I am running tracula prep step using doregcvs=1, and the case has been processing for greater than 1.5 days now. To get it to run, I had to follow the instructions from here: https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg36133.html

Any suggestions if I am doing something wrong, or if I can expect this step to end? 

Thanks,

S

The latest output lines (over several hundred total) are below:

---------- unfolding failed - restoring original position --------------------

0003: dt=4.250000, rms=0.867 (0.000%), neg=0, invalid=1530

setting smoothness coefficient to 2.000

blurring input image with Gaussian with sigma=0.250...

0000: dt=0.000, rms=0.867, neg=0, invalid=1530

orig dt = 0 in gcamFindOptimalTimeStep

iter 0, gcam->neg = 21980

after 238 iterations, nbhd size=2, neg = 551

starting rms=0.830, neg=551, removing folds in lattice....

iter 1, dt=2.048000: new neg 27008, old_neg 551, delta -26457, rms=0.780 (6.086%)

Numerical result out of range

orig dt = 0 in gcamFindOptimalTimeStep

iter 2, dt=0.002294: new neg 23842, old_neg 27008, delta 3166, rms=0.772 (1.003%)

Numerical result out of range

orig dt = 0 in gcamFindOptimalTimeStep

iter 3, dt=0.000573: new neg 23004, old_neg 23842, delta 838, rms=0.766 (0.745%)

Numerical result out of range

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