FSI 3D Upgrade - Revision history

NikLebedenko: /* Install mesh conversion software */ added link to fix

2022-02-05T10:20:37Z

Install mesh conversion software: added link to fix

← Older revision		Revision as of 10:20, 5 February 2022
Line 30:		Line 30:

	== Install mesh conversion software ==		== Install mesh conversion software ==
	''Update 05/02/2022 - Although initially .xml files were used for the final mesh output due to mpi version compatibility issues within the h5 file format library preventing the use of .xdmf, this issue is (seemingly) now resolved. (todo update this page & github)''		''Update 05/02/2022 - Although initially .xml files were used for the final mesh output due to mpi version compatibility issues within the h5 file format library preventing the use of .xdmf, this issue is (seemingly) now resolved. (todo update this page & github) [https://jorgensd.github.io/dolfinx-tutorial/chapter3/subdomains.html#subdomains-defined-from-external-mesh-data link]''

	FEniCS sadly does not natively support the import of ANSYS or OpenFOAM meshes, so a workaround must be used to generate its <code>.xml</code> mesh files.		FEniCS sadly does not natively support the import of ANSYS or OpenFOAM meshes, so a workaround must be used to generate its <code>.xml</code> mesh files.

NikLebedenko: /* Install mesh conversion software */ added update

2022-02-05T10:15:43Z

Install mesh conversion software: added update

← Older revision		Revision as of 10:15, 5 February 2022
Line 30:		Line 30:

	== Install mesh conversion software ==		== Install mesh conversion software ==
			''Update 05/02/2022 - Although initially .xml files were used for the final mesh output due to mpi version compatibility issues within the h5 file format library preventing the use of .xdmf, this issue is (seemingly) now resolved. (todo update this page & github)''

	FEniCS sadly does not natively support the import of ANSYS or OpenFOAM meshes, so a workaround must be used to generate its <code>.xml</code> mesh files.		FEniCS sadly does not natively support the import of ANSYS or OpenFOAM meshes, so a workaround must be used to generate its <code>.xml</code> mesh files.

NikLebedenko: /* Convert between OpenFOAM mesh and FEniCS mesh */ typo

2022-01-24T19:01:57Z

Convert between OpenFOAM mesh and FEniCS mesh: typo

← Older revision		Revision as of 19:01, 24 January 2022
Line 45:		Line 45:
	=== Convert between OpenFOAM mesh and FEniCS mesh ===		=== Convert between OpenFOAM mesh and FEniCS mesh ===

	# Open an Ubuntu terminal, navigate to the <code>foamToFenics</code> OpenFOAM case~~, and copy the <code>.msh</code> file there~~.		# Open an Ubuntu terminal and navigate to the <code>foamToFenics</code> OpenFOAM case.
	#Copy the <code>polyMesh</code> directory into <code>foamToFenics/constant</code>		#Copy the <code>polyMesh</code> directory from your OpenFOAM case with your mesh into <code>foamToFenics/constant</code>
	# Run <code>./exportFenics</code>		# Run <code>./exportFenics</code>

NikLebedenko: Added links to download

2022-01-24T18:59:54Z

Added links to download

← Older revision		Revision as of 18:59, 24 January 2022
Line 1:		Line 1:
	''This page ~~is incomplete''~~		This page follows on from the standard [[FSI installation instructions]]. Follow those instructions first before continuing with this page.

	~~TODO:~~		If you experience any issues, please let Nik Lebedenko know.

	* Upload the files
	*Add all the links

	~~This page follows on from the standard [[FSI installation instructions]]. Follow those instructions first before continuing with this page~~.

	== Modify the adapter for 3D FSI ==		== Modify the adapter for 3D FSI ==
	Download all the files ~~for the 3D version~~ from this ~~Drive folder~~ [~~todo add link~~]		Download all the files from this [https://github.com/cuspaceflight/fsi-3D-upgrade GitHub repository] using <code>git clone <nowiki>https://github.com/cuspaceflight/fsi-3D-upgrade</nowiki></code>

	Locate this installation location of ~~the~~ FEniCS-preCICE adapter using <code>python3 -m pip show fenicsprecice</code>		Locate this installation location of your FEniCS-preCICE adapter using <code>python3 -m pip show fenicsprecice</code>

	Navigate to this location, in my case: <code>cd /home/nik/.local/lib/python3.8/site-packages/fenicsprecice</code>		Navigate to this location, in my case: <code>cd /home/nik/.local/lib/python3.8/site-packages/fenicsprecice</code>

	Replace each file in your installation location with the 3D ~~version you downloaded earlier.~~		Replace each file in your installation location with the version found in <code>fsi-3D-upgrade/fenicsprecice-3D</code>

	== Verify everything is working correctly ==		== Verify everything is working correctly ==
	~~Download this modified~~ tutorial case [~~todo add link~~]		Navigate to the <code>perpendicular-flap-3D</code> tutorial case downloaded from the [https://github.com/cuspaceflight/fsi-3D-upgrade GitHub repository] earlier.

	Navigate to the <code>solid-fenics</code> folder and do <code>./run.sh</code> - there should be no errors, and the output should pause after a short setup period.		Navigate to the <code>solid-fenics</code> folder and do <code>./run.sh</code> - there should be no errors, and the output should pause after a short setup period.
Line 39:		Line 34:
	Install <code>meshio</code> with all optional dependencies using <code>python3 -m pip install meshio[all]</code>		Install <code>meshio</code> with all optional dependencies using <code>python3 -m pip install meshio[all]</code>

	Download the <code>foamToFenics</code> OpenFOAM case [~~todo add link~~].		Download the <code>foamToFenics</code> OpenFOAM case from the [https://github.com/cuspaceflight/fsi-3D-upgrade GitHub repository] (should already be present).

	=== Convert between ANSYS mesh and FEniCS mesh ===		=== Convert between ANSYS mesh and FEniCS mesh ===
Line 50:		Line 45:
	=== Convert between OpenFOAM mesh and FEniCS mesh ===		=== Convert between OpenFOAM mesh and FEniCS mesh ===

	# Copy the <code>polyMesh</code> directory into <code>foamToFenics/constant</code>		# Open an Ubuntu terminal, navigate to the <code>foamToFenics</code> OpenFOAM case, and copy the <code>.msh</code> file there.
			#Copy the <code>polyMesh</code> directory into <code>foamToFenics/constant</code>
	# Run <code>./exportFenics</code>		# Run <code>./exportFenics</code>

NikLebedenko: /* Modify the adapter for 3D FSI */ typo

2022-01-24T08:51:20Z

Modify the adapter for 3D FSI: typo

← Older revision		Revision as of 08:51, 24 January 2022
Line 11:		Line 11:
	Download all the files for the 3D version from this Drive folder [todo add link]		Download all the files for the 3D version from this Drive folder [todo add link]

	Locate this installation location of the FEniCS-preCICE using <code>python3 -m pip show fenicsprecice</code>		Locate this installation location of the FEniCS-preCICE adapter using <code>python3 -m pip show fenicsprecice</code>

	Navigate to this location, in my case: <code>cd /home/nik/.local/lib/python3.8/site-packages/fenicsprecice</code>		Navigate to this location, in my case: <code>cd /home/nik/.local/lib/python3.8/site-packages/fenicsprecice</code>

NikLebedenko: /* Verify everything is working correctly */ further verification instructions

2022-01-24T07:00:49Z

Verify everything is working correctly: further verification instructions

← Older revision		Revision as of 07:00, 24 January 2022
Line 26:		Line 26:
	Both terminals should now have command outputs flying, similar to the original 2D tutorial case you ran when installing the 2D FSI software.		Both terminals should now have command outputs flying, similar to the original 2D tutorial case you ran when installing the 2D FSI software.

	After ~~a while~~, both terminals should stop. View the results in ParaView, and verify it looks similar to the original 2D tutorial case.		After 2-3 mins, both terminals should stop. View the results in ParaView, and verify it looks similar to the original 2D tutorial case.

			View the fluid domain by navigating to <code>fluid-openfoam</code> and running <code>paraview.exe fluid-openfoam.foam</code>

			View the solid's displacement by navigating to <code>solid-fenics</code> and running <code>paraview.exe Solid/FSI-S/u_fsi.pvd</code>

			* By default, the solid will appear stationary. To visualise its movement, add a "Warp By Vector" filter with the Displacement vector and scale factor 1.

	== Install mesh conversion software ==		== Install mesh conversion software ==

NikLebedenko: formatting, updated TODO list

2022-01-24T06:34:49Z

formatting, updated TODO list

NikLebedenko: /* Install mesh conversion software */ Added further instructions

2022-01-24T06:32:02Z

Install mesh conversion software: Added further instructions

← Older revision		Revision as of 06:32, 24 January 2022
Line 30:		Line 30:

	=== Install mesh conversion software ===		=== Install mesh conversion software ===
	FEniCS sadly does not natively support the import of ANSYS or OpenFOAM meshes, so a workaround must be used.		FEniCS sadly does not natively support the import of ANSYS or OpenFOAM meshes, so a workaround must be used to generate its <code>.xml</code> mesh files.

	python3 -m pip install meshio		Install <code>meshio</code> with all optional dependencies using <code>python3 -m pip install meshio[all]</code>

			Download the <code>foamToFenics</code> OpenFOAM case [todo add link].

			==== Convert between ANSYS mesh and FEniCS mesh ====

			# Export the ANSYS mesh as <code>.msh</code>
			# Open an Ubuntu terminal, navigate to the <code>foamToFenics</code> OpenFOAM case, and copy the <code>.msh</code> file there.
			# Import the mesh with <code>fluentMeshToFoam <your msh file></code>, replacing <code><your msh file></code> with the full filename and extension of your <code>.msh</code> file.
			# Run <code>./exportFenics</code>

			==== Convert between OpenFOAM mesh and FEniCS mesh ====

			# Copy the <code>polyMesh</code> directory into <code>foamToFenics/constant</code>
			# Run <code>./exportFenics</code>

NikLebedenko: Created the page

2022-01-23T23:00:32Z

Created the page

New page

''This page is incomplete''

TODO:

* Installing the modified files
* Verify it works
* Mesh conversion process

This page follows on from the standard [[FSI installation instructions]]. Follow those instructions first before continuing with this page.

=== Modify the adapter for 3D FSI ===
Download all the files for the 3D version from this Drive folder [todo add link]

Locate this installation location of the FEniCS-preCICE using <code>python3 -m pip show fenicsprecice</code>

Navigate to this location, in my case: <code>cd /home/nik/.local/lib/python3.8/site-packages/fenicsprecice</code>

Replace each file in your installation location with the 3D version you downloaded earlier.

=== Verify everything is working correctly ===
Download this modified tutorial case [todo add link]

Navigate to the <code>solid-fenics</code> folder and do <code>./run.sh</code> - there should be no errors, and the output should pause after a short setup period.

Now open another Ubuntu terminal, and navigate to the <code>fluid-openfoam</code> folder and do <code>./run.sh</code>

Both terminals should now have command outputs flying, similar to the original 2D tutorial case you ran when installing the 2D FSI software.

After a while, both terminals should stop. View the results in ParaView, and verify it looks similar to the original 2D tutorial case.

=== Install mesh conversion software ===
FEniCS sadly does not natively support the import of ANSYS or OpenFOAM meshes, so a workaround must be used.

python3 -m pip install meshio

← Older revision		Revision as of 06:34, 24 January 2022
Line 3:		Line 3:
	TODO:		TODO:

	* ~~Installing~~ the ~~modified~~ files		* Upload the files
	* ~~Verify it works~~		*Add all the links
	* Mesh conversion process

	This page follows on from the standard [[FSI installation instructions]]. Follow those instructions first before continuing with this page.		This page follows on from the standard [[FSI installation instructions]]. Follow those instructions first before continuing with this page.

	=== Modify the adapter for 3D FSI ===		== Modify the adapter for 3D FSI ==
	Download all the files for the 3D version from this Drive folder [todo add link]		Download all the files for the 3D version from this Drive folder [todo add link]

Line 18:		Line 17:
	Replace each file in your installation location with the 3D version you downloaded earlier.		Replace each file in your installation location with the 3D version you downloaded earlier.

	=== Verify everything is working correctly ===		== Verify everything is working correctly ==
	Download this modified tutorial case [todo add link]		Download this modified tutorial case [todo add link]

Line 29:		Line 28:
	After a while, both terminals should stop. View the results in ParaView, and verify it looks similar to the original 2D tutorial case.		After a while, both terminals should stop. View the results in ParaView, and verify it looks similar to the original 2D tutorial case.

	=== Install mesh conversion software ===		== Install mesh conversion software ==
	FEniCS sadly does not natively support the import of ANSYS or OpenFOAM meshes, so a workaround must be used to generate its <code>.xml</code> mesh files.		FEniCS sadly does not natively support the import of ANSYS or OpenFOAM meshes, so a workaround must be used to generate its <code>.xml</code> mesh files.

Line 36:		Line 35:
	Download the <code>foamToFenics</code> OpenFOAM case [todo add link].		Download the <code>foamToFenics</code> OpenFOAM case [todo add link].

	==== Convert between ANSYS mesh and FEniCS mesh ====		=== Convert between ANSYS mesh and FEniCS mesh ===

	# Export the ANSYS mesh as <code>.msh</code>		# Export the ANSYS mesh as <code>.msh</code>
Line 43:		Line 42:
	# Run <code>./exportFenics</code>		# Run <code>./exportFenics</code>

	==== Convert between OpenFOAM mesh and FEniCS mesh ====		=== Convert between OpenFOAM mesh and FEniCS mesh ===

	# Copy the <code>polyMesh</code> directory into <code>foamToFenics/constant</code>		# Copy the <code>polyMesh</code> directory into <code>foamToFenics/constant</code>
	# Run <code>./exportFenics</code>		# Run <code>./exportFenics</code>