Are you trying to build an installer? What did you enable in cmake?
On 04/16/2014 06:48 PM, Wayne Su wrote:
Re: [mitk-users] Save Fiber bundle Hi Peter,
Thank you for delivering the good news. I tried to compile new
release of MITK from the source code in order to get MitkDiffusion and
MiniApps. And I got some errors “Ignoring unknown target
“org_mitk_diffusionImaging” for installation”. I guess I have to wait
the formal release of MitkDiffusion.
Wayne
On 14-04-16 6:13 AM, "Peter Neher" <[email protected]> wrote:
Hi Wayne,
I think the new release of MITK will support the trackvis file
format, at least if you perform the tracking using the MiniApp
command line tool.
But to include the geometry of the image in the output file will
only work for the miniApp, not the GUI application. In the miniApp
it is possible to directly associate the image with the
tractogram, which is in general not possible in the GUI. The new
release of MitkDiffusion will be available soon and hopefully also
the MiniApps.
Cheers,
Peter
On 04/11/2014 10:19 PM, Wayne Su wrote:
Re: Save Fiber bundle TrackVis uses LPS coordinate system.
But the fiber bundle saved by MITK uses RAS coordinate system.
I managed to edit the dimension of track file, and translate x
and y values in the track file. Finally I got aligned track
and DWI in TrackVis program.
If I’m correct, I suggest to save TrackVis track file in LAS
instead RAS coordinate system. And use the full dimension of
upsampled DWI in 1x1x1 resolution, or maybe native DWI space.
All this needs to modify MITK source code.
Wayne
On 14-04-11 8:50 AM, "Wayne Su" <[email protected]> wrote:
Hi Christian,
Thank you for the reply. In the MITK-DT, the fiber bundle
aligns well with T1 and DWI. What I’m trying is to load
them into TrackVis. Because the dimension of the fiber
bundle is no longer same as the one from DWI, they don’t
align in TrackVis. I’m wondering whether there is any
option to use the dimension of DWI (maybe the upsampled
DWI with 1x1x1 resolution) to save fiber bundle. I know
there are two ways. One solution is to crop DWI to match
fiber bundle. Another way is to change the dimension of
fiber bundle (I’m not familiar with this part). I
appreciate any input on this case.
Thanks,
Wayne
On 14-04-11 12:56 AM, "Weber, Christian(1)"
<[email protected]> wrote:
Hi Wyane,
the fiber bundles are allways in the space of DWI
since they are derived from it.
Since DWI and T1/T2 often do not match you need to
register them, currently the easiest way doing this
with GUI is
(AFAIK ):
Extract B0 image from the DWI and then register the
T1 to this B0 image,
using e.g. the Point-Based registration.
Best,
Christian
*From:* Wayne Su [mailto:[email protected]]
*Sent:* Donnerstag, 10. April 2014 20:10
*To:* [email protected]
*Subject:* [mitk-users] Save Fiber bundle
Hello experts,
Is there a way to save diffusion fiber bundle onto T1
structural space or DWI space, i.e. the dimension of
the fiber bundle is the same as the one from T1 or
DWI? Currently, it saves as reduced dimension with
1mmx1mmx1mm spacing. I tried to load the track file
into TrackVis along with T1 image. But the locations
of them don’t match.
Thanks,
Wayne
--
Dipl.-Inform. Peter Neher
German Cancer Research Center
(DKFZ, Deutsches Krebsforschungszentrum in der Helmholtz-Gemeinschaft, Stiftung
des öffentlichen Rechts)
Division of Medical and Biological Informatics
Im Neuenheimer Feld 280, D-69120 Heidelberg
Phone: 49-(0)6221-42-3552, Fax: 49-(0)6221-42-2345
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