I tried on another standar PC (4 core processor) with XP Win recon-all in VirtualBox (latest edition) running Ubuntu.

 

I attach file folder with patient brain - first in VirtualBox as described and then in command line of terminal Ubuntu window:

sudo mount - vboxsf folder /home/virtualuser/freesurfer/subjects/folder

 

Then I convert original TrioTim scanner files using mri_convert -it IMA -ot mgz filename foldername.mgz

* here is slight problem - recon log shows that mri_convert recognizes itself that although my brain files are labeled as IMA that they are not old Siemens files, so that it unpacks them as DICOM and suggests that if it fails I should run mri_convert as DICOM

But after all mri_convert succesfully writes foldername.mgz file as a result of conversion in foldername directory

 

Ok, then I run recon-all -subjid foldername -autorecon1 -cw256

Now -cw256 was suggested in another error run because files do not fit in 256 matrix

Recon stops and sayz no 001.mgz files in /mri/orig directory

So I copy converted foldername.mgz from foldername directory into /mri/orig directory and rename it to 001.mgz

*now here is my question: do all people get 001.mgz file the same way as me?

Then when I run recon-all -subjid foldername -autorecon1 -cw256 it halts with error at nu_correct as you can see in attached recon-all.log file

 

Petr