From 53d4fc95993dcd7ac06fcd094b465783fd95734d Mon Sep 17 00:00:00 2001 From: Azure Pipelines Date: Mon, 9 Sep 2024 18:22:28 +0000 Subject: [PATCH] [skip ci] Update stable --- .../mpas_tools.cime.constants.rst.txt | 19 +------------------ .../mpas_tools.landice.visualization.rst.txt | 19 +------------------ ...pas_tools.mesh.creation.build_mesh.rst.txt | 19 +------------------ ...esh.creation.mesh_definition_tools.rst.txt | 19 +------------------ ...ools.mesh.creation.signed_distance.rst.txt | 19 +------------------ .../mpas_tools.ocean.build_mesh.rst.txt | 19 +------------------ .../mpas_tools.ocean.coastal_tools.rst.txt | 19 +------------------ ...s_tools.ocean.coastline_alteration.rst.txt | 19 +------------------ .../generated/mpas_tools.ocean.moc.rst.txt | 19 +------------------ stable/_static/searchtools.js | 7 ++++--- stable/api.html | 10 ++-------- .../generated/mpas_tools.io.write_netcdf.html | 4 ++-- ..._tools.landice.visualization.plot_map.html | 2 +- .../mpas_tools.mesh.conversion.convert.html | 2 +- .../mpas_tools.mesh.conversion.cull.html | 8 ++++---- .../mpas_tools.mesh.conversion.mask.html | 4 ++-- ...signed_distance.distance_from_geojson.html | 4 ++-- ...ion.signed_distance.mask_from_geojson.html | 4 ++-- ...distance.signed_distance_from_geojson.html | 4 ++-- .../mpas_tools.mesh.cull.cull_dataset.html | 8 ++++---- ...as_tools.mesh.cull.map_culled_to_base.html | 4 ++-- ...esh.mask.compute_lon_lat_region_masks.html | 6 +++--- ...esh.mask.compute_mpas_flood_fill_mask.html | 6 +++--- ...s.mesh.mask.compute_mpas_region_masks.html | 4 ++-- ...mesh.mask.compute_mpas_transect_masks.html | 4 ++-- ...lteration.add_critical_land_blockages.html | 4 ++-- ...eration.add_land_locked_cells_to_mask.html | 4 ++-- ..._alteration.widen_transect_edge_masks.html | 4 ++-- .../mpas_tools.ocean.depth.compute_depth.html | 2 +- .../mpas_tools.ocean.depth.compute_zmid.html | 6 +++--- stable/generated/mpas_tools.ocean.moc.html | 7 +------ ...ean.moc.make_moc_basins_and_transects.html | 2 +- ...ects.find_transect_levels_and_weights.html | 10 +++++----- ...nterp_mpas_to_transect_triangle_nodes.html | 4 ++-- ...cts.interp_mpas_to_transect_triangles.html | 4 ++-- ...nsect_grid_to_transect_triangle_nodes.html | 4 ++-- ..._tools.ocean.viz.plot_ocean_transects.html | 6 +++--- ..._tools.seaice.mesh.write_2D_scripfile.html | 8 ++++---- ...as_tools.seaice.mesh.write_scrip_file.html | 10 +++++----- ...ts.cartesian_to_great_circle_distance.html | 6 +++--- ...ools.transects.subdivide_great_circle.html | 6 +++--- ...mpas_tools.transects.subdivide_planar.html | 4 ++-- .../mpas_tools.translate.center.html | 2 +- .../mpas_tools.translate.center_on_mesh.html | 4 ++-- .../mpas_tools.translate.translate.html | 2 +- .../generated/mpas_tools.vector.Vector.html | 12 ++++++------ ...z.mesh_to_triangles.mesh_to_triangles.html | 2 +- ...ls.viz.paraview_extractor.extract_vtk.html | 2 +- ...ind_planar_transect_cells_and_weights.html | 8 ++++---- ...sects.find_transect_cells_and_weights.html | 8 ++++---- ...ools.viz.transects.make_triangle_tree.html | 2 +- stable/mesh_conversion.html | 8 ++++---- stable/searchindex.js | 2 +- stable/vector.html | 2 +- 54 files changed, 117 insertions(+), 280 deletions(-) diff --git a/stable/_sources/generated/mpas_tools.cime.constants.rst.txt b/stable/_sources/generated/mpas_tools.cime.constants.rst.txt index 730e02aa5..53269a6ad 100644 --- a/stable/_sources/generated/mpas_tools.cime.constants.rst.txt +++ b/stable/_sources/generated/mpas_tools.cime.constants.rst.txt @@ -3,21 +3,4 @@ .. automodule:: mpas_tools.cime.constants - - - - - - - - - - - - - - - - - - + \ No newline at end of file diff --git a/stable/_sources/generated/mpas_tools.landice.visualization.rst.txt b/stable/_sources/generated/mpas_tools.landice.visualization.rst.txt index 526e15c71..a0792784b 100644 --- a/stable/_sources/generated/mpas_tools.landice.visualization.rst.txt +++ b/stable/_sources/generated/mpas_tools.landice.visualization.rst.txt @@ -4,11 +4,6 @@ .. automodule:: mpas_tools.landice.visualization - - - - - .. rubric:: Functions .. autosummary:: @@ -16,16 +11,4 @@ plot_grounding_lines plot_map plot_transect - - - - - - - - - - - - - + \ No newline at end of file diff --git a/stable/_sources/generated/mpas_tools.mesh.creation.build_mesh.rst.txt b/stable/_sources/generated/mpas_tools.mesh.creation.build_mesh.rst.txt index b1ef21526..620bf79b7 100644 --- a/stable/_sources/generated/mpas_tools.mesh.creation.build_mesh.rst.txt +++ b/stable/_sources/generated/mpas_tools.mesh.creation.build_mesh.rst.txt @@ -4,27 +4,10 @@ .. automodule:: mpas_tools.mesh.creation.build_mesh - - - - - .. rubric:: Functions .. autosummary:: build_planar_mesh build_spherical_mesh - - - - - - - - - - - - - + \ No newline at end of file diff --git a/stable/_sources/generated/mpas_tools.mesh.creation.mesh_definition_tools.rst.txt b/stable/_sources/generated/mpas_tools.mesh.creation.mesh_definition_tools.rst.txt index 464b747cf..42aa629af 100644 --- a/stable/_sources/generated/mpas_tools.mesh.creation.mesh_definition_tools.rst.txt +++ b/stable/_sources/generated/mpas_tools.mesh.creation.mesh_definition_tools.rst.txt @@ -4,11 +4,6 @@ .. automodule:: mpas_tools.mesh.creation.mesh_definition_tools - - - - - .. rubric:: Functions .. autosummary:: @@ -17,16 +12,4 @@ EC_CellWidthVsLat RRS_CellWidthVsLat mergeCellWidthVsLat - - - - - - - - - - - - - + \ No newline at end of file diff --git a/stable/_sources/generated/mpas_tools.mesh.creation.signed_distance.rst.txt b/stable/_sources/generated/mpas_tools.mesh.creation.signed_distance.rst.txt index 2fec23182..b2fb16313 100644 --- a/stable/_sources/generated/mpas_tools.mesh.creation.signed_distance.rst.txt +++ b/stable/_sources/generated/mpas_tools.mesh.creation.signed_distance.rst.txt @@ -4,11 +4,6 @@ .. automodule:: mpas_tools.mesh.creation.signed_distance - - - - - .. rubric:: Functions .. autosummary:: @@ -16,16 +11,4 @@ distance_from_geojson mask_from_geojson signed_distance_from_geojson - - - - - - - - - - - - - + \ No newline at end of file diff --git a/stable/_sources/generated/mpas_tools.ocean.build_mesh.rst.txt b/stable/_sources/generated/mpas_tools.ocean.build_mesh.rst.txt index 74e962d42..2eb3a2f3b 100644 --- a/stable/_sources/generated/mpas_tools.ocean.build_mesh.rst.txt +++ b/stable/_sources/generated/mpas_tools.ocean.build_mesh.rst.txt @@ -4,27 +4,10 @@ .. automodule:: mpas_tools.ocean.build_mesh - - - - - .. rubric:: Functions .. autosummary:: build_planar_mesh build_spherical_mesh - - - - - - - - - - - - - + \ No newline at end of file diff --git a/stable/_sources/generated/mpas_tools.ocean.coastal_tools.rst.txt b/stable/_sources/generated/mpas_tools.ocean.coastal_tools.rst.txt index a8d685fee..751a09f91 100644 --- a/stable/_sources/generated/mpas_tools.ocean.coastal_tools.rst.txt +++ b/stable/_sources/generated/mpas_tools.ocean.coastal_tools.rst.txt @@ -4,11 +4,6 @@ .. automodule:: mpas_tools.ocean.coastal_tools - - - - - .. rubric:: Functions .. autosummary:: @@ -27,16 +22,4 @@ plot_region_box save_matfile smooth_coastline - - - - - - - - - - - - - + \ No newline at end of file diff --git a/stable/_sources/generated/mpas_tools.ocean.coastline_alteration.rst.txt b/stable/_sources/generated/mpas_tools.ocean.coastline_alteration.rst.txt index 384c58f02..0c7b49230 100644 --- a/stable/_sources/generated/mpas_tools.ocean.coastline_alteration.rst.txt +++ b/stable/_sources/generated/mpas_tools.ocean.coastline_alteration.rst.txt @@ -4,11 +4,6 @@ .. automodule:: mpas_tools.ocean.coastline_alteration - - - - - .. rubric:: Functions .. autosummary:: @@ -16,16 +11,4 @@ add_critical_land_blockages add_land_locked_cells_to_mask widen_transect_edge_masks - - - - - - - - - - - - - + \ No newline at end of file diff --git a/stable/_sources/generated/mpas_tools.ocean.moc.rst.txt b/stable/_sources/generated/mpas_tools.ocean.moc.rst.txt index b6d6269fe..e2a751cd8 100644 --- a/stable/_sources/generated/mpas_tools.ocean.moc.rst.txt +++ b/stable/_sources/generated/mpas_tools.ocean.moc.rst.txt @@ -4,27 +4,10 @@ .. automodule:: mpas_tools.ocean.moc - - - - - .. rubric:: Functions .. autosummary:: add_moc_southern_boundary_transects make_moc_basins_and_transects - - - - - - - - - - - - - + \ No newline at end of file diff --git a/stable/_static/searchtools.js b/stable/_static/searchtools.js index 92da3f8b2..b08d58c9b 100644 --- a/stable/_static/searchtools.js +++ b/stable/_static/searchtools.js @@ -178,7 +178,7 @@ const Search = { htmlToText: (htmlString, anchor) => { const htmlElement = new DOMParser().parseFromString(htmlString, 'text/html'); - for (const removalQuery of [".headerlinks", "script", "style"]) { + for (const removalQuery of [".headerlink", "script", "style"]) { htmlElement.querySelectorAll(removalQuery).forEach((el) => { el.remove() }); } if (anchor) { @@ -328,13 +328,14 @@ const Search = { for (const [title, foundTitles] of Object.entries(allTitles)) { if (title.toLowerCase().trim().includes(queryLower) && (queryLower.length >= title.length/2)) { for (const [file, id] of foundTitles) { - let score = Math.round(100 * queryLower.length / title.length) + const score = Math.round(Scorer.title * queryLower.length / title.length); + const boost = titles[file] === title ? 1 : 0; // add a boost for document titles normalResults.push([ docNames[file], titles[file] !== title ? `${titles[file]} > ${title}` : title, id !== null ? "#" + id : "", null, - score, + score + boost, filenames[file], ]); } diff --git a/stable/api.html b/stable/api.html index a4e86d61d..6ac64a214 100644 --- a/stable/api.html +++ b/stable/api.html @@ -598,12 +598,7 @@

Ocean Tools

moc.add_moc_southern_boundary_transects(...)

-

-
param dsMask:
-

Region masks defining MOC basins

-
-
-

+

build_mesh

@@ -771,8 +766,7 @@

Sea-ice Tools

make_regions_file(filenameIcePresent, ...)

-

"

-

+

diff --git a/stable/generated/mpas_tools.io.write_netcdf.html b/stable/generated/mpas_tools.io.write_netcdf.html index f3e48712e..d5bbe8553 100644 --- a/stable/generated/mpas_tools.io.write_netcdf.html +++ b/stable/generated/mpas_tools.io.write_netcdf.html @@ -154,7 +154,7 @@

mpas_tools.io.write_netcdf
Parameters:
    -

  • ds (xarray.Dataset) – The dataset to save

    • +

  • ds (xarray.Dataset) – The dataset to save

  • fileName (str) – The path for the NetCDF file to write

  • fillValues (dict, optional) – A dictionary of fill values for different NetCDF types. Default is mpas_tools.io.default_fills, which can be modified but which @@ -163,7 +163,7 @@

    mpas_tools.io.write_netcdfmpas_tools.io.default_format, which can be modified but which defaults to 'NETCDF3_64BIT'

  • engine ({'netcdf4', 'scipy', 'h5netcdf'}, optional) – The library to use for NetCDF output. The default is the same as -in xarray.Dataset.to_netcdf() and depends on format. +in xarray.Dataset.to_netcdf() and depends on format. You can override the default by setting mpas_tools.io.default_engine

  • char_dim_name (str, optional) – The name of the dimension used for character strings, or None to let diff --git a/stable/generated/mpas_tools.landice.visualization.plot_map.html b/stable/generated/mpas_tools.landice.visualization.plot_map.html index 20ea61e13..cc1546c6a 100644 --- a/stable/generated/mpas_tools.landice.visualization.plot_map.html +++ b/stable/generated/mpas_tools.landice.visualization.plot_map.html @@ -152,7 +152,7 @@

    mpas_tools.landice.visualization.plot_map

    • data_path (str) – Path to .nc file containing variables to plot. May contain MALI mesh fields, or you can use the mesh_file argument.

      • -

    • variable (str or numpy.ndarray) – MALI variable to plot. If a string is specified, the variable with that +

    • variable (str or numpy.ndarray) – MALI variable to plot. If a string is specified, the variable with that name will be read from the .nc file at data_path. If a numpy array is given, that array will be plotted directly.

    • ax (matplotlib.axes._axes.Axes) – Axes on which to plot variable

      • diff --git a/stable/generated/mpas_tools.mesh.conversion.convert.html b/stable/generated/mpas_tools.mesh.conversion.convert.html index 439af3aa1..a7d734c8e 100644 --- a/stable/generated/mpas_tools.mesh.conversion.convert.html +++ b/stable/generated/mpas_tools.mesh.conversion.convert.html @@ -170,7 +170,7 @@

      mpas_tools.mesh.conversion.convert
      Parameters:
        -

      • dsIn (xarray.Dataset) – A data set to convert

        • +

      • dsIn (xarray.Dataset) – A data set to convert

      • graphInfoFileName (str, optional) – A file path (relative or absolute) where the graph file (typically graph.info should be written out. By default, graph.info is not saved.

        • diff --git a/stable/generated/mpas_tools.mesh.conversion.cull.html b/stable/generated/mpas_tools.mesh.conversion.cull.html index 82a5f1ca8..c6150f5ef 100644 --- a/stable/generated/mpas_tools.mesh.conversion.cull.html +++ b/stable/generated/mpas_tools.mesh.conversion.cull.html @@ -172,13 +172,13 @@

        mpas_tools.mesh.conversion.cull
        Parameters:
          -

        • dsIn (xarray.Dataset) – A data set to cull, possibly with a cullCell field set to one where +

        • dsIn (xarray.Dataset) – A data set to cull, possibly with a cullCell field set to one where cells should be removed

          • -

        • dsMask (xarray.Dataset or list, optional) – A data set (or data sets) with region masks that are 1 where cells +

        • dsMask (xarray.Dataset or list, optional) – A data set (or data sets) with region masks that are 1 where cells should be culled

          • -

        • dsInverse (xarray.Dataset or list, optional) – A data set (or data sets) with region masks that are 0 where cells +

        • dsInverse (xarray.Dataset or list, optional) – A data set (or data sets) with region masks that are 0 where cells should be culled

          • -

        • dsPreserve (xarray.Dataset or list, optional) – A data set (or data sets) with region masks that are 1 where cells +

        • dsPreserve (xarray.Dataset or list, optional) – A data set (or data sets) with region masks that are 1 where cells should not be culled

        • graphInfoFileName (str, optional) – A file path (relative or absolute) where the graph file (typically culled_graph.info should be written out. By default, diff --git a/stable/generated/mpas_tools.mesh.conversion.mask.html b/stable/generated/mpas_tools.mesh.conversion.mask.html index 5a88e1623..bf4dab1f8 100644 --- a/stable/generated/mpas_tools.mesh.conversion.mask.html +++ b/stable/generated/mpas_tools.mesh.conversion.mask.html @@ -169,8 +169,8 @@

          mpas_tools.mesh.conversion.mask
          Parameters:
            -

          • dsMesh (xarray.Dataset, optional) – An MPAS mesh on which the masks should be created

            • -

          • fcMask (geometric_features.FeatureCollection, optional) – A feature collection containing features to use to create the mask

            • +

          • dsMesh (xarray.Dataset, optional) – An MPAS mesh on which the masks should be created

            • +

          • fcMask (geometric_features.FeatureCollection, optional) – A feature collection containing features to use to create the mask

          • logger (logging.Logger, optional) – A logger for the output if not stdout

          • dir (str, optional) – A directory in which a temporary directory will be added with files produced during mask creation and then deleted upon completion.

            • diff --git a/stable/generated/mpas_tools.mesh.creation.signed_distance.distance_from_geojson.html b/stable/generated/mpas_tools.mesh.creation.signed_distance.distance_from_geojson.html index 6b85deb54..9da460750 100644 --- a/stable/generated/mpas_tools.mesh.creation.signed_distance.distance_from_geojson.html +++ b/stable/generated/mpas_tools.mesh.creation.signed_distance.distance_from_geojson.html @@ -170,8 +170,8 @@

            mpas_tools.mesh.creation.signed_distance.distance_from_geojsonParameters:

            • fc (geometrics_features.FeatureCollection) – The regions to be rasterized

              • -

            • lon_grd (numpy.ndarray) – A 1D array of longitude values

              • -

            • lat_grd (numpy.ndarray) – A 1D array of latitude values

              • +

            • lon_grd (numpy.ndarray) – A 1D array of longitude values

              • +

            • lat_grd (numpy.ndarray) – A 1D array of latitude values

            • earth_radius (float) – Earth radius in meters

            • nn_search ({'kdtree'}, optional) – The method used to find the nearest point on the shape boundary

            • max_length (float, optional) – The maximum distance (in degrees) between points on the boundary of the diff --git a/stable/generated/mpas_tools.mesh.creation.signed_distance.mask_from_geojson.html b/stable/generated/mpas_tools.mesh.creation.signed_distance.mask_from_geojson.html index e7a79ba81..befcbb232 100644 --- a/stable/generated/mpas_tools.mesh.creation.signed_distance.mask_from_geojson.html +++ b/stable/generated/mpas_tools.mesh.creation.signed_distance.mask_from_geojson.html @@ -170,8 +170,8 @@

              mpas_tools.mesh.creation.signed_distance.mask_from_geojsonParameters:
              Returns:
              diff --git a/stable/generated/mpas_tools.mesh.creation.signed_distance.signed_distance_from_geojson.html b/stable/generated/mpas_tools.mesh.creation.signed_distance.signed_distance_from_geojson.html index aede022a0..fc7f97b15 100644 --- a/stable/generated/mpas_tools.mesh.creation.signed_distance.signed_distance_from_geojson.html +++ b/stable/generated/mpas_tools.mesh.creation.signed_distance.signed_distance_from_geojson.html @@ -170,8 +170,8 @@

              mpas_tools.mesh.creation.signed_distance.signed_distance_from_geojsonParameters:

              • fc (geometrics_features.FeatureCollection) – The regions to be rasterized

                • -

              • lon_grd (numpy.ndarray) – A 1D array of longitude values

                • -

              • lat_grd (numpy.ndarray) – A 1D array of latitude values

                • +

              • lon_grd (numpy.ndarray) – A 1D array of longitude values

                • +

              • lat_grd (numpy.ndarray) – A 1D array of latitude values

              • earth_radius (float) – Earth radius in meters

              • max_length (float, optional) – The maximum distance (in degrees) between points on the boundary of the geojson region. If the boundary is too coarse, it will be subdivided.

                • diff --git a/stable/generated/mpas_tools.mesh.cull.cull_dataset.html b/stable/generated/mpas_tools.mesh.cull.cull_dataset.html index 9166e2c46..360a8c3cb 100644 --- a/stable/generated/mpas_tools.mesh.cull.cull_dataset.html +++ b/stable/generated/mpas_tools.mesh.cull.cull_dataset.html @@ -170,10 +170,10 @@

                mpas_tools.mesh.cull.cull_dataset
                Parameters:
                  -

                • ds (xarray.Dataset) – An MPAS dataset to cull

                  • -

                • ds_base_mesh (xarray.Dataset) – The horizontal MPAS mesh before culling

                  • -

                • ds_culled_mesh (xarray.Dataset) – The culled horizonal MPAS mesh

                  • -

                • ds_map_culled_to_base (xarray.Dataset, optional) – An existing map from the base to the culled mesh created with +

                • ds (xarray.Dataset) – An MPAS dataset to cull

                  • +

                • ds_base_mesh (xarray.Dataset) – The horizontal MPAS mesh before culling

                  • +

                • ds_culled_mesh (xarray.Dataset) – The culled horizonal MPAS mesh

                  • +

                • ds_map_culled_to_base (xarray.Dataset, optional) – An existing map from the base to the culled mesh created with write_map_culled_to_base() or map_culled_to_base(). The dataset will be created (but not returned or saved to disk) if it is not passed as an argument.

                  • diff --git a/stable/generated/mpas_tools.mesh.cull.map_culled_to_base.html b/stable/generated/mpas_tools.mesh.cull.map_culled_to_base.html index 9bcf851c0..b9ba87c29 100644 --- a/stable/generated/mpas_tools.mesh.cull.map_culled_to_base.html +++ b/stable/generated/mpas_tools.mesh.cull.map_culled_to_base.html @@ -170,8 +170,8 @@

                  mpas_tools.mesh.cull.map_culled_to_base
                  Parameters:
                    -

                  • ds_base (xarray.Dataset) – The horizontal MPAS mesh before culling

                    • -

                  • ds_culled (xarray.Dataset) – The culled horizonal MPAS mesh

                    • +

                  • ds_base (xarray.Dataset) – The horizontal MPAS mesh before culling

                    • +

                  • ds_culled (xarray.Dataset) – The culled horizonal MPAS mesh

                  • workers (int, optional) – The number of threads to use to query base mesh elements. The default is all available threads (workers=-1)

                  diff --git a/stable/generated/mpas_tools.mesh.mask.compute_lon_lat_region_masks.html b/stable/generated/mpas_tools.mesh.mask.compute_lon_lat_region_masks.html index bdeb9ca02..f2acc421c 100644 --- a/stable/generated/mpas_tools.mesh.mask.compute_lon_lat_region_masks.html +++ b/stable/generated/mpas_tools.mesh.mask.compute_lon_lat_region_masks.html @@ -169,9 +169,9 @@

                  mpas_tools.mesh.mask.compute_lon_lat_region_masks
                  Parameters:
                    -

                  • lon (numpy.ndarray) – A 1D array of longitudes in degrees between -180 and 180

                    • -

                  • lat (numpy.ndarray) – A 1D array of latitudes in degrees between -90 and 90

                    • -

                  • fcMask (geometric_features.FeatureCollection) – A feature collection containing features to use to create the mask

                    • +

                  • lon (numpy.ndarray) – A 1D array of longitudes in degrees between -180 and 180

                    • +

                  • lat (numpy.ndarray) – A 1D array of latitudes in degrees between -90 and 90

                    • +

                  • fcMask (geometric_features.FeatureCollection) – A feature collection containing features to use to create the mask

                  • logger (logging.Logger, optional) – A logger for the output if not stdout

                  • pool (multiprocessing.Pool, optional) – A pool for performing multiprocessing

                  • chunkSize (int, optional) – The number of cells, vertices or edges that are processed in one diff --git a/stable/generated/mpas_tools.mesh.mask.compute_mpas_flood_fill_mask.html b/stable/generated/mpas_tools.mesh.mask.compute_mpas_flood_fill_mask.html index cf5ff3e9e..5a2e182e5 100644 --- a/stable/generated/mpas_tools.mesh.mask.compute_mpas_flood_fill_mask.html +++ b/stable/generated/mpas_tools.mesh.mask.compute_mpas_flood_fill_mask.html @@ -170,9 +170,9 @@

                    mpas_tools.mesh.mask.compute_mpas_flood_fill_mask
                    Parameters:
                      -

                    • dsMesh (xarray.Dataset) – An MPAS mesh on which the masks should be created

                      • -

                    • fcSeed (geometric_features.FeatureCollection) – A feature collection containing points at which to start the flood fill

                      • -

                    • daGrow (xarray.DataArray, optional) – A data array of size nCells with a mask that is 1 anywhere the +

                    • dsMesh (xarray.Dataset) – An MPAS mesh on which the masks should be created

                      • +

                    • fcSeed (geometric_features.FeatureCollection) – A feature collection containing points at which to start the flood fill

                      • +

                    • daGrow (xarray.DataArray, optional) – A data array of size nCells with a mask that is 1 anywhere the flood fill is allowed to grow. The default is that the mask is all ones.

                    • logger (logging.Logger, optional) – A logger for the output if not stdout

                      • diff --git a/stable/generated/mpas_tools.mesh.mask.compute_mpas_region_masks.html b/stable/generated/mpas_tools.mesh.mask.compute_mpas_region_masks.html index 38e17f349..125b97031 100644 --- a/stable/generated/mpas_tools.mesh.mask.compute_mpas_region_masks.html +++ b/stable/generated/mpas_tools.mesh.mask.compute_mpas_region_masks.html @@ -169,8 +169,8 @@

                      mpas_tools.mesh.mask.compute_mpas_region_masks
                      Parameters:
                        -

                      • dsMesh (xarray.Dataset) – An MPAS mesh on which the masks should be created

                        • -

                      • fcMask (geometric_features.FeatureCollection) – A feature collection containing features to use to create the mask

                        • +

                      • dsMesh (xarray.Dataset) – An MPAS mesh on which the masks should be created

                        • +

                      • fcMask (geometric_features.FeatureCollection) – A feature collection containing features to use to create the mask

                      • maskTypes (tuple of {'cell', 'edge', 'vertex'}, optional) – Which type(s) of masks to make. Masks are created based on whether the latitude and longitude associated with each of these locations (e.g. dsMesh.latCell and dsMesh.lonCell for 'cell') are diff --git a/stable/generated/mpas_tools.mesh.mask.compute_mpas_transect_masks.html b/stable/generated/mpas_tools.mesh.mask.compute_mpas_transect_masks.html index 4068c1119..00da823ac 100644 --- a/stable/generated/mpas_tools.mesh.mask.compute_mpas_transect_masks.html +++ b/stable/generated/mpas_tools.mesh.mask.compute_mpas_transect_masks.html @@ -169,8 +169,8 @@

                        mpas_tools.mesh.mask.compute_mpas_transect_masks
                        Parameters:
                          -

                        • dsMesh (xarray.Dataset) – An MPAS mesh on which the masks should be created

                          • -

                        • fcMask (geometric_features.FeatureCollection) – A feature collection containing features to use to create the mask

                          • +

                        • dsMesh (xarray.Dataset) – An MPAS mesh on which the masks should be created

                          • +

                        • fcMask (geometric_features.FeatureCollection) – A feature collection containing features to use to create the mask

                        • earthRadius (float) – The radius of the earth in meters

                        • maskTypes (tuple of {'cell', 'edge', 'vertex'}, optional) – Which type(s) of masks to make. Masks are created based on whether the latitude and longitude associated with each of these locations diff --git a/stable/generated/mpas_tools.ocean.coastline_alteration.add_critical_land_blockages.html b/stable/generated/mpas_tools.ocean.coastline_alteration.add_critical_land_blockages.html index 156d306f3..4bf23f6b8 100644 --- a/stable/generated/mpas_tools.ocean.coastline_alteration.add_critical_land_blockages.html +++ b/stable/generated/mpas_tools.ocean.coastline_alteration.add_critical_land_blockages.html @@ -186,8 +186,8 @@

                          mpas_tools.ocean.coastline_alteration.add_critical_land_blockages
                          Parameters:
                            -

                          • dsMask (xarray.Dataset) – The mask to which critical blockages should be added

                            • -

                          • dsBlockages (xarray.Dataset) – The transect masks defining critical land regions that should block +

                          • dsMask (xarray.Dataset) – The mask to which critical blockages should be added

                            • +

                          • dsBlockages (xarray.Dataset) – The transect masks defining critical land regions that should block ocean flow (e.g. the Antarctic Peninsula)

                          diff --git a/stable/generated/mpas_tools.ocean.coastline_alteration.add_land_locked_cells_to_mask.html b/stable/generated/mpas_tools.ocean.coastline_alteration.add_land_locked_cells_to_mask.html index 0edd6fc60..7eb0a2dc5 100644 --- a/stable/generated/mpas_tools.ocean.coastline_alteration.add_land_locked_cells_to_mask.html +++ b/stable/generated/mpas_tools.ocean.coastline_alteration.add_land_locked_cells_to_mask.html @@ -187,8 +187,8 @@

                          mpas_tools.ocean.coastline_alteration.add_land_locked_cells_to_mask
                          Parameters:
                            -

                          • dsMask (xarray.Dataset) – A land-mask data set

                            • -

                          • dsMesh (xarray.Dataset) – MPAS Mesh data set

                            • +

                          • dsMask (xarray.Dataset) – A land-mask data set

                            • +

                          • dsMesh (xarray.Dataset) – MPAS Mesh data set

                          • latitude_threshold (float, optional) – Minimum latitude, in degrees, for transect widening

                          • nSweeps (int, optional) – Maximum number of sweeps to search for land-locked cells

                          diff --git a/stable/generated/mpas_tools.ocean.coastline_alteration.widen_transect_edge_masks.html b/stable/generated/mpas_tools.ocean.coastline_alteration.widen_transect_edge_masks.html index b95ad85c5..f2b712ecf 100644 --- a/stable/generated/mpas_tools.ocean.coastline_alteration.widen_transect_edge_masks.html +++ b/stable/generated/mpas_tools.ocean.coastline_alteration.widen_transect_edge_masks.html @@ -187,8 +187,8 @@

                          mpas_tools.ocean.coastline_alteration.widen_transect_edge_masks
                          Parameters:
                            -

                          • dsMask (xarray.Dataset) – The mask to which critical blockages should be added

                            • -

                          • dsMesh (xarray.Dataset) – The transect masks defining critical land regions that should block +

                          • dsMask (xarray.Dataset) – The mask to which critical blockages should be added

                            • +

                          • dsMesh (xarray.Dataset) – The transect masks defining critical land regions that should block ocean flow (e.g. the Antarctic Peninsula)

                          • latitude_threshold (float) – Minimum latitude, degrees, for transect widening

                          diff --git a/stable/generated/mpas_tools.ocean.depth.compute_depth.html b/stable/generated/mpas_tools.ocean.depth.compute_depth.html index 83bc2b5ee..04a9e09b4 100644 --- a/stable/generated/mpas_tools.ocean.depth.compute_depth.html +++ b/stable/generated/mpas_tools.ocean.depth.compute_depth.html @@ -185,7 +185,7 @@

                          mpas_tools.ocean.depth.compute_depth
                          Parameters:
                          -

                          refBottomDepth (xarray.DataArray) – the depth of the bottom of each vertical layer in the initial state +

                          refBottomDepth (xarray.DataArray) – the depth of the bottom of each vertical layer in the initial state (perfect z-level coordinate)

                          Returns:
                          diff --git a/stable/generated/mpas_tools.ocean.depth.compute_zmid.html b/stable/generated/mpas_tools.ocean.depth.compute_zmid.html index f2c32a9d0..070096c86 100644 --- a/stable/generated/mpas_tools.ocean.depth.compute_zmid.html +++ b/stable/generated/mpas_tools.ocean.depth.compute_zmid.html @@ -187,9 +187,9 @@

                          mpas_tools.ocean.depth.compute_zmid
                          Parameters:
                            -

                          • bottomDepth (xarray.DataArray) – the depth of the ocean bottom (positive)

                            • -

                          • maxLevelCell (xarray.DataArray) – the 1-based vertical index of the bottom of the ocean

                            • -

                          • layerThickness (xarray.DataArray) – the thickness of MPAS-Ocean layers (possibly as a function of time)

                            • +

                          • bottomDepth (xarray.DataArray) – the depth of the ocean bottom (positive)

                            • +

                          • maxLevelCell (xarray.DataArray) – the 1-based vertical index of the bottom of the ocean

                            • +

                          • layerThickness (xarray.DataArray) – the thickness of MPAS-Ocean layers (possibly as a function of time)

                          • depth_dim (str, optional) – the name of the vertical dimension

                          diff --git a/stable/generated/mpas_tools.ocean.moc.html b/stable/generated/mpas_tools.ocean.moc.html index ab81763e7..f0e0a1333 100644 --- a/stable/generated/mpas_tools.ocean.moc.html +++ b/stable/generated/mpas_tools.ocean.moc.html @@ -180,12 +180,7 @@ - + diff --git a/stable/generated/mpas_tools.ocean.moc.make_moc_basins_and_transects.html b/stable/generated/mpas_tools.ocean.moc.make_moc_basins_and_transects.html index a8603f551..3084dea21 100644 --- a/stable/generated/mpas_tools.ocean.moc.make_moc_basins_and_transects.html +++ b/stable/generated/mpas_tools.ocean.moc.make_moc_basins_and_transects.html @@ -187,7 +187,7 @@

                          mpas_tools.ocean.moc.make_moc_basins_and_transects
                          Parameters:
                            -

                          • gf (geometric_features.GeometricFeatures) – An object that knows how to download and read geometric features

                            • +

                          • gf (geometric_features.GeometricFeatures) – An object that knows how to download and read geometric features

                          • mesh_filename (str) – A file with MPAS mesh information

                          • mask_and_transect_filename (str) – A file to write the MOC region masks and southern-boundary transects to

                          • geojson_filename (str, optional) – A file to write MOC regions to

                            • diff --git a/stable/generated/mpas_tools.ocean.transects.find_transect_levels_and_weights.html b/stable/generated/mpas_tools.ocean.transects.find_transect_levels_and_weights.html index c22b5e71b..6b8403482 100644 --- a/stable/generated/mpas_tools.ocean.transects.find_transect_levels_and_weights.html +++ b/stable/generated/mpas_tools.ocean.transects.find_transect_levels_and_weights.html @@ -192,12 +192,12 @@

                            mpas_tools.ocean.transects.find_transect_levels_and_weights
                            Parameters:
                            diff --git a/stable/generated/mpas_tools.ocean.transects.interp_mpas_to_transect_triangle_nodes.html b/stable/generated/mpas_tools.ocean.transects.interp_mpas_to_transect_triangle_nodes.html index 8502aecd9..4d1aa3a24 100644 --- a/stable/generated/mpas_tools.ocean.transects.interp_mpas_to_transect_triangle_nodes.html +++ b/stable/generated/mpas_tools.ocean.transects.interp_mpas_to_transect_triangle_nodes.html @@ -188,9 +188,9 @@

                            mpas_tools.ocean.transects.interp_mpas_to_transect_triangle_nodes
                            Parameters:
                              -

                            • dsTransectTriangles (xarray.Dataset) – A dataset that defines triangles making up an MPAS-Ocean transect, the +

                            • dsTransectTriangles (xarray.Dataset) – A dataset that defines triangles making up an MPAS-Ocean transect, the results of calling find_transect_levels_and_weights()

                              • -

                            • da (xarray.DataArray) – An MPAS-Ocean 3D field with dimensions nCells` and nVertLevels +

                            • da (xarray.DataArray) – An MPAS-Ocean 3D field with dimensions nCells` and nVertLevels (possibly among others)

                            diff --git a/stable/generated/mpas_tools.ocean.transects.interp_mpas_to_transect_triangles.html b/stable/generated/mpas_tools.ocean.transects.interp_mpas_to_transect_triangles.html index b6b94d2d8..810e80659 100644 --- a/stable/generated/mpas_tools.ocean.transects.interp_mpas_to_transect_triangles.html +++ b/stable/generated/mpas_tools.ocean.transects.interp_mpas_to_transect_triangles.html @@ -187,9 +187,9 @@

                            mpas_tools.ocean.transects.interp_mpas_to_transect_triangles
                            Parameters:
                              -

                            • dsTransectTriangles (xarray.Dataset) – A dataset that defines triangles making up an MPAS-Ocean transect, the +

                            • dsTransectTriangles (xarray.Dataset) – A dataset that defines triangles making up an MPAS-Ocean transect, the results of calling find_transect_levels_and_weights()

                              • -

                            • da (xarray.DataArray) – An MPAS-Ocean 3D field with dimensions nCells` and nVertLevels +

                            • da (xarray.DataArray) – An MPAS-Ocean 3D field with dimensions nCells` and nVertLevels (possibly among others)

                            diff --git a/stable/generated/mpas_tools.ocean.transects.interp_transect_grid_to_transect_triangle_nodes.html b/stable/generated/mpas_tools.ocean.transects.interp_transect_grid_to_transect_triangle_nodes.html index 2456b3c72..f5a6f4df1 100644 --- a/stable/generated/mpas_tools.ocean.transects.interp_transect_grid_to_transect_triangle_nodes.html +++ b/stable/generated/mpas_tools.ocean.transects.interp_transect_grid_to_transect_triangle_nodes.html @@ -187,9 +187,9 @@

                            mpas_tools.ocean.transects.interp_transect_grid_to_transect_triangle_nodes
                            Parameters:
                            Returns:
                            diff --git a/stable/generated/mpas_tools.ocean.viz.plot_ocean_transects.html b/stable/generated/mpas_tools.ocean.viz.plot_ocean_transects.html index 4eafd7380..b839fea4e 100644 --- a/stable/generated/mpas_tools.ocean.viz.plot_ocean_transects.html +++ b/stable/generated/mpas_tools.ocean.viz.plot_ocean_transects.html @@ -188,9 +188,9 @@

                            mpas_tools.ocean.viz.plot_ocean_transects
                            Parameters:
                              -

                            • fc (geometric_features.FeatureCollection) – The transects to plot

                              • -

                            • ds (xarray.Dataset) – The MPAS-Ocean dataset to plot

                              • -

                            • ds_mesh (xarray.Dataset, optional) – The MPAS-Ocean mesh to use for plotting, the same as ds by default

                              • +

                            • fc (geometric_features.FeatureCollection) – The transects to plot

                              • +

                            • ds (xarray.Dataset) – The MPAS-Ocean dataset to plot

                              • +

                            • ds_mesh (xarray.Dataset, optional) – The MPAS-Ocean mesh to use for plotting, the same as ds by default

                            • variable_list (list of str, optional) – The variables to plot

                            • cmap (str, optional) – The name of a colormap to use

                            • flip (book, optional) – Whether to flip the x axes of all transect plot

                              • diff --git a/stable/generated/mpas_tools.seaice.mesh.write_2D_scripfile.html b/stable/generated/mpas_tools.seaice.mesh.write_2D_scripfile.html index e2a5cd5de..6d2f939ed 100644 --- a/stable/generated/mpas_tools.seaice.mesh.write_2D_scripfile.html +++ b/stable/generated/mpas_tools.seaice.mesh.write_2D_scripfile.html @@ -159,10 +159,10 @@

                              mpas_tools.seaice.mesh.write_2D_scripfilestr) – A string to include as the title attribute in the SCRIP file

                            • nColumns (int) – The number of columns in the grid

                            • nRows (int) – The number of rows in the grid

                              • -

                            • latsCentre (numpy.ndarray) – The latitude (in radians) of cell centers

                              • -

                            • lonsCentre (numpy.ndarray) – The longitude (in radians) of cell centers

                              • -

                            • latsVertex (numpy.ndarray) – The latitude (in radians) of cell vertices

                              • -

                            • lonsVertex (numpy.ndarray) – The longitude (in radians) of cell vertices

                              • +

                            • latsCentre (numpy.ndarray) – The latitude (in radians) of cell centers

                              • +

                            • lonsCentre (numpy.ndarray) – The longitude (in radians) of cell centers

                              • +

                            • latsVertex (numpy.ndarray) – The latitude (in radians) of cell vertices

                              • +

                            • lonsVertex (numpy.ndarray) – The longitude (in radians) of cell vertices

                            • degrees (bool, optional) – Whether the latitude and longitude variables are in degrees (as opposed to radians)

                            diff --git a/stable/generated/mpas_tools.seaice.mesh.write_scrip_file.html b/stable/generated/mpas_tools.seaice.mesh.write_scrip_file.html index 212bd9815..898eced69 100644 --- a/stable/generated/mpas_tools.seaice.mesh.write_scrip_file.html +++ b/stable/generated/mpas_tools.seaice.mesh.write_scrip_file.html @@ -160,11 +160,11 @@

                            mpas_tools.seaice.mesh.write_scrip_filestr) – A string to include as the title attribute in the SCRIP file

                          • nCells (int) – The number of cells in the mesh

                          • maxEdges (int) – The maximum number of edges/vertices on a cell in the mesh

                            • -

                          • latCell (numpy.ndarray) – The latitude (in radians) of cell centers

                            • -

                          • lonCell (numpy.ndarray) – The longitude (in radians) of cell centers

                            • -

                          • corner_lat (numpy.ndarray) – The latitude (in radians) of cell vertices

                            • -

                          • corner_lon (numpy.ndarray) – The longitude (in radians) of cell vertices

                            • -

                          • mask (numpy.ndarray, optional) – A mask of where cells are valid

                            • +

                          • latCell (numpy.ndarray) – The latitude (in radians) of cell centers

                            • +

                          • lonCell (numpy.ndarray) – The longitude (in radians) of cell centers

                            • +

                          • corner_lat (numpy.ndarray) – The latitude (in radians) of cell vertices

                            • +

                          • corner_lon (numpy.ndarray) – The longitude (in radians) of cell vertices

                            • +

                          • mask (numpy.ndarray, optional) – A mask of where cells are valid

                          diff --git a/stable/generated/mpas_tools.transects.cartesian_to_great_circle_distance.html b/stable/generated/mpas_tools.transects.cartesian_to_great_circle_distance.html index a9e5d9cb3..4d0100c65 100644 --- a/stable/generated/mpas_tools.transects.cartesian_to_great_circle_distance.html +++ b/stable/generated/mpas_tools.transects.cartesian_to_great_circle_distance.html @@ -150,9 +150,9 @@

                          mpas_tools.transects.cartesian_to_great_circle_distance
                          Parameters:
                            -

                          • x (numpy.ndarray) – The Cartesian x coordinate of a transect

                            • -

                          • y (numpy.ndarray) – The Cartesian y coordinate of the transect

                            • -

                          • z (numpy.ndarray) – The Cartesian z coordinate of the transect

                            • +

                          • x (numpy.ndarray) – The Cartesian x coordinate of a transect

                            • +

                          • y (numpy.ndarray) – The Cartesian y coordinate of the transect

                            • +

                          • z (numpy.ndarray) – The Cartesian z coordinate of the transect

                          • earth_radius (float) – The radius of the earth

                          diff --git a/stable/generated/mpas_tools.transects.subdivide_great_circle.html b/stable/generated/mpas_tools.transects.subdivide_great_circle.html index 24a6ff991..ce25b5bd0 100644 --- a/stable/generated/mpas_tools.transects.subdivide_great_circle.html +++ b/stable/generated/mpas_tools.transects.subdivide_great_circle.html @@ -153,10 +153,10 @@

                          mpas_tools.transects.subdivide_great_circle
                          Parameters:
                            -

                          • x (numpy.ndarray) – The Cartesian x coordinate of a transect, where the number of segments +

                          • x (numpy.ndarray) – The Cartesian x coordinate of a transect, where the number of segments is len(x) - 1. x, y and z are of the same length.

                            • -

                          • y (numpy.ndarray) – The Cartesian y coordinate of the transect

                            • -

                          • z (numpy.ndarray) – The Cartesian z coordinate of the transect

                            • +

                          • y (numpy.ndarray) – The Cartesian y coordinate of the transect

                            • +

                          • z (numpy.ndarray) – The Cartesian z coordinate of the transect

                          • maxRes (float) – The maximum allowed spacing in m after subdivision

                          • earthRadius (float) – The radius of the Earth in m

                          diff --git a/stable/generated/mpas_tools.transects.subdivide_planar.html b/stable/generated/mpas_tools.transects.subdivide_planar.html index 46af5bc8a..838063e3a 100644 --- a/stable/generated/mpas_tools.transects.subdivide_planar.html +++ b/stable/generated/mpas_tools.transects.subdivide_planar.html @@ -153,9 +153,9 @@

                          mpas_tools.transects.subdivide_planar
                          Parameters:
                            -

                          • x (numpy.ndarray) – The planar x coordinate of a transect, where the number of segments +

                          • x (numpy.ndarray) – The planar x coordinate of a transect, where the number of segments is len(x) - 1

                            • -

                          • y (numpy.ndarray) – The planar y coordinates of the transect, the same length as x

                            • +

                          • y (numpy.ndarray) – The planar y coordinates of the transect, the same length as x

                          • maxRes (float) – The maximum allowed spacing in m after subdivision

                          diff --git a/stable/generated/mpas_tools.translate.center.html b/stable/generated/mpas_tools.translate.center.html index 2176b8f6d..8367f4bc6 100644 --- a/stable/generated/mpas_tools.translate.center.html +++ b/stable/generated/mpas_tools.translate.center.html @@ -168,7 +168,7 @@

                          mpas_tools.translate.center
                          Parameters:
                          -

                          mesh (xarray.Dataset) – A planar mesh to translate

                          +

                          mesh (xarray.Dataset) – A planar mesh to translate

                          diff --git a/stable/generated/mpas_tools.translate.center_on_mesh.html b/stable/generated/mpas_tools.translate.center_on_mesh.html index fccb97c58..e6b3e39a7 100644 --- a/stable/generated/mpas_tools.translate.center_on_mesh.html +++ b/stable/generated/mpas_tools.translate.center_on_mesh.html @@ -169,8 +169,8 @@

                          mpas_tools.translate.center_on_mesh
                          Parameters:
                            -

                          • mesh (xarray.Dataset) – A planar mesh to translate

                            • -

                          • otherMesh (xarray.Dataset) – Another planar mesh whose center will become the center of this mesh. +

                          • mesh (xarray.Dataset) – A planar mesh to translate

                            • +

                          • otherMesh (xarray.Dataset) – Another planar mesh whose center will become the center of this mesh. Uses xCell,yCell or, if those fields do not exist, will secondly try x1,y1 fields

                          diff --git a/stable/generated/mpas_tools.translate.translate.html b/stable/generated/mpas_tools.translate.translate.html index 55422a479..7e56bc092 100644 --- a/stable/generated/mpas_tools.translate.translate.html +++ b/stable/generated/mpas_tools.translate.translate.html @@ -169,7 +169,7 @@

                          mpas_tools.translate.translate
                          Parameters:
                            -

                          • mesh (xarray.Dataset) – A planar mesh to translate

                            • +

                          • mesh (xarray.Dataset) – A planar mesh to translate

                          • xOffset (float, optional) – user-specified shift in the x-direction

                          • yOffset (float, optional) – user-specified shift in the y-direction

                          diff --git a/stable/generated/mpas_tools.vector.Vector.html b/stable/generated/mpas_tools.vector.Vector.html index b19c69b19..df73f9b74 100644 --- a/stable/generated/mpas_tools.vector.Vector.html +++ b/stable/generated/mpas_tools.vector.Vector.html @@ -156,9 +156,9 @@

                          mpas_tools.vector.Vector
                          Variables:
                          @@ -171,9 +171,9 @@

                          mpas_tools.vector.Vector
                          Parameters:
                          diff --git a/stable/generated/mpas_tools.viz.mesh_to_triangles.mesh_to_triangles.html b/stable/generated/mpas_tools.viz.mesh_to_triangles.mesh_to_triangles.html index 4a2b28b62..aea6442b2 100644 --- a/stable/generated/mpas_tools.viz.mesh_to_triangles.mesh_to_triangles.html +++ b/stable/generated/mpas_tools.viz.mesh_to_triangles.mesh_to_triangles.html @@ -152,7 +152,7 @@

                          mpas_tools.viz.mesh_to_triangles.mesh_to_triangles
                          Parameters:
                            -

                          • dsMesh (xarray.Dataset) – An MPAS mesh

                            • +

                          • dsMesh (xarray.Dataset) – An MPAS mesh

                          • periodicCopy (bool, optional) – Whether to make a periodic copy of triangles that cross -180/180 degrees longitude. This is helpful when plotting triangles in a lon/lat space.

                          diff --git a/stable/generated/mpas_tools.viz.paraview_extractor.extract_vtk.html b/stable/generated/mpas_tools.viz.paraview_extractor.extract_vtk.html index 4e20bbbb2..dce3e96cf 100644 --- a/stable/generated/mpas_tools.viz.paraview_extractor.extract_vtk.html +++ b/stable/generated/mpas_tools.viz.paraview_extractor.extract_vtk.html @@ -238,7 +238,7 @@

                          mpas_tools.viz.paraview_extractor.extract_vtkbool, optional) – Whether to include mesh variables as well as time-series variables in the extraction

                          -

                        • fc_region_mask (geometric_features.FeatureCollection, optional) – A feature collection used to define a mask. The MPAS data is culled to +

                        • fc_region_mask (geometric_features.FeatureCollection, optional) – A feature collection used to define a mask. The MPAS data is culled to lie within the mask before conversion to VTK proceeds

                        • temp_dir (str, optional) – If fc_region_mask is supplied, a temporary directory where the culled mesh and time series files are stored

                          • diff --git a/stable/generated/mpas_tools.viz.transects.find_planar_transect_cells_and_weights.html b/stable/generated/mpas_tools.viz.transects.find_planar_transect_cells_and_weights.html index 971b6635f..687f4e55a 100644 --- a/stable/generated/mpas_tools.viz.transects.find_planar_transect_cells_and_weights.html +++ b/stable/generated/mpas_tools.viz.transects.find_planar_transect_cells_and_weights.html @@ -152,11 +152,11 @@

                          mpas_tools.viz.transects.find_planar_transect_cells_and_weights
                          Parameters:
                            -

                          • xTransect (xarray.DataArray) – The x points defining segments making up the transect

                            • -

                          • yTransect (xarray.DataArray) – The y points defining segments making up the transect

                            • -

                          • dsTris (xarray.Dataset) – A dataset that defines triangles, the results of calling +

                          • xTransect (xarray.DataArray) – The x points defining segments making up the transect

                            • +

                          • yTransect (xarray.DataArray) – The y points defining segments making up the transect

                            • +

                          • dsTris (xarray.Dataset) – A dataset that defines triangles, the results of calling :py:func:`mpas_tools.viz.mesh_to_triangles.mesh_to_triangles()

                            • -

                          • dsMesh (xarray.Dataset) – A data set with the full MPAS mesh.

                            • +

                          • dsMesh (xarray.Dataset) – A data set with the full MPAS mesh.

                          • tree (scipy.spatial.cKDTree) – A tree of edge centers from triangles making up an MPAS mesh, the return value from make_triangle_tree()

                          • subdivisionRes (float, optional) – Resolution in m to use to subdivide the transect when looking for diff --git a/stable/generated/mpas_tools.viz.transects.find_transect_cells_and_weights.html b/stable/generated/mpas_tools.viz.transects.find_transect_cells_and_weights.html index dedf595e5..84eb41463 100644 --- a/stable/generated/mpas_tools.viz.transects.find_transect_cells_and_weights.html +++ b/stable/generated/mpas_tools.viz.transects.find_transect_cells_and_weights.html @@ -152,11 +152,11 @@

                            mpas_tools.viz.transects.find_transect_cells_and_weights
                            Parameters:
                              -

                            • lonTransect (xarray.DataArray) – The longitude of segments making up the transect

                              • -

                            • latTransect (xarray.DataArray) – The latitude of segments making up the transect

                              • -

                            • dsTris (xarray.Dataset) – A dataset that defines triangles, the results of calling +

                            • lonTransect (xarray.DataArray) – The longitude of segments making up the transect

                              • +

                            • latTransect (xarray.DataArray) – The latitude of segments making up the transect

                              • +

                            • dsTris (xarray.Dataset) – A dataset that defines triangles, the results of calling mpas_tools.viz.mesh_to_triangles.mesh_to_triangles()

                              • -

                            • dsMesh (xarray.Dataset) – A data set with the full MPAS mesh.

                              • +

                            • dsMesh (xarray.Dataset) – A data set with the full MPAS mesh.

                            • tree (scipy.spatial.cKDTree) – A tree of edge centers from triangles making up an MPAS mesh, the return value from make_triangle_tree()

                            • degrees (bool, optional) – Whether lonTransect and latTransect are in degrees (as opposed diff --git a/stable/generated/mpas_tools.viz.transects.make_triangle_tree.html b/stable/generated/mpas_tools.viz.transects.make_triangle_tree.html index 8b7eb6d74..f9f77bac2 100644 --- a/stable/generated/mpas_tools.viz.transects.make_triangle_tree.html +++ b/stable/generated/mpas_tools.viz.transects.make_triangle_tree.html @@ -151,7 +151,7 @@

                              mpas_tools.viz.transects.make_triangle_tree
                              Parameters:
                              -

                              dsTris (xarray.Dataset) – A dataset that defines triangles, the results of calling +

                              dsTris (xarray.Dataset) – A dataset that defines triangles, the results of calling mpas_tools.viz.mesh_to_triangles.mesh_to_triangles()

                              Returns:
                              diff --git a/stable/mesh_conversion.html b/stable/mesh_conversion.html index c9b794a2a..3951119c9 100644 --- a/stable/mesh_conversion.html +++ b/stable/mesh_conversion.html @@ -324,8 +324,8 @@

                              Computing MPAS Region Masksmpas_tools.mesh.mask.compute_mpas_region_masks() or the compute_mpas_region_masks command-line tool can be used to create region masks on cells, edges and/or vertices given an MPAS -mesh xarray.Dataset dsMesh and a -geometric_features.FeatureCollection fcMask containing regions. +mesh xarray.Dataset dsMesh and a +geometric_features.FeatureCollection fcMask containing regions. The resulting masks, in the variable regionCellMasks, are 1 where the center of the polygon corresponding to the cell, edge or vertex (see the MPAS Mesh Specification) @@ -410,7 +410,7 @@

                              Computing Transect Masksmpas_tools.mesh.mask.compute_mpas_transect_masks() and the compute_mpas_transect_masks command-line tool are similar to the function for computing region masks. The function takes a -geometric_features.FeatureCollection fcMask that is made up of +geometric_features.FeatureCollection fcMask that is made up of transects, rather than regions. One mask is produced for each feature in the collection, indicating where the transect intersects the cell, edge or vertex polygons (see the @@ -500,7 +500,7 @@

                              Computing a Flood-fill Maskmpas_tools.mesh.mask.compute_mpas_flood_fill_mask() and the command-line tool compute_mpas_flood_fill_mask fill in a mask, starting with the cell centers closest to the seed points -given in geometric_features.FeatureCollection fcSeed. This +given in geometric_features.FeatureCollection fcSeed. This algorithm runs in serial, and will be more efficient the more seed points are provided and the more widely scattered over the mesh they are.

                              An optional daGrow argument to the function (not currently available from diff --git a/stable/searchindex.js b/stable/searchindex.js index b9cbf0f4d..c306fa53e 100644 --- a/stable/searchindex.js +++ b/stable/searchindex.js @@ -1 +1 @@ -Search.setIndex({"alltitles": {"API reference": [[0, "api-reference"]], "Adding Land Blockages": [[147, "adding-land-blockages"]], "Adding Southern Transects": [[150, "adding-southern-transects"]], "Adding a 1D depth coordinate": [[148, "adding-a-1d-depth-coordinate"]], "Adding a 3D zMid coordinate": [[148, "adding-a-3d-zmid-coordinate"]], "Adding a Depth Coordinate": [[148, "adding-a-depth-coordinate"]], "Authors": [[139, null]], "Blending Cell Widths": [[146, "blending-cell-widths"]], "Building MOC Basins": [[150, "building-moc-basins"]], "Building MOC Basins and Transects Together": [[150, "building-moc-basins-and-transects-together"]], "Building a JIGSAW Mesh": [[145, "building-a-jigsaw-mesh"]], "Building the Documentation": [[2, "building-the-documentation"]], "CIME Constants": [[3, "cime-constants"]], "CIME constants": [[0, "cime-constants"]], "Cell Culler": [[144, "cell-culler"]], "Coastal Tools": [[146, "coastal-tools"]], "Coastline Alteration": [[147, "coastline-alteration"]], "Colormaps": [[161, "colormaps"]], "Comments in config files": [[4, "comments-in-config-files"]], "Computing Distance to Coast": [[146, "computing-distance-to-coast"]], "Computing Lon/Lat Region Masks": [[144, "computing-lon-lat-region-masks"]], "Computing MPAS Region Masks": [[144, "computing-mpas-region-masks"]], "Computing Transect Masks": [[144, "computing-transect-masks"]], "Computing a Flood-fill Mask": [[144, "computing-a-flood-fill-mask"]], "Conda environment": [[154, "conda-environment"]], "Config": [[0, "config"]], "Config files": [[4, "config-files"]], "Contributors": [[1, "contributors"]], "Converting Between Mesh Formats": [[144, "converting-between-mesh-formats"]], "Creating a Background Mesh": [[146, "creating-a-background-mesh"]], "Culling MPAS Datasets": [[144, "culling-mpas-datasets"]], "Defining a Rossby-radius Mesh": [[145, "defining-a-rossby-radius-mesh"]], "Defining an Atlantic/Pacific Mesh": [[145, "defining-an-atlantic-pacific-mesh"]], "Defining an Eddy-closure Mesh": [[145, "defining-an-eddy-closure-mesh"]], "Dependencies": [[143, "dependencies"]], "Developer's Guide": [[139, null]], "Entry Points": [[143, "entry-points"]], "Extending a Mask": [[152, "extending-a-mask"]], "Extracting Coastlines": [[146, "extracting-coastlines"]], "Extracting Multiple Fields": [[161, "extracting-multiple-fields"]], "Extracting a Region": [[161, "extracting-a-region"]], "Extracting a Temperature Time-series": [[161, "extracting-a-temperature-time-series"]], "Extracting \u201cAll\u201d Fields": [[161, "extracting-all-fields"]], "Graph partition function": [[154, "graph-partition-function"]], "Graph partition tools": [[154, "graph-partition-tools"]], "Graph partitioning": [[154, "graph-partitioning"]], "I/O": [[0, "i-o"]], "Ignoring Time": [[161, "ignoring-time"]], "Indexing Dimensions": [[161, "indexing-dimensions"]], "Indexing Time": [[161, "indexing-time"]], "Indices and tables": [[139, "indices-and-tables"]], "Interpolation": [[0, "interpolation"], [140, "interpolation"]], "JIGSAW Driver": [[145, "jigsaw-driver"]], "Landice Tools": [[0, "landice-tools"], [139, null]], "Logging": [[0, "logging"], [142, "logging"]], "Logging subprocess calls": [[142, "logging-subprocess-calls"]], "Lon/Lat Coordinates": [[161, "lon-lat-coordinates"]], "Low-level functions": [[158, "low-level-functions"]], "MPAS Mesh to Triangles": [[161, "mpas-mesh-to-triangles"]], "MPAS NetCDF to SCRIP": [[144, "mpas-netcdf-to-scrip"]], "MPAS NetCDF to Triangle": [[144, "mpas-netcdf-to-triangle"]], "MPAS mesh tools": [[0, "mpas-mesh-tools"]], "MPAS-Seaice SCRIP files": [[153, "mpas-seaice-scrip-files"]], "MPAS-Tools": [[139, "mpas-tools"]], "MSH to MPAS NetCDF": [[144, "msh-to-mpas-netcdf"]], "Main Authors": [[1, "main-authors"]], "Make a region mask for partitioning": [[155, "make-a-region-mask-for-partitioning"]], "Making Changes to mpas_tools": [[143, "making-changes-to-mpas-tools"]], "Mask": [[152, "mask"]], "Mask Creation with Python Multiprocessing": [[144, "mask-creation-with-python-multiprocessing"]], "Mask Creator": [[144, "mask-creator"]], "Masking Land-locked Cells": [[147, "masking-land-locked-cells"]], "Merging Cell Widths": [[145, "merging-cell-widths"]], "Merging and Splitting": [[144, "merging-and-splitting"]], "Meridional Overturning Circulation": [[150, "meridional-overturning-circulation"]], "Mesh": [[153, "mesh"]], "Mesh Conversion": [[144, "mesh-conversion"]], "Mesh Converter": [[144, "mesh-converter"]], "Mesh Creation": [[145, "id1"]], "Mesh Definition Tools": [[145, "mesh-definition-tools"]], "Mesh conversion": [[0, "mesh-conversion"]], "Mesh creation": [[0, "mesh-creation"]], "Ocean Mesh Creation": [[149, "ocean-mesh-creation"]], "Ocean Tools": [[0, "ocean-tools"], [139, null]], "ParaView Macros": [[161, "paraview-macros"]], "ParaView VTK Extractor": [[161, "paraview-vtk-extractor"]], "Parallelism": [[0, "parallelism"]], "Planar Meshes": [[145, "planar-meshes"]], "Plotting Landice Grounding Lines": [[141, "plotting-landice-grounding-lines"]], "Plotting Landice Maps": [[141, "plotting-landice-maps"]], "Plotting Landice Transects": [[141, "plotting-landice-transects"]], "Plotting Ocean Transects": [[151, "plotting-ocean-transects"]], "Refining a Mesh": [[146, "refining-a-mesh"]], "Region masks": [[155, "region-masks"]], "Regions": [[146, "regions"]], "Regrid": [[156, "regrid"]], "Regridding between MPAS-Seaice meshes": [[156, "regridding-between-mpas-seaice-meshes"]], "Removing the test environment": [[157, "removing-the-test-environment"]], "Running from compass": [[154, "running-from-compass"]], "SCRIP files for 2D grids": [[153, "scrip-files-for-2d-grids"]], "Sea-ice Tools": [[0, "sea-ice-tools"], [139, null]], "Signed Distance Functions": [[145, "signed-distance-functions"]], "Spherical Meshes": [[145, "spherical-meshes"]], "Subdividing transects": [[158, "subdividing-transects"]], "Testing Changes to mpas_tools": [[157, "testing-changes-to-mpas-tools"]], "Tests": [[0, "tests"]], "Topographic Data": [[161, "topographic-data"]], "Transects": [[0, "transects"], [158, "transects"]], "Translation": [[144, "translation"]], "Triangle to MPAS NetCDF": [[144, "triangle-to-mpas-netcdf"]], "Uniform, Planar Meshes": [[145, "uniform-planar-meshes"]], "Updating the Version": [[143, "updating-the-version"]], "User's Guide": [[139, null]], "Using logging": [[142, "using-logging"]], "Vector": [[0, "vector"]], "Vector Class": [[159, "vector-class"]], "Vector Operations": [[159, "vector-operations"]], "Vector Reconstructions": [[159, "vector-reconstructions"]], "Versions": [[139, null], [160, "versions"]], "Visualization": [[0, "visualization"], [141, "visualization"], [151, "visualization"], [161, "visualization"]], "Widening Transects": [[147, "widening-transects"]], "Writing a time-dependent, 3D zMid variable": [[148, "writing-a-time-dependent-3d-zmid-variable"]], "mpas_tools.cime.constants": [[5, "module-mpas_tools.cime.constants"]], "mpas_tools.config.MpasConfigParser": [[6, "mpas-tools-config-mpasconfigparser"]], "mpas_tools.config.MpasConfigParser.__getitem__": [[7, "mpas-tools-config-mpasconfigparser-getitem"]], "mpas_tools.config.MpasConfigParser.add_from_file": [[8, "mpas-tools-config-mpasconfigparser-add-from-file"]], "mpas_tools.config.MpasConfigParser.add_from_package": [[9, "mpas-tools-config-mpasconfigparser-add-from-package"]], "mpas_tools.config.MpasConfigParser.add_user_config": [[10, "mpas-tools-config-mpasconfigparser-add-user-config"]], "mpas_tools.config.MpasConfigParser.append": [[11, "mpas-tools-config-mpasconfigparser-append"]], "mpas_tools.config.MpasConfigParser.copy": [[12, "mpas-tools-config-mpasconfigparser-copy"]], 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"mpas-tools-config-mpasconfigparser-set"]], "mpas_tools.config.MpasConfigParser.write": [[23, "mpas-tools-config-mpasconfigparser-write"]], "mpas_tools.io.write_netcdf": [[24, "mpas-tools-io-write-netcdf"]], "mpas_tools.landice.visualization": [[25, "module-mpas_tools.landice.visualization"]], "mpas_tools.landice.visualization.plot_grounding_lines": [[26, "mpas-tools-landice-visualization-plot-grounding-lines"]], "mpas_tools.landice.visualization.plot_map": [[27, "mpas-tools-landice-visualization-plot-map"]], "mpas_tools.landice.visualization.plot_transect": [[28, "mpas-tools-landice-visualization-plot-transect"]], "mpas_tools.logging.LoggingContext": [[29, "mpas-tools-logging-loggingcontext"]], "mpas_tools.logging.check_call": [[30, "mpas-tools-logging-check-call"]], "mpas_tools.merge_grids.merge_grids": [[31, "mpas-tools-merge-grids-merge-grids"]], "mpas_tools.mesh.conversion.convert": [[32, "mpas-tools-mesh-conversion-convert"]], "mpas_tools.mesh.conversion.cull": [[33, 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"mpas-tools-ocean-coastal-tools-save-matfile"]], "mpas_tools.ocean.coastal_tools.smooth_coastline": [[76, "mpas-tools-ocean-coastal-tools-smooth-coastline"]], "mpas_tools.ocean.coastline_alteration": [[77, "module-mpas_tools.ocean.coastline_alteration"]], "mpas_tools.ocean.coastline_alteration.add_critical_land_blockages": [[78, "mpas-tools-ocean-coastline-alteration-add-critical-land-blockages"]], "mpas_tools.ocean.coastline_alteration.add_land_locked_cells_to_mask": [[79, "mpas-tools-ocean-coastline-alteration-add-land-locked-cells-to-mask"]], "mpas_tools.ocean.coastline_alteration.widen_transect_edge_masks": [[80, "mpas-tools-ocean-coastline-alteration-widen-transect-edge-masks"]], "mpas_tools.ocean.depth.add_depth": [[81, "mpas-tools-ocean-depth-add-depth"]], "mpas_tools.ocean.depth.add_zmid": [[82, "mpas-tools-ocean-depth-add-zmid"]], "mpas_tools.ocean.depth.compute_depth": [[83, "mpas-tools-ocean-depth-compute-depth"]], "mpas_tools.ocean.depth.compute_zmid": [[84, 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"write_time_varying_zmid": 85, "zmid": 148}}) \ No newline at end of file +Search.setIndex({"alltitles": {"API reference": [[0, null]], "Adding Land Blockages": [[147, "adding-land-blockages"]], "Adding Southern Transects": [[150, "adding-southern-transects"]], "Adding a 1D depth coordinate": [[148, "adding-a-1d-depth-coordinate"]], "Adding a 3D zMid coordinate": [[148, "adding-a-3d-zmid-coordinate"]], "Adding a Depth Coordinate": [[148, null]], "Authors": [[139, null]], "Blending Cell Widths": [[146, "blending-cell-widths"]], "Building MOC Basins": [[150, "building-moc-basins"]], "Building MOC Basins and Transects Together": [[150, "building-moc-basins-and-transects-together"]], "Building a JIGSAW Mesh": [[145, "building-a-jigsaw-mesh"]], "Building the Documentation": [[2, null]], "CIME Constants": [[3, null]], "CIME constants": [[0, "cime-constants"]], "Cell Culler": [[144, "cell-culler"]], "Coastal Tools": [[146, null]], "Coastline Alteration": [[147, null]], "Colormaps": [[161, 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                              Vector Class

                              The mpas_tools.vector.Vector class defines a single vector (with components that are floats) or a vector field (with components that are -numpy.ndarray objects). See the API documentation for the +numpy.ndarray objects). See the API documentation for the individual methods to find out more.

                          add_moc_southern_boundary_transects(dsMask, ...)

                          -
                          param dsMask:
                          -

                          Region masks defining MOC basins

                          -
                          -
                          -

                          make_moc_basins_and_transects(gf, ...[, ...])

                          Builds features defining the ocean basins and southern transects used in computing the meridional overturning circulation (MOC)