[Freesurfer] Open MP parallel processing scaling factor?

2014-08-20 Thread O'Shea,Andrew
Hello all, Traditionally I have only processed FS data using a single core per person, but processing many people at once. Now we have caught up with the backlog of scans, we have a continuos trickle of scans coming in 1 by 1. I was wondering if anyone has tested how the speed-up of open-mp

Re: [Freesurfer] Open MP parallel processing scaling factor?

2014-08-20 Thread Satrajit Ghosh
hi andrew, i haven't done many systematic comparisons but there are a few practical considerations to take into account. in recon-all, i believe a few steps are affected by the openmp option and that creates resource underutilization. processors run idle when those steps are not being run. in my

Re: [Freesurfer] Open MP parallel processing scaling factor?

2014-08-20 Thread Z K
Andrew, I basically agree with everything Satra is saying. Just as an added piece if info, Ive included a chart which did a systematic study of recon-all processing times with different number of cpus in parallel. These results are a bit old (and might be for low-res data) but the general