Mesh validation software?

rknop · March 1, 2016, 09:22

I'm playing around with SU2. I have a mesh I've made myself, using gmsh and then writing code myself to convert it to SU2 format.

When I run it through SU2, the code runs, until the first checkpoint where it writes out. Then, it dies, complaining about a corrupted doubly-linked list; the death is somewhere inside malloc, but the last thing in the stack from from SU2 is COutput::SetResult_Files.

I'm guessing that almost certainly my problem is somewhere in my mesh. Is there software that will validate and point out inconsistencies or problems in a SU2 mesh?

talbring · March 1, 2016, 09:27

Hi Rob,

I did several meshes with gmsh for SU2 up to now. Important thing is that you define a physical volume (with arbitrary name) for the fluid and that you don't tick "Save All" when you export it to the SU2 format. I also got this error you describe at the beginning.

Tim

rknop · March 1, 2016, 13:15

Aha! I didn't even realize that gmsh had a direct SU2 export.... The UI of gmsh is a bit surprising in various places. I wrote my own code to read the gmsh mesh and write out an SU2 mesh.

Looking at its SU2 export vs. what I'd done, I think my problem was related to what you were talking about. gmsh counts its nodes (points) starting at 1, whereas SU2 counts starting at 0. So, to make it all work, I just added a point 0 that I didn't use anywhere. That seemed to be what was choking SU2. By instead just renumbering all the points from the msh to the su2 file, things now seem to be working.

(But probably in the future I should just use the .su2 export functionality of gmsh....)

March 1, 2016, 09:22	Mesh validation software?	#1
rknop New Member Rob Knop Join Date: Mar 2016 Location: Western PA Posts: 5 Rep Power: 10	I'm playing around with SU2. I have a mesh I've made myself, using gmsh and then writing code myself to convert it to SU2 format. When I run it through SU2, the code runs, until the first checkpoint where it writes out. Then, it dies, complaining about a corrupted doubly-linked list; the death is somewhere inside malloc, but the last thing in the stack from from SU2 is COutput::SetResult_Files. I'm guessing that almost certainly my problem is somewhere in my mesh. Is there software that will validate and point out inconsistencies or problems in a SU2 mesh?

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March 1, 2016, 09:27		#2
talbring Super Moderator Tim Albring Join Date: Sep 2015 Posts: 195 Rep Power: 11	Hi Rob, I did several meshes with gmsh for SU2 up to now. Important thing is that you define a physical volume (with arbitrary name) for the fluid and that you don't tick "Save All" when you export it to the SU2 format. I also got this error you describe at the beginning. Tim

March 1, 2016, 13:15		#3
rknop New Member Rob Knop Join Date: Mar 2016 Location: Western PA Posts: 5 Rep Power: 10	Aha! I didn't even realize that gmsh had a direct SU2 export.... The UI of gmsh is a bit surprising in various places. I wrote my own code to read the gmsh mesh and write out an SU2 mesh. Looking at its SU2 export vs. what I'd done, I think my problem was related to what you were talking about. gmsh counts its nodes (points) starting at 1, whereas SU2 counts starting at 0. So, to make it all work, I just added a point 0 that I didn't use anywhere. That seemed to be what was choking SU2. By instead just renumbering all the points from the msh to the su2 file, things now seem to be working. (But probably in the future I should just use the .su2 export functionality of gmsh....)