araikes

Thanks @boxuancui. I'll give it a shot.

Hi @effigies, Here's the command for running freesurfer. I'm running it in parallel using SLURM on a private cluster. `sbatch -o $LOGS/sub-"$subject"/Freesurfer_out.txt \ -e $LOGS/sub-"$subject"/Freesurfer_error.txt \ --partition="verylong.q" \ --job-name="FS_sub-$subject" \...

From the cross-sectional folders: ses-Pre: [recon-all.log](https://github.com/poldracklab/fmriprep/files/1917060/recon-all.log) ses-Post: [recon-all.log](https://github.com/poldracklab/fmriprep/files/1917063/recon-all.log) From the base folder: [recon-all.log](https://github.com/poldracklab/fmriprep/files/1917065/recon-all.log) From the longitudinal folders: ses-Pre: [recon-all.log](https://github.com/poldracklab/fmriprep/files/1917070/recon-all.log) ses-Post: [recon-all.log](https://github.com/poldracklab/fmriprep/files/1917071/recon-all.log)

Thanks for the update @effigies

Hi @oesteban You're obviously right about @satra 's point. And I know that. I was just surprised by the fact of inconsistency across all three options. However, I figured out...

@dyhan316, what version of QSIPrep are you running?

Hi @student846, This is an existing issue with the reconstruction in 0.15.3. See the on-going discussion in #404 (among others).

For sure. I was just making sure I had the rest of call correct so I could reuse the existing tck file for comparability with (for example) the mean length...

One last question and then I'll close this... Is there a reason for mean length that SIFT weights aren't used? Thanks for all the help and the tool @mattcieslak

Hi @xiaosonghe, You're right, I can definitely submit a custom json recon-spec. The challenge, from my initial question, was that to sample scalar metrics for ROI-to-ROI connections requires A) the...