On 14 Jul 2015, at 04:05, LEVI SOLOMYAK <[log in to unmask]> wrote:

Hi Matteo,

Here it is below. Thank you again for your help!

Best,

levi 

probtrackx.log

 /usr/local/fsl/bin/probtrackx2 --network -x /mnt/engram/projects/IndivRITL/data/leviDiff/038/264Prob/masks.txt -l --onewaycondition --omatrix1 -c 0.2 -S 2000 --steplength=0.5 -P 5000 --fibthresh=0.01 --distthresh=0.0 --sampvox=0.0 --xfm=/mnt/engram/projects/IndivRITL/data/leviDiff/038/Diffusion/data.bedpostX/xfms/standard2diff.mat --forcedir --opd -s /mnt/engram/projects/IndivRITL/data/leviDiff/038/Diffusion/data.bedpostX/merged -m /mnt/engram/projects/IndivRITL/data/leviDiff/038/Diffusion/data.bedpostX/nodif_brain_mask 

--dir=/mnt/engram/projects/IndivRITL/data/leviDiff/038/264Prob 

On Mon, Jul 13, 2015 at 7:44 PM, Matteo Bastiani <[log in to unmask]> wrote:

Hi Levi,

Can you please copy the probtrackx.log file that you should have, so that I can check the probtrackx command that you have used?

Cheers,

Matteo

On 13 Jul 2015, at 22:56, LEVI SOLOMYAK <[log in to unmask]> wrote:

set tool probtrackx

set probtrack(usereference_yn) 1

set probtrack(xfm) /mnt/engram/projects/~/data/~/038/Diffusion/data.bedpostX/xfms/standard2diff.mat

set probtrack(bedpost_dir) /mnt/engram/projects/~/data/leviDiff/038/Diffusion/data.bedpostX

set probtrack(xfm) /mnt/engram/projects/~/data/leviDiff/038/Diffusion/data.bedpostX/xfms/standard2diff.mat

set probtrack(mode) network

set probtrack(exclude_yn) 0

set probtrack(usereference_yn) 1

set probtrack(verbose_yn) 0

set probtrack(loopcheck_yn) 1

set probtrack(modeuler_yn) 0

set probtrack(curvature) 0.2

set probtrack(nsteps) 2000

set probtrack(steplength) 0.5

set probtrack(nparticles) 5000

set probtrack(fibthresh) 0.01

set probtrack(distthresh) 0.0

set probtrack(sampvox) 0.0

set probtrack(oneway_yn) 1

set probtrack(wayorder_yn) 0

set probtrack(waycond) AND