Hello there,

I have a script that utilizes align_epi_anat in a loop to register a large number of high resolution anatomical images together (about 150). It takes a very long time to do everything but the results are as close to perfect as I have seen.

However, the script seems to randomly get stuck. Every 15 or so registrations, the script will freeze at some point during the paramater optimization, and not necessarily in the same place (although I usually see it here: + - Testing (64 + 37) * 64 params...). I need to cancel it and re-run that registration in order to make any progress.

I should also mention that if I rerun it on those files with the exact same command, it will complete successfully.

Right now it is stuck during the refinement stage of # 2 ogf 5 course parameter optimization.

Any help would be appreciated. Here is my call:

align_epi_anat.py -dset1 brain1.nii.gz -dset2 brain$i.nii.gz \
-dset2to1 -suffix BRAIN_to_SESS \
-master_dset2 brain1.nii.gz \
-dset1_strip None -dset2_strip None \
-volreg off -tshift off -deoblique off \
-big_move -partial_coronal \
-cost lpa

Before this, I skull strip each file by generating a mask with BET and 3dCalc since I can't get 3dSkullstrip to work with slab data. This error occurs with and without skull stripping.

Thanks!



Edited 2 time(s). Last edit at 11/23/2012 12:41PM by jdviviano.