I have tried the ftp transfer method, with a file as small as 4KB and one as
large ass 295MB
error out put;
ftp> put /Users/fmri/Studies/FreeSurferMRIs/5235/5235bem.zip
local: /Users/fmri/Studies/FreeSurferMRIs/5235/5235bem.zip remote:
/Users/fmri/Studies/FreeSurferMRIs/5235/5235bem.zip
229
can you upload a dataset with this problem and tell us exactly (what
voxel coords) you see them at?
On Thu, 27 Aug 2015, fmri wrote:
> processing attempt on latest dev 8/15 did not resolve the subcortical
> annotation within WM tracks, the unknown voxels continue to persist.
>
>
> On Aug 26, 201
processing attempt on latest dev 8/15 did not resolve the subcortical
annotation within WM tracks, the unknown voxels continue to persist.
On Aug 26, 2015, at 7:06 AM, Bruce Fischl wrote:
> it would fix the hippocampal problems and maybe the cortical ones as well
>
> cheers
> Bruce
> On
> Tue
the Problem is that they were labeled as cortex in the aseg but as "unknown" in
the aparc, so they get labeled as "unkown" in the aparc+aseg
the Resolution is still not clear.
I was directed to follow instructions
https://surfer.nmr.mgh.harvard.edu/fswiki/tksurfer_labeledit,
but the 'unkonwn'
what version should I try?
On Aug 26, 2015, at 7:06 AM, Bruce Fischl wrote:
> it would fix the hippocampal problems and maybe the cortical ones as well
>
> cheers
> Bruce
> On
> Tue, 25 Aug 2015, fmri wrote:
>
>> I have already processed 88 subjects in this version,
>>
>> would it matter if
it would fix the hippocampal problems and maybe the cortical ones as well
cheers
Bruce
On
Tue, 25 Aug 2015, fmri wrote:
> I have already processed 88 subjects in this version,
>
> would it matter if I process or re-process subjects with another version?
>
>
> On Aug 25, 2015, at 3:44 PM, Bruce F
I have already processed 88 subjects in this version,
would it matter if I process or re-process subjects with another version?
On Aug 25, 2015, at 3:44 PM, Bruce Fischl wrote:
> that's probably the reason the hippocampus (and maybe cortex) doesn't
> look that good. Try grabbing a new dev vers
which "new" atlas?
On 08/25/2015 06:44 PM, Bruce Fischl wrote:
> that's probably the reason the hippocampus (and maybe cortex) doesn't
> look that good. Try grabbing a new dev version and see if it improves.
> Doug: has the new atlas been put into the dev recon-all? I think it has,
> hasn't it?
>
The non-labeled voxels in the aparc+aseg near hippocampus. I think the
resolution was that they were labeled as cortex in the aseg but as
"unknown" in the aparc, so they get labeled as "unkown" in the
aparc+aseg (since that is what they are)
On 08/25/2015 06:42 PM, fmri wrote:
> sorry, what was
that's probably the reason the hippocampus (and maybe cortex) doesn't
look that good. Try grabbing a new dev version and see if it improves.
Doug: has the new atlas been put into the dev recon-all? I think it has,
hasn't it?
On Tue, 25 Aug 2015, fmri wrote:
> Version
>
> freesurfer-Darwin-lion
sorry, what was ?
On Aug 25, 2015, at 3:18 PM, Douglas N Greve wrote:
> wasn't this brought up on the list a few weeks back?
>
> On 08/25/2015 06:08 PM, fmri wrote:
>> Dear Freesurfer experts,
>>
>> on aparc+aseg.mgz there is Hippocampus labeled over WM regions.
>>
>> There are cortex "Unknow
Version
freesurfer-Darwin-lion-dev-20150701
On Aug 25, 2015, at 3:11 PM, Bruce Fischl wrote:
> Hi Joe
>
> what version are you using? That looks a lot like a bug I fixed a month
> or two ago (the hippocampal stuff). The cortex I'm not so sure about. Some
> of it might be dura
> cheers
> Bru
wasn't this brought up on the list a few weeks back?
On 08/25/2015 06:08 PM, fmri wrote:
> Dear Freesurfer experts,
>
> on aparc+aseg.mgz there is Hippocampus labeled over WM regions.
>
> There are cortex "Unknown" voxels that persist through out all of our scans.
>
> What files should be edited a
Hi Joe
what version are you using? That looks a lot like a bug I fixed a month
or two ago (the hippocampal stuff). The cortex I'm not so sure about. Some
of it might be dura
cheers
Bruce
On Tue, 25 Aug 2015, fmri wrote:
> Dear Freesurfer experts,
>
> on aparc+aseg.mgz there is Hippocampus lab
14 matches
Mail list logo
