Making output directories for all FEniCS participants consistent (#256)

* Add PEP8 CI.

* Format code-base.

* Better formatting

* Increase line length to 120.

* Some more reformatting.

* Minor reformatting.

* More reformatting.

* Cleanup perpendicular flap.

* Partially update for turek-hron. BROKEN! #186

* Add missing file.

* Remove turek-hron FEniCS solver.

* Update broken run script for paritioned-heat-conduction-complex FEniCS case

* Making output folder structure consistent for all FEniCS participants

Co-authored-by: BenjaminRodenberg <[email protected]>

Author: IshaanDesai

flow-over-heated-plate/solid-fenics/solid.py

@@ -141,14 +141,14 @@ def determine_heat_flux(V_g, u, k, flux):
 u_D.t = t + dt
 
 # mark mesh w.r.t ranks
-ranks = File("Solid/VTK/ranks%s.pvd.pvd" % precice.get_participant_name())
+ranks = File("output/ranks%s.pvd.pvd" % precice.get_participant_name())
 mesh_rank = MeshFunction("size_t", mesh, mesh.topology().dim())
 mesh_rank.set_all(MPI.rank(MPI.comm_world))
 mesh_rank.rename("myRank", "")
 ranks << mesh_rank
 
 # Create output file
-file_out = File("Solid/VTK/%s.pvd" % precice.get_participant_name())
+file_out = File("output/%s.pvd" % precice.get_participant_name())
 file_out << u_n
 
 print("output vtk for time = {}".format(float(t)))

partitioned-heat-conduction-complex/fenics/heat.py

@@ -165,10 +165,10 @@ def determine_gradient(V_g, u, flux):
 mesh_rank.rename("myRank", "")
 
 # Generating output files
-temperature_out = File("out/%s.pvd" % precice.get_participant_name())
-ref_out = File("out/ref%s.pvd" % precice.get_participant_name())
-error_out = File("out/error%s.pvd" % precice.get_participant_name())
-ranks = File("out/ranks%s.pvd" % precice.get_participant_name())
+temperature_out = File("output/%s.pvd" % precice.get_participant_name())
+ref_out = File("output/ref%s.pvd" % precice.get_participant_name())
+error_out = File("output/error%s.pvd" % precice.get_participant_name())
+ranks = File("output/ranks%s.pvd" % precice.get_participant_name())
 
 # output solution and reference solution at t=0, n=0
 n = 0

partitioned-heat-conduction/fenics/heat.py

@@ -148,10 +148,10 @@ def determine_gradient(V_g, u, flux):
 mesh_rank.rename("myRank", "")
 
 # Generating output files
-temperature_out = File("out/%s.pvd" % precice.get_participant_name())
-ref_out = File("out/ref%s.pvd" % precice.get_participant_name())
-error_out = File("out/error%s.pvd" % precice.get_participant_name())
-ranks = File("out/ranks%s.pvd" % precice.get_participant_name())
+temperature_out = File("output/%s.pvd" % precice.get_participant_name())
+ref_out = File("output/ref%s.pvd" % precice.get_participant_name())
+error_out = File("output/error%s.pvd" % precice.get_participant_name())
+ranks = File("output/ranks%s.pvd" % precice.get_participant_name())
 
 # output solution and reference solution at t=0, n=0
 n = 0

perpendicular-flap/solid-fenics/solid.py

@@ -170,7 +170,7 @@ def avg(x_old, x_new, alpha):
 n = 0
 E_ext = 0
 
-displacement_out = File("Solid/FSI-S/u_fsi.pvd")
+displacement_out = File("output/u_fsi.pvd")
 
 u_n.rename("Displacement", "")
 u_np1.rename("Displacement", "")

tools/cleaning-tools.sh

@@ -73,8 +73,8 @@ clean_fenics() {
         set -e -u
         cd "$1"
         echo "--- Cleaning up FEniCS case in $(pwd)"
-        rm -fv ./*.pvd spooles.out FSI-S/*
-        rm -rfv ./out/
+        rm -fv spooles.out output/*
+        rm -rfv ./output/
         rm -rfv ./preCICE-output/
         clean_precice_logs .
     )

volume-coupled-diffusion/fenics/volume-coupled-diffusion.py

@@ -81,8 +81,8 @@ def inside(self, x, on_boundary):
 mesh_rank.rename("myRank", "")
 
 # Generating output files
-solution_out = File("out/%s.pvd" % precice.get_participant_name())
-ranks = File("out/ranks%s.pvd" % precice.get_participant_name())
+solution_out = File("output/%s.pvd" % precice.get_participant_name())
+ranks = File("output/ranks%s.pvd" % precice.get_participant_name())
 
 # output solution and reference solution at t=0, n=0
 n = 0