Move filter base type under src/ and complete the documentation of filters

src/.depends

@@ -302,16 +302,16 @@ source_terms/boussinesq_source_term.lo : source_terms/boussinesq_source_term.f90
 source_terms/bcknd/cpu/boussinesq_source_term_cpu.lo : source_terms/bcknd/cpu/boussinesq_source_term_cpu.f90 math/math.lo field/field.lo field/field_list.lo config/num_types.lo 
 source_terms/bcknd/device/boussinesq_source_term_device.lo : source_terms/bcknd/device/boussinesq_source_term_device.f90 math/bcknd/device/device_math.lo field/field.lo field/field_list.lo config/num_types.lo 
 source_terms/source_term_fctry.lo : source_terms/source_term_fctry.f90 common/utils.lo common/json_utils.lo source_terms/coriolis_source_term.lo source_terms/brinkman_source_term.lo source_terms/boussinesq_source_term.lo source_terms/const_source_term.lo source_terms/source_term.lo 
-source_terms/brinkman_source_term.lo : source_terms/brinkman_source_term.f90 io/fld_file_output.lo source_terms/brinkman/PDE_filter.lo source_terms/brinkman/filter.lo common/utils.lo source_terms/source_term.lo math/signed_distance.lo common/profiler.lo mesh/point_zone_registry.lo mesh/point_zone.lo config/num_types.lo config/neko_config.lo mesh/tri_mesh.lo math/math.lo common/log.lo common/json_utils.lo io/file.lo source_terms/brinkman/filters.lo field/field_registry.lo math/field_math.lo field/field_list.lo field/field.lo math/bcknd/device/device_math.lo device/device.lo sem/coef.lo mesh/search_tree/aabb.lo 
-source_terms/brinkman/filters.lo : source_terms/brinkman/filters.f90 source_terms/bcknd/device/filters_device.lo source_terms/bcknd/cpu/filters_cpu.lo common/utils.lo config/num_types.lo config/neko_config.lo field/field.lo 
-source_terms/brinkman/filter.lo : source_terms/brinkman/filter.f90 field/field.lo common/json_utils.lo sem/coef.lo config/num_types.lo 
-source_terms/brinkman/PDE_filter.lo : source_terms/brinkman/PDE_filter.f90 math/bcknd/device/device_math.lo common/utils.lo krylov/pc_hsmg.lo krylov/bcknd/sx/pc_jacobi_sx.lo krylov/bcknd/device/pc_jacobi_device.lo krylov/bcknd/cpu/pc_jacobi.lo sem/dofmap.lo config/neko_config.lo common/log.lo math/field_math.lo field/scratch_registry.lo source_terms/brinkman/filter.lo mesh/mesh.lo fluid/pnpn_res.lo gs/gather_scatter.lo common/profiler.lo bc/neumann.lo bc/bc_list.lo krylov/precon.lo krylov/krylov.lo math/ax.lo sem/coef.lo field/field.lo field/field_registry.lo common/json_utils.lo config/num_types.lo 
-source_terms/brinkman/elementwise_filter.lo : source_terms/brinkman/elementwise_filter.f90 math/bcknd/device/device_math.lo device/device.lo math/tensor.lo math/mxm_wrapper.lo math/matrix.lo sem/speclib.lo common/json_utils.lo config/neko_config.lo common/utils.lo sem/coef.lo field/field.lo math/math.lo source_terms/brinkman/filter.lo config/num_types.lo 
-source_terms/bcknd/cpu/filters_cpu.lo : source_terms/bcknd/cpu/filters_cpu.f90 config/num_types.lo 
-source_terms/bcknd/device/filters_device.lo : source_terms/bcknd/device/filters_device.F90 source_terms/bcknd/device/opencl/opencl_filters.lo source_terms/bcknd/device/hip/hip_filters.lo source_terms/bcknd/device/cuda/cuda_filters.lo common/utils.lo math/bcknd/device/device_math.lo config/num_types.lo 
-source_terms/bcknd/device/cuda/cuda_filters.lo : source_terms/bcknd/device/cuda/cuda_filters.f90 config/num_types.lo 
-source_terms/bcknd/device/hip/hip_filters.lo : source_terms/bcknd/device/hip/hip_filters.f90 config/num_types.lo 
-source_terms/bcknd/device/opencl/opencl_filters.lo : source_terms/bcknd/device/opencl/opencl_filters.f90 config/num_types.lo 
+source_terms/brinkman_source_term.lo : source_terms/brinkman_source_term.f90 io/fld_file_output.lo filter/PDE_filter.lo filter/filter.lo common/utils.lo source_terms/source_term.lo math/signed_distance.lo common/profiler.lo mesh/point_zone_registry.lo mesh/point_zone.lo config/num_types.lo config/neko_config.lo mesh/tri_mesh.lo math/math.lo common/log.lo common/json_utils.lo io/file.lo filter/filters.lo field/field_registry.lo math/field_math.lo field/field_list.lo field/field.lo math/bcknd/device/device_math.lo device/device.lo sem/coef.lo mesh/search_tree/aabb.lo 
+filter/filters.lo : filter/filters.f90 filter/bcknd/device/filters_device.lo filter/bcknd/cpu/filters_cpu.lo common/utils.lo config/num_types.lo config/neko_config.lo field/field.lo 
+filter/filter.lo : filter/filter.f90 field/field.lo common/json_utils.lo sem/coef.lo config/num_types.lo 
+filter/PDE_filter.lo : filter/PDE_filter.f90 math/bcknd/device/device_math.lo common/utils.lo krylov/pc_hsmg.lo krylov/bcknd/sx/pc_jacobi_sx.lo krylov/bcknd/device/pc_jacobi_device.lo krylov/bcknd/cpu/pc_jacobi.lo sem/dofmap.lo config/neko_config.lo common/log.lo math/field_math.lo field/scratch_registry.lo filter/filter.lo mesh/mesh.lo fluid/pnpn_res.lo gs/gather_scatter.lo common/profiler.lo bc/neumann.lo bc/bc_list.lo krylov/precon.lo krylov/krylov.lo math/ax.lo sem/coef.lo field/field.lo field/field_registry.lo common/json_utils.lo config/num_types.lo 
+filter/elementwise_filter.lo : filter/elementwise_filter.f90 math/bcknd/device/device_math.lo device/device.lo math/tensor.lo math/mxm_wrapper.lo math/matrix.lo sem/speclib.lo common/json_utils.lo config/neko_config.lo common/utils.lo sem/coef.lo field/field.lo math/math.lo filter/filter.lo config/num_types.lo 
+filter/bcknd/cpu/filters_cpu.lo : filter/bcknd/cpu/filters_cpu.f90 config/num_types.lo 
+filter/bcknd/device/filters_device.lo : filter/bcknd/device/filters_device.F90 filter/bcknd/device/opencl/opencl_filters.lo filter/bcknd/device/hip/hip_filters.lo filter/bcknd/device/cuda/cuda_filters.lo common/utils.lo math/bcknd/device/device_math.lo config/num_types.lo 
+filter/bcknd/device/cuda/cuda_filters.lo : filter/bcknd/device/cuda/cuda_filters.f90 config/num_types.lo 
+filter/bcknd/device/hip/hip_filters.lo : filter/bcknd/device/hip/hip_filters.f90 config/num_types.lo 
+filter/bcknd/device/opencl/opencl_filters.lo : filter/bcknd/device/opencl/opencl_filters.f90 config/num_types.lo 
 les/les_model.lo : les/les_model.f90 math/bcknd/device/device_math.lo math/math.lo device/device.lo config/neko_config.lo gs/gs_ops.lo sem/coef.lo sem/dofmap.lo field/field_registry.lo field/field.lo config/num_types.lo 
 les/les_model_fctry.lo : les/les_model_fctry.f90 common/utils.lo les/sigma.lo les/dynamic_smagorinsky.lo les/smagorinsky.lo les/vreman.lo les/les_model.lo 
 les/vreman.lo : les/vreman.f90 common/log.lo sem/coef.lo les/bcknd/device/vreman_device.lo les/bcknd/cpu/vreman_cpu.lo config/neko_config.lo common/json_utils.lo sem/dofmap.lo les/les_model.lo config/num_types.lo 
@@ -322,9 +322,9 @@ les/smagorinsky.lo : les/smagorinsky.f90 common/log.lo sem/coef.lo les/bcknd/dev
 les/bcknd/cpu/smagorinsky_cpu.lo : les/bcknd/cpu/smagorinsky_cpu.f90 math/math.lo gs/gs_ops.lo sem/coef.lo math/operators.lo field/field.lo field/field_registry.lo field/scratch_registry.lo field/field_list.lo config/num_types.lo 
 les/bcknd/device/smagorinsky_device.lo : les/bcknd/device/smagorinsky_device.f90 les/bcknd/device/device_smagorinsky_nut.lo math/bcknd/device/device_math.lo gs/gs_ops.lo sem/coef.lo math/operators.lo field/field.lo field/field_registry.lo field/scratch_registry.lo field/field_list.lo config/num_types.lo 
 les/bcknd/device/device_smagorinsky_nut.lo : les/bcknd/device/device_smagorinsky_nut.F90 comm/comm.lo common/utils.lo config/num_types.lo 
-les/dynamic_smagorinsky.lo : les/dynamic_smagorinsky.f90 les/bcknd/device/dynamic_smagorinsky_device.lo common/log.lo les/bcknd/cpu/dynamic_smagorinsky_cpu.lo source_terms/brinkman/elementwise_filter.lo sem/coef.lo config/neko_config.lo common/utils.lo common/json_utils.lo sem/dofmap.lo les/les_model.lo field/field.lo field/field_list.lo math/math.lo config/num_types.lo 
-les/bcknd/cpu/dynamic_smagorinsky_cpu.lo : les/bcknd/cpu/dynamic_smagorinsky_cpu.f90 gs/gs_ops.lo source_terms/brinkman/elementwise_filter.lo sem/coef.lo math/operators.lo field/field.lo field/field_registry.lo field/scratch_registry.lo math/math.lo field/field_list.lo config/num_types.lo 
-les/bcknd/device/dynamic_smagorinsky_device.lo : les/bcknd/device/dynamic_smagorinsky_device.f90 les/bcknd/device/device_dynamic_smagorinsky_nut.lo math/bcknd/device/device_math.lo gs/gs_ops.lo source_terms/brinkman/elementwise_filter.lo sem/coef.lo math/operators.lo field/field.lo field/field_registry.lo field/scratch_registry.lo field/field_list.lo config/num_types.lo 
+les/dynamic_smagorinsky.lo : les/dynamic_smagorinsky.f90 les/bcknd/device/dynamic_smagorinsky_device.lo common/log.lo les/bcknd/cpu/dynamic_smagorinsky_cpu.lo filter/elementwise_filter.lo sem/coef.lo config/neko_config.lo common/utils.lo common/json_utils.lo sem/dofmap.lo les/les_model.lo field/field.lo field/field_list.lo math/math.lo config/num_types.lo 
+les/bcknd/cpu/dynamic_smagorinsky_cpu.lo : les/bcknd/cpu/dynamic_smagorinsky_cpu.f90 gs/gs_ops.lo filter/elementwise_filter.lo sem/coef.lo math/operators.lo field/field.lo field/field_registry.lo field/scratch_registry.lo math/math.lo field/field_list.lo config/num_types.lo 
+les/bcknd/device/dynamic_smagorinsky_device.lo : les/bcknd/device/dynamic_smagorinsky_device.f90 les/bcknd/device/device_dynamic_smagorinsky_nut.lo math/bcknd/device/device_math.lo gs/gs_ops.lo filter/elementwise_filter.lo sem/coef.lo math/operators.lo field/field.lo field/field_registry.lo field/scratch_registry.lo field/field_list.lo config/num_types.lo 
 les/bcknd/device/device_dynamic_smagorinsky_nut.lo : les/bcknd/device/device_dynamic_smagorinsky_nut.F90 comm/comm.lo common/utils.lo config/num_types.lo 
 les/sigma.lo : les/sigma.f90 common/log.lo sem/coef.lo les/bcknd/device/sigma_device.lo les/bcknd/cpu/sigma_cpu.lo config/neko_config.lo common/utils.lo common/json_utils.lo sem/dofmap.lo les/les_model.lo field/field.lo config/num_types.lo 
 les/bcknd/cpu/sigma_cpu.lo : les/bcknd/cpu/sigma_cpu.f90 math/math.lo gs/gs_ops.lo sem/coef.lo math/operators.lo field/field.lo field/field_registry.lo field/scratch_registry.lo field/field_list.lo config/num_types.lo 

src/Makefile.am

@@ -307,15 +307,15 @@ neko_fortran_SOURCES = \
 	source_terms/bcknd/device/boussinesq_source_term_device.f90\
 	source_terms/source_term_fctry.f90\
 	source_terms/brinkman_source_term.f90\
-	source_terms/brinkman/filters.f90\
-	source_terms/brinkman/filter.f90\
-	source_terms/brinkman/PDE_filter.f90\
-	source_terms/brinkman/elementwise_filter.f90\
-	source_terms/bcknd/cpu/filters_cpu.f90\
-	source_terms/bcknd/device/filters_device.F90\
-	source_terms/bcknd/device/cuda/cuda_filters.f90\
-	source_terms/bcknd/device/hip/hip_filters.f90\
-	source_terms/bcknd/device/opencl/opencl_filters.f90\
+	filter/filters.f90\
+	filter/filter.f90\
+	filter/PDE_filter.f90\
+	filter/elementwise_filter.f90\
+	filter/bcknd/cpu/filters_cpu.f90\
+	filter/bcknd/device/filters_device.F90\
+	filter/bcknd/device/cuda/cuda_filters.f90\
+	filter/bcknd/device/hip/hip_filters.f90\
+	filter/bcknd/device/opencl/opencl_filters.f90\
 	les/les_model.f90\
 	les/les_model_fctry.f90\
 	les/vreman.f90\
@@ -391,7 +391,7 @@ libneko_la_SOURCES += \
 	fluid/stress_formulation/bcknd/device/hip/pnpn_stress_res.hip\
 	scalar/bcknd/device/hip/scalar_residual.hip\
 	sem/bcknd/device/hip/coef.hip\
-	source_terms/bcknd/device/hip/filters.hip\
+	filter/bcknd/device/hip/filters.hip\
 	les/bcknd/device/hip/sigma_nut.hip\
 	les/bcknd/device/hip/vreman_nut.hip\
 	les/bcknd/device/hip/smagorinsky_nut.hip\
@@ -434,7 +434,7 @@ libneko_la_SOURCES += \
 	fluid/stress_formulation/bcknd/device/cuda/pnpn_stress_res.cu\
 	scalar/bcknd/device/cuda/scalar_residual.cu\
 	sem/bcknd/device/cuda/coef.cu\
-	source_terms/bcknd/device/cuda/filters.cu\
+	filter/bcknd/device/cuda/filters.cu\
 	les/bcknd/device/cuda/sigma_nut.cu\
 	les/bcknd/device/cuda/vreman_nut.cu\
 	les/bcknd/device/cuda/smagorinsky_nut.cu\
@@ -473,7 +473,7 @@ libneko_la_SOURCES += \
 	fluid/bcknd/device/opencl/pnpn_res.c\
 	scalar/bcknd/device/opencl/scalar_residual.c\
 	sem/bcknd/device/opencl/coef.c\
-	source_terms/bcknd/device/opencl/filters.c
+	filter/bcknd/device/opencl/filters.c
 
 %.cl.h: %.cl
 	bash ./scripts/cltostring.sh $<
@@ -664,9 +664,9 @@ EXTRA_DIST = \
 	sem/bcknd/device/opencl/coef_kernel.cl\
 	math/bcknd/device/device_mpi_reduce.h\
 	math/bcknd/device/device_mpi_op.h\
-	source_terms/bcknd/device/cuda/filter_kernels.h\
-	source_terms/bcknd/device/hip/filter_kernels.h\
-	source_terms/bcknd/device/opencl/filter_kernels.cl\
+	filter/bcknd/device/cuda/filter_kernels.h\
+	filter/bcknd/device/hip/filter_kernels.h\
+	filter/bcknd/device/opencl/filter_kernels.cl\
 	device/opencl/jit.h\
 	device/opencl/prgm_lib.h\
 	device/opencl/check.h\