I just run: recon-all -s ernie2 -autorecon2 -openmp 4
mri_ca_register uses 100.9% CPU at most ...
Any idea? Should I try to recompile FS for the current MacOS release? If so, do I have to take care on special librariwa in order to enable the openmp option?
Best wishes,
Lukas
>Hi Bruce!
>
>Thanks for the fast response. I used the current stable version 5.3.0.1
>(freesurfer-Darwin-lion-stable-pub-v5.3.0.1).
>So I will try as you have suggested ...
>
>Best wishes,
>
>Lukas
>> Bruce Fischl Fri, 02 May 2014 05:47:26 -0700
>>
>> Hi Luke
>>
>> what version of FS are you running? We see significant speedups. Try
>> running top in a unix terminal and seeing if the cpu usage of
>> mri_ca_register (during autorecon2, the longest single step) is morethan
>>100%
>>
>> cheers
>> Bruce
>>
>> On Fri, 2 May 2014, lukas.sch...@ukb.uni-bonn.de wrote:
>>
>>
>> > Hi folks!
> > >
>> > I try to use -openmp option on an iMAC with 4 cores. Unfortunately, I
> >>do not
>> > see any accelartion when processing a single data set with or without
> >>the
>> > flag -openmp flag set.
>> >
>> > recon-all -s ernie_1 -all
>> >
>> > leads to ~6,4h processing time.
>> >
>> > Unfortunately
>> > recon-all -s ernie_2 -all -openmp 4
>> >
>> > did not change anything. Do I miss anything? Do I have to prepare my
> >>system
>> > in a special way? Or run any scripts in advance?
>> >
>> > (System: iMac, 32GbRam,Intel i5, 4 cores, Mac Os 10.9, latest FS
>> >version)
>> >
>> > Best wishes,
>> >
>> > Luke
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