Making Geometry by Images

[Mahmood Khormani]

Hello,

I want to use Dream 3D to generate Inhomogeneous 3D concrete Cube based on 2D Images with Tiff format.

How can I stack my Images ?

I can not find the filter ?

And, How can I import my 3D Geometry into Abaqus software ?

Thank you

[Michael Jackson]

For importing the image data see this tutorial video:

https://www.youtube.com/watch?v=POQsTKEHMjQ

For exporting to Abaqus there are only a few choices that may or may not
work. There is the "Abaqus Hexahedron Export" filter which will take
your voxelized structure and write some Abaqus compatible files.

You could also surface mesh (using the Quick Mesh filter) and then use
the Abaqus Surface Mesh exporter filter.

--
Michael A. Jackson
BlueQuartz Software, LLC
[e]: mike.j...@bluequartz.net

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[Mahmood Khormani]

Thank you Mr. Jackson

> <mailto:dream3d-users+unsub...@googlegroups.com>.

[Mahmood Khormani]

Hi,

I put ITK filter in acordance with video but not green the start pipeline button.what is the problem?

On Monday, August 7, 2017 at 10:43:19 PM UTC+4:30, Michael Jackson wrote:

> <mailto:dream3d-users+unsub...@googlegroups.com>.

[Michael Jackson]

We need more details. Can you save the pipeline and then send it to the
list? Or show the error message that you are receiving from DREAM.3D?
--
Mike Jackson [mike.j...@bluequartz.net]

Mahmood Khormani wrote:
> Hi,
>
> I put ITK filter in acordance with video but not green the start
> pipeline button.what is the problem?
>
> On Monday, August 7, 2017 at 10:43:19 PM UTC+4:30, Michael Jackson wrote:
>
> For importing the image data see this tutorial video:
>
> https://www.youtube.com/watch?v=POQsTKEHMjQ
> <https://www.youtube.com/watch?v=POQsTKEHMjQ>
>
> For exporting to Abaqus there are only a few choices that may or may
> not
> work. There is the "Abaqus Hexahedron Export" filter which will take
> your voxelized structure and write some Abaqus compatible files.
>
> You could also surface mesh (using the Quick Mesh filter) and then use
> the Abaqus Surface Mesh exporter filter.
>
> --
> Michael A. Jackson
> BlueQuartz Software, LLC

> [e]: mike.j...@bluequartz.net <javascript:>

>
>
> Mahmood Khormani wrote:
> > Hello,
> >
> > I want to use Dream 3D to generate Inhomogeneous 3D concrete Cube
> based
> > on 2D Images with Tiff format.
> > How can I stack my Images ?
> > I can not find the filter ?
> > And, How can I import my 3D Geometry into Abaqus software ?
> >
> > Thank you
> >
> > --
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>
> >

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[Mahmood Khormani]

AS you see the start button is not green. Also I put my images with .tiff format ( with 2 f , converted by Matlab code ) in Data foler and select it for input directory but do not detect them.should I convert them? is there any filter? 

[Michael Jackson]

Set the "File Extension" to ".tiff"
You will also need to set the other variables appropriately. Since there
are literally millions of different combinations of filenames we leave
it to the user to set all the proper File Prefix, File Suffix, File
Extension, Start index, End Index and Padding Digits to allow DREAM.3D
to properly form the file names.

Can you post the first 5 filenames of your images?

--
Michael A. Jackson
BlueQuartz Software, LLC
[e]: mike.j...@bluequartz.net

Mahmood Khormani wrote:
> <https://lh3.googleusercontent.com/-xIK1E7t2CAA/WYnL_sLSmdI/AAAAAAAACXQ/TGJvUWryCicNyNRU-GnUU1Is2_aRPth7QCLcBGAs/s1600/2017-08-08_18-52-06.png>

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[Mahmood Khormani]

Hi,

I change my first slice name to slice_0 and the start button is green. and then I went accordance video but in ( create element Array from feature array) there is some diffrence for me , the "element data to copy to feature data" and the "copied attribute array" boxes are diffrent ( in the pic ). and then I click to start and make .Xdmf file in output folder and Apply it by para view but it failed. the error report is ;

ERROR: In C:\bbd\7cc78367\build\superbuild\paraview\src\VTK\IO\Xdmf2\vtkXdmfHeavyData.cxx, line 1214

vtkXdmfReader (000001EAB738BC60): Failed to read attribute data

ERROR: In C:\bbd\7cc78367\build\superbuild\paraview\src\VTK\IO\Xdmf2\vtkXdmfHeavyData.cxx, line 1214

vtkXdmfReader (000001EAB738BC60): Failed to read attribute data

ERROR: In C:\bbd\7cc78367\build\superbuild\paraview\src\VTK\IO\Xdmf2\vtkXdmfHeavyData.cxx, line 1214

vtkXdmfReader (000001EAB738BC60): Failed to read attribute data

On Monday, August 7, 2017 at 7:59:29 PM UTC+4:30, Mahmood Khormani wrote:

[Michael Jackson]

Remove Filter #05. Rerun the pipeline and then see if ParaView can load
the .xdmf file.

Notes: Please use ParaView version 5.3 or 5.4. When opening the XDMF
file DO NOT USE either of the XDMF Version 3 readers. Those have issues.
The correct reader to use is typically the first one that shows in the
list that ParaView presents.

--
Michael A. Jackson
BlueQuartz Software, LLC
[e]: mike.j...@bluequartz.net


Mahmood Khormani wrote:

> Hi,
>
> <https://lh3.googleusercontent.com/-D2ym5XWhfCw/WYrnqj3WhTI/AAAAAAAACZE/q06ZJ5qSsGsLiAKVZVDLCsAgQW1BwalfQCLcBGAs/s1600/2017-08-09_15-04-23.png>
>
> <https://lh3.googleusercontent.com/-vDXv_x9lzXY/WYrnxbTjEHI/AAAAAAAACZI/GZfiLl6sSvY_U4ixm3Y_Ylbo4ubAriRZQCLcBGAs/s1600/2017-08-09_15-02-02.png>

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[Mahmood Khormani]

Hi,

I create pipline for stacking images and create .xdmf file but para view just show a plate ( one slice of model ). where is the problem ? and can you say me in the video what writes in the Copied Attribute Array ?  is this name important or is this Array are define before with this name ? 

Thank you

[Michael Jackson]

I suggest you try the following:
Open the DREAM.3D Toolbox, Click on the Bookmarks Tab. Then open the
following path:

Prebuilt Pipelines->Workshop->Reconstruction->(08)Image Initial
Visualization

Double click on the "(08)Image Initial Visualization" pipeline file to
load it into DREAM.3D.
Click the "Start Pipeline" button.
Open the .xdmf file in ParaView.

Within ParaView ensure your settings match those of the image provided.
Pay close attention to what the orange arrows are pointing to.

You should be able to see your data.

You may also want to look up some short tutorials on using ParaView at
http://www.paraview.org

--
Michael A. Jackson
BlueQuartz Software, LLC
[e]: mike.j...@bluequartz.net


Mahmood Khormani wrote:

> Hi,
> I create pipline for stacking images and create .xdmf file but para view
> just show a plate ( one slice of model ). where is the problem ? and can
> you say me in the video what writes in the Copied Attribute Array ? is
> this name important or is this Array are define before with this name ?
> Thank you
>
> On Wednesday, August 9, 2017 at 3:16:00 PM UTC+4:30, Mahmood Khormani wrote:
>
> Hi,
>

> <https://lh3.googleusercontent.com/-D2ym5XWhfCw/WYrnqj3WhTI/AAAAAAAACZE/q06ZJ5qSsGsLiAKVZVDLCsAgQW1BwalfQCLcBGAs/s1600/2017-08-09_15-04-23.png>
>
> <https://lh3.googleusercontent.com/-vDXv_x9lzXY/WYrnxbTjEHI/AAAAAAAACZI/GZfiLl6sSvY_U4ixm3Y_Ylbo4ubAriRZQCLcBGAs/s1600/2017-08-09_15-02-02.png>

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[Michael Jackson]

Looks like you are only importing a single slice (a single image file)
of your stack of images. Can you confirm the starting and ending slice
values in the Import Image Stack filter?

--
Michael A. Jackson
BlueQuartz Software, LLC
[e]: mike.j...@bluequartz.net


Mahmood Khormani wrote:

> Hi Mr. jackson thank you for your attention I remove filter 05 and
> create new .xdmf but para view (version 5.4.1) shows like before.
> tuple dimention in filter threshold is ( 524 , 390 , 1 ) the third
> dimention is correct ?
>
> On Wed, Aug 9, 2017 at 8:45 PM, Michael Jackson
> <mike.j...@bluequartz.net <mailto:mike.j...@bluequartz.net>>

> wrote:
>
> Remove Filter #05. Rerun the pipeline and then see if ParaView can
> load the .xdmf file.
>
> Notes: Please use ParaView version 5.3 or 5.4. When opening the XDMF
> file DO NOT USE either of the XDMF Version 3 readers. Those have
> issues. The correct reader to use is typically the first one that
> shows in the list that ParaView presents.
>
> -- Michael A. Jackson BlueQuartz Software, LLC [e]:

> mike.j...@bluequartz.net <mailto:mike.j...@bluequartz.net>

>
>
> Mahmood Khormani wrote:
>
> Hi,
>
> <https://lh3.googleusercontent.com/-D2ym5XWhfCw/WYrnqj3WhTI/AAAAAAAACZE/q06ZJ5qSsGsLiAKVZVDLCsAgQW1BwalfQCLcBGAs/s1600/2017-08-09_15-04-23.png
>
>

<https://lh3.googleusercontent.com/-D2ym5XWhfCw/WYrnqj3WhTI/AAAAAAAACZE/q06ZJ5qSsGsLiAKVZVDLCsAgQW1BwalfQCLcBGAs/s1600/2017-08-09_15-04-23.png>>
>
> <https://lh3.googleusercontent.com/-vDXv_x9lzXY/WYrnxbTjEHI/AAAAAAAACZI/GZfiLl6sSvY_U4ixm3Y_Ylbo4ubAriRZQCLcBGAs/s1600/2017-08-09_15-02-02.png

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[Mahmood Khormani]

yes, this is another problem when I import images pipline issues wants the slice_0 that I first in my images change the 1 to 0 for first slice and in (11 t0 174) change padding digit to 1 that the button became green. 

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