Re: [Freesurfer] reruns recon-all -long after edits

the naming convention. Best, Martin > On 15. Apr 2018, at 23:07, Anna Daniels <anna.dani...@fu-berlin.de> wrote: > > Dear FreeSurfer team, > > using the longitudinal stream in v6.0.0, I edited the cross and base runs, but still had to edit the long runs for some subj

[Freesurfer] reruns recon-all -long after edits

Dear FreeSurfer team, using the longitudinal stream in v6.0.0, I edited the cross and base runs, but still had to edit the long runs for some subjects. If I understood the LongitudinalEdits Wiki correctly, the long can still be edited if necessary. Rerunning the respective recon-all command with

Re: [Freesurfer] recon-all: exited with errors (white matter peak at 110, cannot allocate memory)

le permissions and >> then move it into your >> $FREESURFER_HOME/bin directory (sudo might be required): >> >> >> >> chmod +x /path/to/downloaded/mri_normalize >> >> mv /path/to/downloaded/mri_normalize ${FREESURFER_HOME}/bin/ >> >> >> &

Re: [Freesurfer] recon-all: exited with errors (white matter peak at 110, cannot allocate memory)

rom control points outside of the head. The current (dev) version of mri_normalize detects and removes them. Can you grab a new version of mri_normalize and see if it fixes your problem? Let us know your hardware/software environment and we will get it to you cheers Bruce On Fri, 6 Apr 2018, A

Re: [Freesurfer] recon-all: exited with errors (white matter peak at 110, cannot allocate memory)

Hi Bruce, hi Srishti, I have exactly the same problem with several subjects rerunning recon-all and there was sufficient memory available. I also tried out the last command directly which resulted in the same error log. mri_normalize -f /home/anna/FREESURFER/00_DATA_MABT1T2/02a_MABT1T2_cross_