Dear Sjors and other Relion users,
We've been trying to run through the Relion tutorial using the clusters we have here at the MBU and have a run into a problem. ctffind3.exe is raising a "segfault" with the default settings and the demo dataset. All the parameters were initially left as default - this resulted in the below error. When we decrease the CTF estimate window size from the default (950 pix) to 400 pix, then the job will run (it will not run using a window size of 560 pix).
We see errors in /var/log/messages like:
Jan 7 12:49:08 zeta kernel: ctffind3.exe[20596]: segfault at fffffffe0f7d68e0 rip 0000000000406294 rsp 00007fff5e07fa90 error 4
This is on both CentOS 5.6 and CentOS 6.4, running on AMD x86_64 hardware. Total available RAM is 56 GB on the CentOS 5 system and 64 GB on the CentOS 6.
We're using the 130307 version of ctffind3.exe (i.e. the latest available) downloaded from http://grigoriefflab.janelia.org/ctf
Do you have any idea what might be causing this problem and how we might be able to get around it?
Many thanks,
David
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