[Mrtrix-discussion] Re: Mrtrix-discussion Digest, Vol 56, Issue 7

[Arnaud Boré]

Thank you very much.


2013/9/21 <mrtrix-discussion-request at www.nitrc.org>

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> Today's Topics:
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>    1. Open ROI with fslview or freeview (Arnaud Bor?)
>    2. Re: Open ROI with fslview or freeview (Thijs Dhollander)
>
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> ----------------------------------------------------------------------
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> Message: 1
> Date: Fri, 20 Sep 2013 15:33:39 -0400
> From: Arnaud Bor? <arnaud.bore at gmail.com>
> Subject: [Mrtrix-discussion] Open ROI with fslview or freeview
> To: mrtrix-discussion at www.nitrc.org
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> CAPA8YjZ487AuSeECyPvfHeZUgueY2m2WhCTa8TX9sm-qAPUbxw at mail.gmail.com>
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> Dear Mrtrix experts,
>
> I've got an error when I create and save a ROI and then try to load it in
> FSL fslview (4.0.1) .
>
> This is the error message:
> nifti_convert_nhdr2nim: bad datatype
>
> I've got the same kind of problem when I try to load it with freeview
> unsupported datatype 1 with scl_slope !=0
>
> I'm using mrview 0.2.12 (revision 393)
>
> I tried the patch here :
> http://www.nitrc.org/pipermail/mrtrix-discussion/2012-April/000398.htmlbut
> didn't fix anything or maybe I've done it wrong
>
> Thank you for your help
>
> Arnaud
>
> --
> Arnaud BORE
> Research assistant
> Cellulaire : (001) 514-647-8649
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> ------------------------------
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> Message: 2
> Date: Fri, 20 Sep 2013 21:56:37 +0200
> From: Thijs Dhollander <thijs.dhollander at gmail.com>
> Subject: Re: [Mrtrix-discussion] Open ROI with fslview or freeview
> To: mrtrix-discussion at www.nitrc.org
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> Hi Arnaud,
>
> The reason this tends to happen when trying to use ROIs created with MRtrix
> in another software package, is the fact that the latter does not support
> the bitwise datatype that MRtrix creates its ROIs with.
> The solution is easy: just convert your ROIs to another datatype using
> mrconvert with the "-datatype" option (see
> http://www.brain.org.au/software/mrtrix/commands/mrconvert.html ).  The
> available datatypes and the accompanying specifiers that should be used
> with the "-datatype" option, can be found at
> http://www.brain.org.au/software/mrtrix/general/formats.html .
> You could run, e.g.:
>
> mrconvert -datatype Int8 myROIcreatedwithMRtrix.mif
> myROItobeusedwithFSL.nii
>
> Hope that's somewhat clear and solves your problem!
>
> Cheers,
> Thijs
>
> *Thijs Dhollander
> thijs.dhollander at gmail.com
> Tel. +32 475 36 44 27*
> Medical Image Computing (MIC), ESAT-PSI, Department of Electrical
> Engineering, KU Leuven
>
>
> On Fri, Sep 20, 2013 at 9:33 PM, Arnaud Boré <arnaud.bore at gmail.com>
> wrote:
>
> > Dear Mrtrix experts,
> >
> > I've got an error when I create and save a ROI and then try to load it in
> > FSL fslview (4.0.1) .
> >
> > This is the error message:
> > nifti_convert_nhdr2nim: bad datatype
> >
> > I've got the same kind of problem when I try to load it with freeview
> > unsupported datatype 1 with scl_slope !=0
> >
> > I'm using mrview 0.2.12 (revision 393)
> >
> > I tried the patch here :
> >
> http://www.nitrc.org/pipermail/mrtrix-discussion/2012-April/000398.htmlbutdidn't fix anything or maybe I've done it wrong
> >
> > Thank you for your help
> >
> > Arnaud
> >
> > --
> > Arnaud BORE
> > Research assistant
> > Cellulaire : (001) 514-647-8649
> >
> >
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> End of Mrtrix-discussion Digest, Vol 56, Issue 7
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>



-- 
Arnaud BORE
Research assistant
Cellulaire : (001) 514-647-8649
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