[3dem] Question for Running MotionCor2

[Craig Yoshioka]

oh, and make sure disk/network IO are not the problem.

Are the stacks saved to SSDs on the machine?

On Aug 4, 2017, at 10:17 AM, Craig Yoshioka <yoshiokc at ohsu.edu<mailto:yoshiokc at ohsu.edu>> wrote:

batch mode and run multiple stacks at the same time rather than multiple GPUs per stack.

On Aug 4, 2017, at 10:15 AM, Zongli Li <zongli.li at gmail.com<mailto:zongli.li at gmail.com>> wrote:

Dear colleagues,

I am running the MotionCor2 on the images stacks that have 50 sub-frames recorded on Gatan K2 camera at super-resolution counting mode. Here is the parameters specified in command line:

-Patch 5 5 -Iter 10 -Tol 0.5 -bft 150 -Kv 300 -Throw 0 -Trunc 0  -PixSize 0.62 -FtBin 2 -Fmdose 1.05 -Gpu 0 1 2 3 -OutStack 1

The workstation for running the job has 4 Nvidia GeForce GTX 1080 cards and each movie stack needs ~6 minutes runtime. Comparing to running the same job on two GPU cards (GeForce GTX 680) workstation, I do not get any gain in terms of speed.

Any suggestions?

Thank you,

Zongli
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