driver. The cases I've seen are a bug in the Mesa client-side library so if you are remote displaying Chimera from another machine then you will see the problem even if the machine you are displaying on has nvidia drivers if the machine Chimera actually runs on is using Mesa.
If your case does not involve Mesa at all you should report a bug using Chimera menu entry Help / Report a Bug... which will give us your graphics driver info. It is definitely a graphics driver bug and we like to keep track of which drivers have problems.
Tom
-------- Original Message -------- Subject: Re: [Chimera-users] problems display a mrc or ccp4 file From: maillist To: Tom Goddard Date: 10/23/09 4:56 AM
Hi Tom, I allready have the nvidia drivers installed (185.18.14) and also a very new mesa driver (7.5.1) and tried 7.5.2 without any success. Greg Couch told me to try an other graphic card, so I think I have to try this... I will open a bug report for this issue later, if there are no other suggestions.
Regards Mario
The surface display bug is a bug in Mesa which is the OpenGL used by linux if you have no driver installed. We call this the sliced bread bug. Here's the bug report:
http://plato.cgl.ucsf.edu/trac/chimera/ticket/6088
and the fix:
"Fixed by installing graphics driver. Incorrect surface rendering caused by vertex buffer object bug in Mesa 6.5.1."
Tom
participants (3)
-
Greg Couch -
maillist＠dejung.net -
Tom Goddard