[Freesurfer] freeview crash -- petsc error when opening volume

2019-08-20 Thread TRISTAN J PAUTSCH
External Email - Use Caution Greetings all, I'll try to keep this succinct. I'm attempting to deploy FreeSurfer on Ubuntu 18.04 servers here at the lab. I used the stable 6.0/CentOS 6 download, in addition to the dev version of freeview per the .../fswiki/UpdateFreeview instruct

[Freesurfer] Re-running lGI flag

2019-08-20 Thread Avi Gharehgazlou
External Email - Use Caution Hi, I have a very quick question... I've ran the lGI flag (-localGI) on my participants. However, I've then performed manual edits (i.e. control points, etc) on some participants and re-ran recon-all and lGI flag after my edits.. To be sure, I want to

[Freesurfer] An error during data processing

2019-08-20 Thread Троицкий Антон Александрович
External Email - Use Caution Hello FreeSurfer Developers, I a beginner freesurfer user. It is my first patient that I try to process. The patient data was obtained on Philips MRI Achieva 3.0 T with dStream application. I performed /Applications/freesurfer/bin/recon-all -i /Us

Re: [Freesurfer] Help with using family as random effect in sibling study

2019-08-20 Thread Hopkinson, Casey E
Sure! We have been conducting analyses in a large sample of pairs of siblings to see the effect of prenatal exposures on cortical thickness. For the current analysis, we're looking at the effect of the exposure load (total # of exposures) on cortical thickness using a paired-difference model, so

Re: [Freesurfer] mris_label2annot gives wrong label

2019-08-20 Thread Rachel S
External Email - Use Caution Sure. Thank you. mris_label2annot --s p6 --h rh --a t500 --ldir $SUBJECTS_DIR/p6/label/regenerated_rh_500 --nhits nhits.mgh --ctab /home/rachelsun/Software/freesurfer/resolution1015_LUT.txt Reading ctab /home/rachelsun/Software/freesurfer/resolution1