Add a .gitignore and clean-up

.gitignore

@@ -0,0 +1,109 @@
+# Check which files are ignored with: git status --ignored .
+# or, to also see which pattern matches: git check-ignore -v **/*
+# To deep-clean: git clean -idx .
+
+# In case there are tutorial-specific rules, add a separate .gitignore in the corresponding directory, 
+# but prefer adding general rules here, if possible.
+
+# General log files
+*.log
+out
+
+# Common result files
+*.vtk
+*.vtu
+*.pvd
+
+# preCICE
+precice-profiling/
+precice-run/
+core
+precice-*-events.json
+
+# C++
+*.o
+*.so
+.out
+build/
+
+# Python
+.venv/
+__pycache__/
+*.pyc
+
+# Rust
+Cargo.lock
+target/
+
+# OpenFOAM
+0.*/
+[1-9]*/
+!0/
+functionObjectProperties
+*/phi*
+*/meshPhi*
+processor*/
+history
+**/constant/polyMesh/
+postProcessing/
+*.foam
+*.OpenFOAM
+
+# CalculiX
+spooles.out
+dummy
+*.12d
+*.cvg
+*.dat
+*.frd
+*.sta
+*.eig
+
+# code_aster
+*.mess
+*.resu
+*.rmed
+REPE_OUT/
+
+# SU2
+restart_flow_*.dat
+forces_breakdown.dat
+surface_flow_*.csv
+
+# ASTE
+result.stats.json
+fine_mesh
+coarse_mesh
+mapped
+
+# deal.II
+linear_elasticity
+nonlinear_elasticity
+
+# DUNE
+dune-env/
+
+# DuMuX
+dumux/
+dumux-phasefield/
+dumux-adapter/
+dune-*
+*/build-cmake/
+install*
+
+# FEniCS covered by .vtk
+# Nutils covered by .vtk
+
+# System tests
+runs/
+
+# General editor and OS files
+.vscode
+*.DS_STORE
+.idea
+*.bak
+*~
+.cproject
+.project
+.settings/
+*.swp

aste-turbine/.gitignore

@@ -0,0 +1,2 @@
+meshes.tar.gz
+meshes/

clean-all.sh

@@ -1,6 +1,6 @@
 #!/bin/sh
 set -e -u
 
-echo "- Cleaning up all tutorials..."
+echo "Cleaning up all tutorials..."
 
-find . -maxdepth 2 -mindepth 2 -name clean-tutorial.sh -execdir sh -c './clean-tutorial.sh' \;
+find . -maxdepth 2 -mindepth 2 -name clean-tutorial.sh -execdir sh -c './clean-tutorial.sh' \;

heat-exchanger/.gitignore

@@ -0,0 +1,12 @@
+# This case stores pre-generated meshes outside the repository
+solid-calculix/adiabatic.dfl
+solid-calculix/all.msh
+solid-calculix/inner-interface.flm
+solid-calculix/inner-interface.nam
+solid-calculix/inner-interface.sur
+solid-calculix/outer-interface.flm
+solid-calculix/outer-interface.nam
+solid-calculix/outer-interface.sur
+solid-calculix/solid.inp
+fluid-inner-openfoam/constant/polyMesh
+fluid-outer-openfoam/constant/polyMesh

partitioned-heat-conduction/solver-openfoam/.gitignore

@@ -1,4 +1,4 @@
-Make/
+Make/*
 !Make/files
 !Make/options
 lnInclude/

partitioned-heat-conduction/solver-openfoam/Make/files

@@ -0,0 +1,3 @@
+heatTransfer.C
+
+EXE = $(FOAM_USER_APPBIN)/heatTransfer

partitioned-heat-conduction/solver-openfoam/Make/options

@@ -0,0 +1,8 @@
+EXE_INC = \
+    -I$(LIB_SRC)/finiteVolume/lnInclude \
+    -I$(LIB_SRC)/meshTools/lnInclude
+
+EXE_LIBS = \
+    -lfiniteVolume \
+    -lfvOptions \
+    -lmeshTools

perpendicular-flap/solid-openfoam/solidDisplacementFoamForce/.gitignore

@@ -1,4 +1,4 @@
-Make/
+Make/*
 !Make/files
 !Make/options
 lnInclude/

tools/cleaning-tools.sh

@@ -9,7 +9,7 @@ clean_tutorial() {
     (
         set -e -u
         cd "$1"
-        echo "-- Cleaning up all cases in $(pwd)..."
+        echo "# Cleaning up all cases in $(pwd)..."
         rm -rfv ./precice-run/
 
         # Run clean.sh if it exists in the base tutorial directory
@@ -18,9 +18,12 @@ clean_tutorial() {
         fi
 
         for case in */; do
-            if [ "${case}" = images/ ]; then
+            if [ "${case}" = images/ ] || [ "${case}" = reference-results/ ]; then
                 continue
             fi
+            case "${case}" in solver*)
+                continue
+            esac
             (cd "${case}" && ./clean.sh || echo "No cleaning script in ${case} - skipping")
         done
     )
@@ -30,7 +33,7 @@ clean_precice_logs() {
     (
         set -e -u
         cd "$1"
-        echo "---- Cleaning up preCICE logs in $(pwd)"
+        echo "- Cleaning up preCICE logs in $(pwd)"
         rm -fv ./precice-*-iterations.log \
             ./precice-*-convergence.log \
             ./precice-*-watchpoint-*.log \
@@ -45,10 +48,11 @@ clean_calculix() {
     (
         set -e -u
         cd "$1"
-        echo "--- Cleaning up CalculiX case in $(pwd)"
+        echo "- Cleaning up CalculiX case in $(pwd)"
         rm -fv ./*.cvg ./*.dat ./*.frd ./*.sta ./*.12d spooles.out dummy
         rm -fv WarnNodeMissMultiStage.nam
         rm -fv ./*.eig
+        rm -fv ./*.vtk
         clean_precice_logs .
     )
 }
@@ -57,7 +61,7 @@ clean_codeaster() {
     (
         set -e -u
         cd "$1"
-        echo "--- Cleaning up code_aster case in $(pwd)"
+        echo "- Cleaning up code_aster case in $(pwd)"
         rm -fv ./*.mess ./*.resu ./*.rmed
         rm -rfv ./REPE_OUT/*
         clean_precice_logs .
@@ -68,7 +72,7 @@ clean_dealii() {
     (
         set -e -u
         cd "$1"
-        echo "--- Cleaning up deal.II case in $(pwd)"
+        echo "- Cleaning up deal.II case in $(pwd)"
         rm -rfv ./dealii-output/
         clean_precice_logs .
     )
@@ -78,7 +82,7 @@ clean_fenics() {
     (
         set -e -u
         cd "$1"
-        echo "--- Cleaning up FEniCS case in $(pwd)"
+        echo "- Cleaning up FEniCS case in $(pwd)"
         rm -rfv ./output/
         clean_precice_logs .
     )
@@ -88,7 +92,7 @@ clean_nutils() {
     (
         set -e -u
         cd "$1"
-        echo "--- Cleaning up Nutils case in $(pwd)"
+        echo "- Cleaning up Nutils case in $(pwd)"
         rm -fv ./*.vtk
         clean_precice_logs .
     )
@@ -98,11 +102,11 @@ clean_openfoam() {
     (
         set -e -u
         cd "$1"
-        echo "--- Cleaning up OpenFOAM case in $(pwd)"
+        echo "- Cleaning up OpenFOAM case in $(pwd)"
         if [ -n "${WM_PROJECT:-}" ] || error "No OpenFOAM environment is active."; then
             # shellcheck disable=SC1090 # This is an OpenFOAM file which we don't need to check
             . "${WM_PROJECT_DIR}/bin/tools/CleanFunctions"
-            cleanCase
+            cleanCase > /dev/null
             rm -rfv 0/uniform/functionObjects/functionObjectProperties history
         fi
         clean_precice_logs .
@@ -113,7 +117,7 @@ clean_su2() {
     (
         set -e -u
         cd "$1"
-        echo "--- Cleaning up SU2 case in $(pwd)"
+        echo "- Cleaning up SU2 case in $(pwd)"
         rm -fv ./restart_flow_*.dat forces_breakdown.dat ./surface_flow_*.csv ./flow_*.vtk ./history_*.vtk
         clean_precice_logs .
     )
@@ -123,7 +127,7 @@ clean_aste() {
     (
         set -e -u
         cd "$1"
-        echo "--- Cleaning up ASTE results in $(pwd)"
+        echo "- Cleaning up ASTE results in $(pwd)"
         rm -fv result.vtk result.stats.json
         rm -fvr fine_mesh coarse_mesh mapped
     )
@@ -133,7 +137,7 @@ clean_dune() {
     (
         set -e -u
         cd "$1"
-        echo "--- Cleaning up DUNE case in $(pwd)"
+        echo "- Cleaning up DUNE case in $(pwd)"
         rm -fv ./dgfparser.log
         rm -fv ./*.pvd
         rm -fv ./*.vtu
@@ -146,7 +150,7 @@ clean_dumux() {
    (
         set -e -u
 	cd "$1"
-	echo "--- Cleaning up DuMuX case in $(pwd)"
+	echo "- Cleaning up DuMuX case in $(pwd)"
 	rm -fv ./*.vtu
 	rm -fv ./*.pvd
 	clean_precice_logs .