├── .github ├── dependabot.yml └── workflows │ ├── build_workflow.yml │ ├── docs_workflow.yml │ └── pre_commit_update_workflow.yml ├── .gitignore ├── .pre-commit-config.yaml ├── CITATION.cff ├── LICENSE ├── README.md ├── atmosphere └── README ├── conda_package ├── .gitignore ├── MANIFEST.in ├── ci │ ├── linux_64_python3.10.____cpython.yaml │ ├── linux_64_python3.11.____cpython.yaml │ ├── linux_64_python3.12.____cpython.yaml │ ├── linux_64_python3.13.____cpython.yaml │ ├── linux_64_python3.14.____cpython.yaml │ ├── osx_64_python3.10.____cpython.yaml │ ├── osx_64_python3.11.____cpython.yaml │ ├── osx_64_python3.12.____cpython.yaml │ ├── osx_64_python3.13.____cpython.yaml │ └── osx_64_python3.14.____cpython.yaml ├── dev-spec.txt ├── docs │ ├── .gitignore │ ├── Makefile │ ├── _static │ │ └── style.css │ ├── _templates │ │ └── layout.html │ ├── api.rst │ ├── authors.rst │ ├── building_docs.rst │ ├── cime.rst │ ├── conf.py │ ├── config.rst │ ├── generate_versions_json.py │ ├── images │ │ ├── ais_map.png │ │ ├── ais_map_with_grounding_lines.png │ │ ├── ais_thickness_change_map.png │ │ ├── clipped.png │ │ ├── ec60to30_tris_flat.png │ │ ├── ec60to30_tris_gouraud.png │ │ ├── qu240_topo.png │ │ ├── qu240_topo_lonlat.png │ │ ├── ragged.png │ │ ├── so60to10.png │ │ ├── so60to12_res.png │ │ ├── so_cropped.png │ │ ├── south_atlantic_temperature_transect.png │ │ ├── thwaites_temperature_transects.png │ │ └── thwaites_transect.png │ ├── index.rst │ ├── interpolation.rst │ ├── io.rst │ ├── landice │ │ └── visualization.rst │ ├── logging.rst │ ├── making_changes.rst │ ├── mesh_conversion.rst │ ├── mesh_creation.rst │ ├── mpas_to_xdmf.rst │ ├── ocean │ │ ├── coastal_tools.rst │ │ ├── coastline_alteration.rst │ │ ├── depth.rst │ │ ├── mesh_creation.rst │ │ ├── moc.rst │ │ ├── streamfunction.rst │ │ └── visualization.rst │ ├── paraview_extractor.rst │ ├── quick_start.rst │ ├── releasing.rst │ ├── seaice │ │ ├── mask.rst │ │ ├── mesh.rst │ │ ├── partition.rst │ │ ├── regions.rst │ │ └── regrid.rst │ ├── shared │ │ └── version-switcher.js │ ├── testing_changes.rst │ ├── transects.rst │ ├── vector.rst │ └── visualization.rst ├── mpas_tools │ ├── __init__.py │ ├── __main__.py │ ├── cime │ │ ├── __init__.py │ │ └── constants.py │ ├── config.py │ ├── conversion.py │ ├── io.py │ ├── landice │ │ ├── __init__.py │ │ ├── boundary.py │ │ ├── create.py │ │ ├── cull.py │ │ ├── interpolate.py │ │ ├── projections.py │ │ └── visualization.py │ ├── logging.py │ ├── merge_grids.py │ ├── mesh │ │ ├── __init__.py │ │ ├── conversion.py │ │ ├── creation │ │ │ ├── __init__.py │ │ │ ├── build_mesh.py │ │ │ ├── conda-toolchain.cmake │ │ │ ├── jigsaw_driver.py │ │ │ ├── jigsaw_to_netcdf.py │ │ │ ├── mesh_definition_tools.py │ │ │ ├── mpas_to_triangle.py │ │ │ ├── open_msh.py │ │ │ ├── signed_distance.py │ │ │ ├── sort_mesh.py │ │ │ ├── triangle_to_netcdf.py │ │ │ └── util.py │ │ ├── cull.py │ │ ├── interpolation.py │ │ ├── mark_horns_for_culling.py │ │ ├── mask.py │ │ └── set_lat_lon.py │ ├── ocean │ │ ├── __init__.py │ │ ├── build_mesh.py │ │ ├── coastal_tools.py │ │ ├── coastline_alteration.py │ │ ├── depth.py │ │ ├── inject_bathymetry.py │ │ ├── inject_meshDensity.py │ │ ├── inject_preserve_floodplain.py │ │ ├── moc.py │ │ ├── streamfunction │ │ │ ├── __init__.py │ │ │ ├── barotropic.py │ │ │ ├── velocity.py │ │ │ └── vorticity.py │ │ └── viz │ │ │ ├── __init__.py │ │ │ ├── inset.py │ │ │ └── transect │ │ │ ├── __init__.py │ │ │ ├── plot.py │ │ │ └── vert.py │ ├── parallel.py │ ├── planar_hex.py │ ├── scrip │ │ ├── __init__.py │ │ ├── from_mpas.py │ │ └── from_planar.py │ ├── seaice │ │ ├── __init__.py │ │ ├── mask.py │ │ ├── mesh.py │ │ ├── partition.py │ │ ├── regions.py │ │ └── regrid.py │ ├── split_grids.py │ ├── transects.py │ ├── translate.py │ ├── vector │ │ ├── __init__.py │ │ └── reconstruct.py │ └── viz │ │ ├── SciVisColorColormaps │ │ ├── 3Wbgy5.xml │ │ ├── 3wave-yellow-grey-blue.xml │ │ ├── 4wave-grey-red-green-mgreen.xml │ │ ├── 5wave-yellow-brown-blue.xml │ │ ├── Publications.bib │ │ ├── __init__.py │ │ ├── blue-1.xml │ │ ├── blue-3.xml │ │ ├── blue-6.xml │ │ ├── blue-8.xml │ │ ├── blue-orange-div.xml │ │ ├── brown-2.xml │ │ ├── brown-5.xml │ │ ├── brown-8.xml │ │ ├── green-1.xml │ │ ├── green-4.xml │ │ ├── green-7.xml │ │ ├── green-8.xml │ │ ├── orange-5.xml │ │ ├── orange-6.xml │ │ ├── orange-green-blue-gray.xml │ │ ├── purple-7.xml │ │ ├── purple-8.xml │ │ ├── red-1.xml │ │ ├── red-3.xml │ │ ├── red-4.xml │ │ ├── yellow-1.xml │ │ └── yellow-7.xml │ │ ├── __init__.py │ │ ├── colormaps.py │ │ ├── mesh_to_triangles.py │ │ ├── mpas_to_xdmf │ │ ├── __init__.py │ │ ├── geometry.py │ │ ├── io.py │ │ ├── mesh.py │ │ ├── mpas_to_xdmf.py │ │ ├── templates │ │ │ ├── __init__.py │ │ │ └── xdmf_template.xml │ │ └── time.py │ │ ├── paraview_extractor.py │ │ └── transect │ │ ├── __init__.py │ │ └── horiz.py ├── pyproject.toml ├── recipe │ ├── build.sh │ └── meta.yaml └── tests │ ├── __init__.py │ ├── test_cime_constants.py │ ├── test_conversion.py │ ├── test_depth.py │ ├── test_io.py │ ├── test_mesh_creation_util.py │ ├── test_mesh_mask.py │ ├── test_signed_distance.py │ ├── test_transects.py │ ├── test_viz_transects.py │ ├── test_viz_xdmf.py │ └── util.py ├── landice ├── mesh_tools_li │ ├── ISMIP6-2500_Forcing.py │ ├── add_no_water_flux_around_boundary.py │ ├── adjust_iceshelf_geometry.py │ ├── adjust_thickness_at_false_ocean_cells.py │ ├── bulldoze_missing_troughs.py │ ├── conversion_exodus_init_to_mpasli_mesh.py │ ├── extrapolate_variable.py │ ├── fill_supraglacial_lakes.py │ ├── flood_fill_thawed_ice.py │ ├── interpolate_mpasOcean_to_mali.py │ ├── misc │ │ ├── README_grid_generation_workflow.txt │ │ ├── calibrate_beta.py │ │ ├── copy_etopo_to_MPAS_sphere_grid.py │ │ ├── mpas_mesh_to_landice_ic_batch.sh │ │ └── prepare_pattyn_temperature_field_for_interpolation.m │ ├── set_von_mises_stress_map.py │ └── tune_ismip6_melt_deltat.py └── output_processing_li │ ├── convert_landice_bitmasks.py │ ├── ismip6_postprocessing │ ├── create_mapfile_mali_to_ismip6.py │ ├── post_process_mali_to_ismip6.py │ ├── process_flux_variables.py │ ├── process_state_variables.py │ └── recalculate_missing_2d_state_vars.py │ ├── plot_calving_calibration.py │ ├── plot_globalStats.py │ ├── plot_maps.py │ ├── plot_mass_balance.py │ ├── plot_regionalStats.py │ ├── plot_subglacial_water_mass_balance.py │ ├── plot_transect.py │ └── remove_output_file_time_loops.py ├── mesh_tools ├── create_SCRIP_files │ └── create_scrip_mask_for_sufficiently_deep_ocean_mapping.py ├── grid_rotate │ ├── Makefile │ ├── README │ ├── grid_rotate.f90 │ ├── mesh.ncl │ └── namelist.input ├── hex_projection │ ├── Makefile │ ├── README │ ├── mesh_boundary_plot.py │ ├── mesh_plot.ncl │ ├── mpas_geometry_utilities.f90 │ ├── namelist.projections │ ├── ph_utils.f90 │ ├── ph_write_mesh.f90 │ ├── precision.f90 │ ├── project_hexes.f90 │ ├── projection_setup.f90 │ └── projections.f90 ├── merge_split_meshes │ ├── merge_grids.py │ └── split_grids.py ├── mesh_conversion_tools │ ├── CMakeLists.txt │ ├── Makefile │ ├── README │ ├── edge.h │ ├── json │ │ ├── json-forwards.h │ │ └── json.h │ ├── jsoncpp.cpp │ ├── mpas_cell_culler.cpp │ ├── mpas_mask_creator.cpp │ ├── mpas_mesh_converter.cpp │ ├── netcdf-cxx-4.2 │ │ ├── COPYRIGHT │ │ ├── README │ │ ├── config.h │ │ ├── ncvalues.cpp │ │ ├── ncvalues.h │ │ ├── netcdf.cpp │ │ ├── netcdf.hh │ │ └── netcdfcpp.h │ ├── netcdf_utils.cpp │ ├── netcdf_utils.h │ ├── pnt.h │ ├── string_utils.h │ └── test │ │ ├── Arctic_Ocean.geojson │ │ ├── land_mask_final.nc │ │ └── mesh.QU.1920km.151026.nc ├── mesh_conversion_tools_netcdf_c │ ├── CMakeLists.txt │ ├── README │ ├── edge.h │ ├── json │ │ ├── json-forwards.h │ │ └── json.h │ ├── jsoncpp.cpp │ ├── mpas_cell_culler.cpp │ ├── mpas_mesh_converter.cpp │ ├── netcdf_utils.h │ ├── pnt.h │ └── string_utils.h ├── mpas2esmf │ ├── .gitignore │ ├── Makefile │ ├── README.md │ └── mpas2esmf.f90 ├── periodic_hex │ ├── Makefile │ ├── cells.ncl │ ├── mark_periodic_boundaries_for_culling.py │ ├── module_cell_indexing.F │ ├── module_write_netcdf.F │ ├── namelist.input │ └── periodic_grid.F ├── periodic_quad │ ├── Makefile │ ├── cells.ncl │ ├── module_cell_indexing.F │ ├── module_write_netcdf.F │ ├── namelist.input │ └── periodic_grid.F ├── planar_grid_transformations │ ├── multires_scaled_hex.py │ ├── rotate_planar_grid.readme.txt │ ├── scale_planar_grid.py │ └── translate_planar_grid.py ├── planar_hex │ ├── mpas_tools │ └── planar_hex ├── points-mpas │ ├── .gitignore │ ├── Makefile │ ├── Params │ ├── README │ ├── SaveDensity │ ├── SaveTriangles │ ├── SaveVertices │ ├── points-mpas.cpp │ └── triangulation.h ├── processor_decompositions │ ├── README │ └── make_partition_files.py └── seaice_grid_tools │ ├── CMakeLists.txt │ ├── Makefile │ ├── README │ ├── cmake │ ├── FindNetCDF.cmake │ ├── LICENSE │ └── README │ ├── create_seaice_partitions.py │ ├── cull_equatorial_region.py │ ├── extend_seaice_mask.py │ ├── fix_regrid_output.F90 │ ├── gen_seaice_mesh_partition.py │ ├── gen_seaice_regions_latitude_bands.py │ ├── make_regions_file.py │ ├── mpas_tools │ ├── prepare_seaice_partitions.py │ ├── regrid_to_other_mesh.py │ ├── rescale_mesh.py │ └── seaice_mesh.py ├── ocean ├── coastline_alteration │ ├── add_critical_land_blockages_to_mask.py │ ├── add_land_locked_cells_to_mask.py │ ├── mpas_tools │ └── widen_transect_edge_masks.py ├── initial_condition_interpolation │ └── interpolate_state.py ├── moc_southern_boundary_extractor │ ├── moc_southern_boundary_extractor.py │ └── mpas_tools ├── performance_testing │ ├── README │ ├── performance_test.py │ ├── plot_from_files.py │ ├── submit_performance_test_to_queue.py │ └── weights │ │ ├── call_to_performance_testing.py │ │ ├── generate_graph.info_with_wgts.py │ │ └── performance_testing.py └── smooth_topo │ ├── CMakeLists.txt │ ├── README │ ├── cmake │ ├── FindNetCDF.cmake │ ├── LICENSE │ └── README │ ├── smooth_topo_before_init.F90 │ ├── smooth_topo_before_init_skip_land_ice.F90 │ └── smooth_topo_skip_land_ice.F90 ├── operators ├── mpas_tools └── vector_reconstruction.py ├── output_processing ├── decomposition_fields │ ├── README │ └── decomposition_fields.py └── grid_quality │ ├── README │ └── grid_quality.py ├── seaice └── README ├── source_code_processing ├── e3sm_namelist_file_generator │ └── generate_e3sm_namelist_files.py └── mpas_source_linter │ └── mpas_source_linter.py ├── update_version.py └── visualization ├── e3sm_cpl_field_conversion └── extract_mpas_cpl_fields.sh ├── mpas_draw ├── .gitignore ├── MATPLOTLIB_LICENSE ├── Makefile ├── README ├── constants.h ├── mpas_draw.cpp ├── netcdf_utils.cpp ├── netcdf_utils.h ├── vec_utils.cpp └── vec_utils.h ├── paraview_vtk_field_extractor ├── add_earth_sphere.py ├── annotate_date.py ├── mpas_tools └── paraview_vtk_field_extractor.py └── planar_grids ├── convert_mpas_grid_to_regular_grid_netcdf.py ├── plot_mpas_field.py ├── plot_mpas_field_xsect.py ├── plot_mpas_velocity_on_edges.py └── visualize_blocks.py 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