Dear All,

I wanted to know if there is any take on the issue of white matter edits (specifically deleting unwanted voxels from wm.mgz). I sent a subject a week ago for your review. It seems this is a problem that I had with several scans, and by the message list, I am not the only one. Recent users having the same issues have raised the possibility of editing orig.mgz by replacing wm intensity with gm intensity in the troubled areas as workaround to the wm.mgz issue.

Please let me know,

Thank you,

octavian

Dear Bruce,

I just transferred subject r02.tar.gz.

Again, wm.mgz edits (all deleted voxels, no additions) are not incorporated on reruns using any of the recon-all -autorecon-wm -aitorecon3 recon-all -autorecon2 -autorecon3 recon-all -make all

FOr example, the complete command line for a rerun is

recon-all -autorecon2-wm -autorecon3 -3T -bigventricles -cw256 -subjid r02 -parallel > output.txt &

Here are some of the edited voxels which are not excluded from the wm on rerun:

-40.14, -2.67, 116.29 coronal slice 132 12.73, -23.67, 126.16 coronal slice 171 14.05, 12.33, 11.61 coronal slice 147

I mention this is not the only subject where I have this problem. Thank you for your help.