Don't use --projopt
On 04/15/2014 02:21 AM, Joerg Pfannmoeller wrote:
> Allright, if the option --interp nearest is used the output is as given in a
> previous post
> (http://www.mail-archive.com/freesurfer%40nmr.mgh.harvard.edu/msg35148.html).
> After applying --interp trilin the output i
Allright, if the option --interp nearest is used the output is as given in a
previous post
(http://www.mail-archive.com/freesurfer%40nmr.mgh.harvard.edu/msg35148.html).
After applying --interp trilin the output is:
mri_vol2surf --mov /.../f001.nii --reg /.../register.f001.dof6.dat --interp
tr
Can you send your commandline with --interp as well as the terminal output?
On 04/14/2014 06:54 AM, Joerg Pfannmoeller wrote:
> Well, there is no difference between trilin or nearest. mri_vol2surf displays
> segfault regardless which option I use (trilin or nearest).
>
>
> On Thu, 10 Apr 2014 11
However, let's forget about this question. I need to address something else and
until that is finished it does not matter.
On Mon, 14 Apr 2014 12:54:30 +0200
Joerg Pfannmoeller wrote:
> Well, there is no difference between trilin or nearest. mri_vol2surf displays
> segfault regardless which
Well, there is no difference between trilin or nearest. mri_vol2surf displays
segfault regardless which option I use (trilin or nearest).
On Thu, 10 Apr 2014 11:30:38 -0400
Douglas N Greve wrote:
>
> I don't understand what the question is. If you need to interpolate,
> then use --interp tri
I don't understand what the question is. If you need to interpolate,
then use --interp trilinear
doug
On 04/10/2014 04:36 AM, Joerg Pfannmoeller wrote:
> Allright! The only point I would like to emphasize is:
>
> Regardless if option trilin or nearest is used I need to interpolate the
> functio
Allright! The only point I would like to emphasize is:
Regardless if option trilin or nearest is used I need to interpolate the
functional data to the structural image of the subject. This might be due to a
feature of the function "build_sample_array" in the "mri_vol2surf" source code.
In this
You can use --projfrac (which can perform an interpolation with --interp
trilinear)
On 4/9/14 2:44 AM, Joerg Pfannmoeller wrote:
> Sorry for this question, but now I am confused. Do you mean that I should not
> use projopt and just use the interpolation? If so why should I not use
> projfrac?
Sorry for this question, but now I am confused. Do you mean that I should not
use projopt and just use the interpolation? If so why should I not use projfrac?
On Tue, 08 Apr 2014 15:02:36 -0400
Douglas N Greve wrote:
>
> You'll have to do without it for now and just do the interpolation
>
>
You'll have to do without it for now and just do the interpolation
On 04/08/2014 03:32 AM, Joerg Pfannmoeller wrote:
> Well, I need to use that option. In this case I will just interpolate to the
> 1 mm grid and proceed this way.
>
>
> On Mon, 07 Apr 2014 12:14:47 -0400
> Douglas N Greve wrote:
Well, I need to use that option. In this case I will just interpolate to the 1
mm grid and proceed this way.
On Mon, 07 Apr 2014 12:14:47 -0400
Douglas N Greve wrote:
>
> Sorry, I don't understand. You mean it still segfaults without --projopt
> or that you have to use projopt?
>
> On 04/0
Sorry, I don't understand. You mean it still segfaults without --projopt
or that you have to use projopt?
On 04/07/2014 02:36 AM, Joerg Pfannmoeller wrote:
> Unfortunately that is no option for me.
>
>
>
> On Fri, 04 Apr 2014 15:33:47 -0400
> Douglas N Greve wrote:
>
>> Don't use --projopt and
Unfortunately that is no option for me.
On Fri, 04 Apr 2014 15:33:47 -0400
Douglas N Greve wrote:
>
> Don't use --projopt and it won't segfault
>
> On 04/03/2014 02:08 AM, Joerg Pfannmoeller wrote:
> > The command is:
> >
> > mri_vol2surf --mov /.../f001.nii --reg /.../register.f1.dof6.dat
Don't use --projopt and it won't segfault
On 04/03/2014 02:08 AM, Joerg Pfannmoeller wrote:
> The command is:
>
> mri_vol2surf --mov /.../f001.nii --reg /.../register.f1.dof6.dat --trgsubject
> subjid --interp nearest --projopt /.../map001 --hemi rh --o
> /.../f001_surf.nii --noreshape --cortex
it sounds cool! I wonder what it does?
Actually, this uses mri_compute_volume_fractions and
mri_compute_intensities to build partial-volume models of the tissue and
then estimate them with projopt. I haven't tried this code in a few years
so you are somewhat on your own. We are hoping to clean
The command is:
mri_vol2surf --mov /.../f001.nii --reg /.../register.f1.dof6.dat --trgsubject
subjid --interp nearest --projopt /.../map001 --hemi rh --o /.../f001_surf.nii
--noreshape --cortex
The output is the follwoing:
srcvol = /.../f001.nii
srcreg = /.../register.f001.dof6.dat
srcregold
what is your command line that is seg faulting? What is the terminal output?
On 04/02/2014 05:17 PM, pfannmo...@uni-greifswald.de wrote:
> Please help me with this issue:
>
> If I apply mri_surf2vol to a single volume of unprocessed epi-data, it
> results in a segmentation fault. It works if I ap
Please help me with this issue:
If I apply mri_surf2vol to a single volume of unprocessed epi-data, it
results in a segmentation fault. It works if I apply mri_vol2vol for
registration of epi and anatomy, but than an interpolation is
involved. I would like to avoid the interpolation and apply
This is something BF added Sept 1 2009:
added --projopt switch to do optimal linear estimation of gray matter
values given a set of precomputed gray matter densities.
I don't know what it would mean beyond that
doug
On 04/02/2014 10:49 AM, Joerg Pfannmoeller wrote:
> Hello,
>
> I found an opt
Hello,
I found an option in mri_vol2surf for which I could not find a documentation.
The option is called:
--projopt
It would be nice if somebody could give a description of this option.
Respectfully yours
pfannmoe
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