I want to display a 3D bathymetry data in paraview, the file datatype is netcdf:
it has two dimensions and three variables;
my netcdf file format
When I try to open it in paraview: it is a 2D not 3D,
2D
I want to display Dlike this:
3D
i’m sorry for bad English and less infomation.
The most simple way to do that is to use the Extrusion Surface representation.
https://blog.kitware.com/a-new-embossing-representations-plugin-for-paraview/
Open ParaView
Tools -> Manage Plugins -> Embossing Representations
Create a new view
Open your file
Switch representation to Extrusion Surface
Only Available since ParaView 5.6.0. Keep in mind this is only a representation, not a change to the actual data. If you want to change the data, you will have to use CellDataToPointData and WarpByScalar, which will require more tweaking.
Related
I have Matlab code that produces an array of subplots that looks like this:
When I save this as an EMF file (normally a vector format) and insert in Powerpoint or view with Inkscape, then zoom in closely on the image, it looks pixelated, and clearly made up of a single encapsulated object as opposed to many small graphical objects:
This is very surprising to me, as I have for a long time been exporting Matlab plots as EMF and integrating those into Powerpoint slides, in order to build there more complex graphs that, as vector graphics, would print well at any size. These imported EMFs would also scale well and look smooth regardless of how much I zoomed into them in Powerpoint.
Can anyone guess why it is that on this occasion, this plot is not saved as a vector graphics but is instead (as it seems) rendered as raster? The code that produces this figure (based on the Matlab commands subplot, line, and scatter) is rather long/inelegant, but I can give details or simplify, if required to find a solution. Thanks!
Other similar threads on this site have not helped fix this.
I believe I have encountered this issue before. If it is the same as the issue I was facing, it is to do with the renderer being used to save the plot. Although it should automatically select the painters renderer when exporting to vector files, I have had instances where it used the openGL renderer instead, which results in bitmaps being used. I'm not entirely sure why this happens -- it might be the case that for particularly complicated figures, it reverts to openGL to avoid obnoxiously large or complicated vector files.
If you are using the print command, you can force it to use the painters algorithm as follows:
print('-painters',...)
if you're saving using File>Save As..., I believe setting the renderer for the figure should work:
set(figure_handle,'renderer','painters');
For explanation, per the MATLAB documentation:
-opengl' — OpenGL renderer. Use this renderer when saving bitmap images. OpenGL produces a bitmap image even with vector formats, which might limit the extent to which you can edit the image in other applications.
'-painters' — Painters renderer. Use this renderer when saving vector graphics files. If you save to a vector graphics file and if the figure RendererMode property is set to 'auto', then print automatically attempts to use the Painters renderer. If you want to ensure that your output format is a true vector graphics file, then specify the Painters renderer. For example:
print('-painters','-deps','myVectorFile')
If you do not specify the renderer, then print automatically uses the appropriate renderer to produce the output format requested. However, if you set the Renderer property for the figure, then print uses that renderer when generating output.
EDIT: Another option is to use the Copy Figure command (Edit > Copy Figure) -- this should copy the figure as an EMF file, and should obey the figure's renderer settings.
I am trying to visualize a data set (x,y,z,scalar) in comma separated values format. The style I want to recreate is something like a transparent 3d heat map. The value of scalar at coordinate (x,y,z) will determine the "mist density". No idea what the name of the style is. Links below give examples of what I mean:
https://www.paraview.org/wp-content/uploads/2014/04/densityoverlay.png
or
http://www.scidac.gov/Conference2006/speaker_abs/AhrensPic.jpg
Any references would be most useful as I am new to data visualizing.
Take a look at the Point Volume Interpolate filter with Kernel set to GaussianKernel.
I have 2 shapefiles. One is the contors of an area and the other the spot heights. Both of them has a altitude attribute. In ArcGIS there is a tool called topo to raster were you can use both these features to create a dem. In qgis I have only found tools were you can only use one.
Any Ideas?
There is only the interpolation tool that I know of which will create a DEM. Depending on the resolution you're after, you could BUFFER the spot heights, then MERGE SHAPE FILES and run the interpolation tool on that.
Using the graphical modeler would prevent the buffer layer being created making the process a little tidier (and i'm sure there's a better way using the python console). Hope this helps.
I have sets of .dcm files of an MRI scan. I am trying to convert them into 3d formats like obj (preferably) or fbx to import them into Unity 3d. I used the following open source software dcmtk to convert .dcm file into text file.
Converting DICOM files to text files
However, the dcm files lack the needed information. Is it even possible to convert .dcm files to obj and fbx. if so, could you suggest something?
Thanks
(Edit)
I would like to put my question more precisely: I want to visualize MRI data as a 3D model in Unity 3d. This is possible only when I it stored as .obj or .fbx format. Which format of MRI medical data should I start with to convert to these formats?
Thanks
According to your previous comments you are looking for the necessary information in order to obtain the geometrical information of a DICOM series representing volumetric information (RM, TC, PET, ...)
In this case, you should have a look at the Roni Zaharia web site where he explains very clearly the concepts related to orientation and geometry of the DICOM images: DICOM is easy: Getting oriented
In this particular page you will find information about Pixel Spacing, Image Orientation, Image Position, Slice Thickness, and Slice Location, as well as additional information references.
I have table of l,a,b values and want to visualise these colors in matlab (or any other suitable software). Is there any quick way like series of rectangles filled with color values from the table?
There are several versions of the Lab color space, but presumably you're referring to most common, CIELAB. You can use imwrite in Matlab to create a TIFF image with 'cielab' specified for the 'Colorspace' option. I wouldn't trust Matlab as a viewer for the resultant images though. Photoshop in lab mode (from the menu bar: Image > Mode > Lab Color) would be a good choice if you want work with and see the closest thing to the actual CIELAB space. Other viewers/editors may convert to RGB or CMYK before rendering to the screen (likely without warning you), but maybe you don't mind. If you just want to convert from CIELAB to RGB, you might find these functions useful.
After lots of research, I found out there is a plugin called 'color inspector' that can be used along with ImageJ (all opensource tools). Have excellent capacity to view and analyse different color space. Even it has some color tools that matlab yet to have. here is imageJ: http://rsbweb.nih.gov/ij/download.html
and the plugin
http://rsb.info.nih.gov/ij/plugins/color-inspector.html
Hope this is useful to someone