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September 11, 2019 04:28PM
Hi,

I have question about running 3dTrackID. I have used this command for several data, but some data gave me the error message. I followed AFNI FATCAT pipeline for DTI processing.

Here is my command


3dTrackID \
-mode PROB \
-dti_in dt \
-netrois sel_indt_aparc.a2009s+aseg_REN_gm_GMI.nii.gz \
-uncert dt_UNC.nii.gz \
-prefix o.pr00 \
-nifti \
-no_indipair_out \
-dump_rois AFNI \
-alg_Thresh_FA 0.2 \
-alg_Thresh_Frac 0.1 \
-alg_Nseed_Vox 5 \
-alg_Nmonte 1000 \
-echo_edu \
-overwrite



and I got the error message as following,

+++ Command Echo:
3dTrackID -mode PROB -dti_in dt -netrois sel_indt_aparc.a2009s+aseg_REN_gm_GMI.nii.gz -uncert dt_UNC.nii.gz -prefix o.pr00 -nifti -no_indipair_out -dump_rois AFNI -alg_Thresh_FA 0.2 -alg_Thresh_Frac 0.1 -alg_Nseed_Vox 5 -alg_Nmonte 1000 -overwrite

++ Tracking mode: PROB

++ Number of ROIs in netw[0] = 167
++ Have labeltable for naming things.
*+ WARNING: file dt_UNC.nii.gz: corrected 7 float errors
++ SEARCHING for vector files with prefix 'dt*':
FINDING: 'V1' 'V2' 'V3'
++ SEARCHING for scalar files with prefix 'dt*':
FINDING: not:'CHI' not:'DT' 'FA' 'L1' not:'L2' not:'L3' 'MD' 'RD' *+ WARNING: file dt_UNC.nii.gz: corrected 7 float errors
not:'UNC' not:'cwts' not:'debugbriks'
++ Done with scalar search, found: 4 parameters
--> so will have 15 output data matrices.
++ Minor note: there is a tiny (magn < 0.1) vector in the 0-th direction set.
--> Will exclude that voxel from walkable mask-- recommend checking model fit.
++ Minor note: there is a tiny (magn < 0.1) vector in the 0-th direction set.
--> Will exclude that voxel from walkable mask-- recommend checking model fit.
++ Minor note: there is a tiny (magn < 0.1) vector in the 0-th direction set.
--> Will exclude that voxel from walkable mask-- recommend checking model fit.
++ Minor note: there is a tiny (magn < 0.1) vector in the 0-th direction set.
--> Will exclude that voxel from walkable mask-- recommend checking model fit.
++ Minor note: there is a tiny (magn < 0.1) vector in the 0-th direction set.
--> Will exclude that voxel from walkable mask-- recommend checking model fit.
++ Minor note: there is a tiny (magn < 0.1) vector in the 0-th direction set.
--> Will exclude that voxel from walkable mask-- recommend checking model fit.
++ Minor note: there is a tiny (magn < 0.1) vector in the 0-th direction set.
--> Will exclude that voxel from walkable mask-- recommend checking model fit.
++ Minor note: there is a tiny (magn < 0.1) vector in the 0-th direction set.
--> Will exclude that voxel from walkable mask-- recommend checking model fit.
++ Effective Monte iterations: 5000. Fraction threshold set: 0.10000
--> Ntrack voxel threshold: 500.

Fatal Signal 11 (SIGSEGV) received
Bottom of Debug Stack
** AFNI version = AFNI_18.2.16 Compile date = Sep 12 2018
** [[Precompiled binary linux_openmp_64: Sep 12 2018]]
** Program Death **
** If you report this crash to the AFNI message board,
** please copy the error messages EXACTLY, and give
** the command line you used to run the program, and
** any other information needed to repeat the problem.
** You may later be asked to upload data to help debug.
** Crash log is appended to file /home/jung/.afni.crashlog

Could you give me some idea about this issue?

Thanks

Jung
Subject Author Posted

3dTrackID error issue

chaj September 11, 2019 04:28PM

Re: 3dTrackID error issue

ptaylor September 12, 2019 09:24AM



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