External Email - Use Caution
Thanks~ I was asking this because the release note of v6.0.0 said the recon-all -all runtime of new-ish workstation is just under 3 hours!!! That makes me wonder if I missed something or did not set up the VM right.
Yi-Fang
Bruce Fischl fischl@nmr.mgh.harvard.edu 於 2019年2月10日 週日 上午9:21寫道：
yes, but -openmp N should give significant imrpovements up to about N=4
On Sat, 9 Feb 2019, Tim Schäfer wrote:
External Email - Use CautionI do not have experience with running on Google Cloud, but from what I
know, the common way is to run FreeSurfer in parallel over many subjects instead of using openmp to speed up the process for a single subject.
So your desktop should run 4 subjects in parallel, and the cloud
instance 16. Not that bad.
Tim
On February 9, 2019 at 4:33 PM Yi-Fang Chuang chuangy@ym.edu.tw
wrote:
External Email - Use CautionDear Freesurfer developers and users,
Has anyone had experience running Freesurfer on Linux VM on Google Cloud Platform? I have a question about runtime of recon-all -all. The specs of VM on GCP as follows, Linux CentOS 6, 16 CPU(Intel(R) Xeon(R) @ 2.50GHz) with 60 G memory I installed Freesurfer v 6.0.0 and run recon-all -all -parallel -openmp
num
No matter what number I put (6,8,12,16 after openmp), the recon-all
runtime
of a single subject ranges 6-7 hours. It's just disappointing to compare to my own desktop. My own Desktop is Mac Pro (3.7 GHz quad-core intel xeon E5, 16G memory). The recon-all runtime (Freesurfer version 5.3.0, no parallel) for a
single
subject is usually 7~8 hours. Is this a reasonable runtime given the setting of VM? Only 1-2 hour shorter than my Mac Pro?? Or is there any configuration of VM I should pay attention to set up?
Thanks, Yi-Fang Chuang ᐧ ᐧ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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