thank you doug, martin, and bruce.
martin: i believe she was doing this for motion correction
i've attached the error this person observed below. so it does seem that
mri_robust_template at present doesn't do any resampling.
bruce: we can definitely see ways in which this could be done outside
recon-all and then sent to recon-all as a single image. but i just wanted
to verify that the error we were observing was expected behavior at present.
cheers,
satra
RuntimeError: Command:
mri_robust_template --satit --average 1 --fixtp --mov
/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep0/001.mgz
/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep1/002.mgz
/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep2/003.mgz
/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep3/004.mgz
/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep4/005.mgz
--inittp 1 --iscale --noit --template rawavg.mgz --iscaleout
001-iscale.txt 002-iscale.txt 003-iscale.txt 004-iscale.txt
005-iscale.txt --subsample 200 --lta 001.lta 002.lta 003.lta 004.lta
005.lta
Standard output:
$Id: mri_robust_template.cpp,v 1.37.2.2 2012/10/10 19:59:06 mreuter Exp $
--satit: Will estimate SAT iteratively!
--average: Using method 1 for template computation.
--fixtp: Will map everything to init TP!
--mov: Using
/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep0/001.mgz
as movable/source volume.
--mov: Using
/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep1/002.mgz
as movable/source volume.
--mov: Using
/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep2/003.mgz
as movable/source volume.
--mov: Using
/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep3/004.mgz
as movable/source volume.
--mov: Using
/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep4/005.mgz
as movable/source volume.
Total: 5 input volumes
--inittp: Using TP 1 as target for initialization
--iscale: Enableing intensity scaling!
--noit: Will output only first template (no iterations)!
--template: Using rawavg.mgz as template output volume.
--iscaleout: Will perform intensity scaling and output results
--subsample: Will subsample if size is larger than 200 on all axes!
--lta: Will output LTA transforms
reading source
'/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep0/001.mgz'...
converting source
'/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep0/001.mgz'
to bspline ...
MRItoBSpline degree 3
reading source
'/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep1/002.mgz'...
converting source
'/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep1/002.mgz'
to bspline ...
MRItoBSpline degree 3
reading source
'/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep2/003.mgz'...
converting source
'/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep2/003.mgz'
to bspline ...
MRItoBSpline degree 3
reading source
'/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep3/004.mgz'...
converting source
'/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep3/004.mgz'
to bspline ...
MRItoBSpline degree 3
reading source
'/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep4/005.mgz'...
converting source
'/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep4/005.mgz'
to bspline ...
MRItoBSpline degree 3
Standard error:
ERROR: MultiRegistration::loadMovables: images have different voxel sizes.
Currently not supported, maybe first make conform?
Debug info: size(1) = 1, 1, 1.2 size(0) = 1, 1, 1
MultiRegistration::loadMovables: voxel size is different
/Volumes/LaCie/RaquelAlmeida/workflow_dir/workflow_dir/l1workflow/ReconAll/AutoRecon1/_subject_id_006_S_4150/T1_prep/mapflow/_T1_prep1/002.mgz.
Return code: 251
Interface RobustTemplate failed to run.
On Tue, May 31, 2016 at 2:38 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>
wrote:
> Hi Satra
>
> it will probably reject this by default, which you can get around be
> reslicing one of them to be like the other. Or "conforming" both of them.
>
> cheers
> Bruce
> On
> Tue, 31 May 2016, Satrajit Ghosh wrote:
>
> > hi folks,
> > does recon-all work if the input T1s for the same participant have
> different
> > resolutions? (i don't have a dataset to test, but trying to debug some
> > issues another group has been having).
> >
> > cheers,
> >
> > satra
> >
> >
> >
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