11 Mar
2010
11 Mar
'10
3:40 p.m.
Hi Helen, That's a good question. You don't have to start at autorecon1, however. When you run -autorecon2-wm or -autorecon2-pial one of the first steps is: mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
which is changing the brain.finalsurfs.mgz to take into account the changes you made to the brainmask.mgz. Your edits are not lost. Allison
--
On Thu, 11 Mar 2010, Helen Keefe wrote:
> Hi,
>
> I have a similar questionto the one listed below.
> After I edit brainmask.mgz and wm.mgz, my understanding was that I could
> run
> autorecon2-wm
>
> and would not have to run autorecon2-pial because -wm will run
> everything else through the end of -autorecon2.
>
> However, if brainmask.mgz is run at the end of autorecon1, don't I need
> to run autorecon1 again, since wm or contol point edits would alter the
> brainmask??
>
> Thanks for help,
> Helen
>
> ____________________________________________________________
>
> "Hi Dana,
>
> you can do autorecon2-cp and it will do both things (the wm comes after
> it in the stream anyway)
>
> cheers
> Bruce
> On Tue, 9 Mar 2010, Dana W. Moore wrote:
>
>> Hello everyone,
>>
>> There is an image that needs white matter edits (editing voxels) as
>> well as control points. I know the two commands I need to re-run are
>> autorecon2-cp and autorecon2-wm. Can I do both kinds of edits and
>> somehow combine the -cp and -wm commands, or do I need to do the
>> control points first, re-run, and then do further white matter edits?
>>
>> Thanks,
>> Dana
>>
>
>
>
>