[dmritool-discussion] Paraview help

[Jian Cheng]

Hi Nagesh,

In the "properties" panel, when you click "toggle advanced properties",
it shows "Translation" and "Scale".
By setting "translation", you can translate the image map to different
position.
By setting "scale", you scale the axis. If you set (-1,1,1) for scale,
it reverses the x-axis.
This is for documentation of paraview, not for documentation of
dmritool. I am not an expert of paraview. This it is better to refer
tutorials or documentation from paraview.

Actually I think the manual setting of coordinates for outputs of
dmritool and AnalyzeNiftiIO plugin is bad.
My plan includes
1. make the consistency inside the codes when generating the mesh.
2. make a new plugin of paraview to visualize the spherical function
field represented using SH coefficients or function samples. 
I will do it when I have time.

best,
Jian Cheng


On 03/24/2015 10:44 AM, Nagesh Adluru wrote:
> Hi Jian,
>
> I enabled the AnalyzeNiftiIO plugin and am able to load the GFA nii
> file into the paraview but was not able to adjust the origin manually!
> I am hoping your new documentation will have that info.
> Also to make the colors of the glyphs to have RGB color coding based
> on their primary orientation.
>
> I look forward to your updated instructions on the visualization
> aspects for outputs from DMRITool.
>
> Thanks so much for your help!
> Sincerely,
> Nagesh
>
> On Tue, Mar 24, 2015 at 7:38 AM, Nagesh Adluru
> <nagesh.adluru at gmail.com <mailto:nagesh.adluru at gmail.com>> wrote:
>
>     Hi Jian,
>
>     Thanks so much for the help and for going to add to the
>     documentation. I will try it out.
>
>     Sincerely,
>     Nagesh
>
>     On Mon, Mar 23, 2015 at 10:09 PM, Jian Cheng
>     <jian.cheng.1983 at gmail.com <mailto:jian.cheng.1983 at gmail.com>> wrote:
>
>         Hi Nagesh,
>
>         Please check the data formats supported in paraview.
>         http://www.paraview.org/Wiki/ParaView/Data_formats
>         Paraview originally can visualize vtk files.
>         For the GFA map which is in nifti format, paraview can also
>         visualize it when you enable the AnalyzeNiftiIO plugin.
>         You can enable it by clicking "Tools" -> "Manage Plugins" ->
>         "AnalyzeNiftiIO".  Note that it supports *.nii file, but not
>         *.nii.gz file, and you may need to set the origin manually in
>         paraview such that the gfa map can be visualized in the same
>         coordinate as the EAP profile in vtk format.
>         You can also enable other useful plugins, e.g. "quadview".
>
>         Thanks for your feedback. I will add more explanation on it to
>         the documentation.
>
>         best,
>         Jian Cheng
>
>
>         On 03/23/2015 05:32 PM, Nagesh Adluru wrote:
>>         Hello Jian,
>>
>>         Hope all is well! I am new to paraview and could you put a
>>         simple tutorial on how to load the EAP profile vtk files
>>         obtained from DMRITool in paraview with an underlay of the
>>         GFA image?
>>
>>         The glyphs load fine in paraview but I am not able to figure
>>         out how to get the GFA underlay in paraview!
>>
>>         Thanks so much for your help!
>>         Sincerely,
>>         Nagesh
>>
>>
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>
>
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