Greetings Freesurfer developers,

I'm looking for ways to improve the speed of TKMEDIT for Freesurfer 5.3. Specifically, the GUI interface is abnormally slow; edits made to a voxel takes 1-2 seconds to show up on the screen. Interesting, the recon-all doesn't appear to be slow (as each subject has been processed within a 24 hr period), so I wonder if this problem has something to do with TKMEDIT's GUI & my current setup.

Although I SSH into our server for data processing, here are the specs for my local workstation:

Mac OSX 10.9.2

2.7 GHz Intel Core i5 Determine how many cores (Apple icon >> About this Mac >> More Info)

4 GB 1333 MHz DDR3

Server Specs: 

Our App servers have 4 Xeon CPUs apiece, each with 8 cores running at 2.7GHz, for a total of 32 cores (I was told that this shouldn't be the cause as the point of multi-core and multi-threading is not dependent on speed only). As well, each server has 94 GB of RAM.

Our App servers mount shares via NFS from our file servers. All servers are the same version of Red Hat Linux, so there is no differences there. According to the server expert at our institution, the tkmedit does not appear to surpass a CPU utilization of 8% of a single core, so the programs running off the server should be able to utilize its maximum speed.

I am working closely with our server expert to troubleshoot this issue, so any insight from the development team will be much appreciated. Thank you.

Best regards,

Vy Dinh

MD Candidate, Class of 2017
University of Wisconsin School of Medicine and Public Health

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