From 893cf84992010c2aedb811839bdf4e0b80357bcb Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Thu, 16 Nov 2023 15:15:06 +0000
Subject: [PATCH 01/14] Output plots and data to a directory

This makes it feasible to use for time-series plot sequences, and
helps towards getting all output in one place.
---
 docs/source/reference/cli.rst                 |  2 +-
 docs/source/reference/recipe-format.rst       |  3 +--
 src/CSET/__init__.py                          |  4 ++--
 src/CSET/operators/__init__.py                | 24 ++++++++++++-------
 src/CSET/operators/plot.py                    | 20 ++++++++--------
 src/CSET/operators/write.py                   | 10 ++++----
 .../recipes/ensemble_3_hour_air_temp.yaml     | 23 +-----------------
 .../recipes/extract_instant_air_temp.yaml     |  3 +--
 tests/operators/test_plots.py                 | 15 ++++++------
 tests/test_cli.py                             | 11 ++++-----
 tests/test_data/ensemble_air_temp.yaml        |  2 +-
 tests/test_data/plot_instant_air_temp.yaml    |  9 ++++---
 .../plot_instant_air_temp_collapse.yaml       |  9 ++++---
 tests/test_recipes.py                         |  2 +-
 tests/test_run_recipes.py                     | 10 ++++----
 15 files changed, 63 insertions(+), 84 deletions(-)

diff --git a/docs/source/reference/cli.rst b/docs/source/reference/cli.rst
index eb907eed1..f9a1dba31 100644
--- a/docs/source/reference/cli.rst
+++ b/docs/source/reference/cli.rst
@@ -19,7 +19,7 @@ contain the YAML text that you want executed.
 
     positional arguments:
     input_file   input file to read
-    output_file  output file to write
+    output_dir   directory to write output
     recipe_file  recipe file to execute. If omitted reads from CSET_RECIPE environment variable
 
     options:
diff --git a/docs/source/reference/recipe-format.rst b/docs/source/reference/recipe-format.rst
index d4e975ea0..729aa9733 100644
--- a/docs/source/reference/recipe-format.rst
+++ b/docs/source/reference/recipe-format.rst
@@ -27,8 +27,7 @@ commented example recipe:
 
     - operator: write.write_cube_to_nc
       # Specify the name of the argument, and its value.
-      file_path: CSET_OUTPUT_PATH
-      # "CSET_OUTPUT_PATH" is special and becomes the runtime output file path.
+      filename: processed_data.nc
 
 The name and description keys provide a human readable description of what the
 recipe does. They are currently not used anywhere, but it is good practice to
diff --git a/src/CSET/__init__.py b/src/CSET/__init__.py
index 5cfa76462..0df82db82 100644
--- a/src/CSET/__init__.py
+++ b/src/CSET/__init__.py
@@ -43,7 +43,7 @@ def main():
     # Run operator chain
     parser_bake = subparsers.add_parser("bake", help="run a recipe file")
     parser_bake.add_argument("input_file", type=Path, help="input file to read")
-    parser_bake.add_argument("output_file", type=Path, help="output file to write")
+    parser_bake.add_argument("output_dir", type=Path, help="directory to write output")
     parser_bake.add_argument(
         "recipe_file",
         type=Path,
@@ -109,7 +109,7 @@ def _bake_command(args):
     if not args.recipe_file:
         args.recipe_file = os.getenv("CSET_RECIPE")
 
-    execute_recipe(args.recipe_file, args.input_file, args.output_file)
+    execute_recipe(args.recipe_file, args.input_file, args.output_dir)
 
 
 def _graph_command(args):
diff --git a/src/CSET/operators/__init__.py b/src/CSET/operators/__init__.py
index 3b03bfc37..86686f79c 100644
--- a/src/CSET/operators/__init__.py
+++ b/src/CSET/operators/__init__.py
@@ -16,6 +16,7 @@
 
 import inspect
 import logging
+import os
 from pathlib import Path
 from typing import Union
 
@@ -77,7 +78,7 @@ def get_operator(name: str):
 
 
 def execute_recipe(
-    recipe_yaml: Union[Path, str], input_file: Path, output_file: Path
+    recipe_yaml: Union[Path, str], input_file: Path, output_directory: Path
 ) -> None:
     """Parse and executes a recipe file.
 
@@ -92,7 +93,7 @@ def execute_recipe(
         Pathlike to netCDF (or something else that iris read) file to be used as
         input.
 
-    output_file: Path
+    output_directory: Path
         Pathlike indicating desired location of output.
 
     Raises
@@ -107,7 +108,7 @@ def execute_recipe(
         The provided recipe is not a stream or Path.
     """
 
-    def step_parser(step: dict, step_input: any, output_file_path: Path) -> str:
+    def step_parser(step: dict, step_input: any) -> str:
         """Execute a recipe step, recursively executing any sub-steps."""
         logging.debug(f"Executing step: {step}")
         kwargs = {}
@@ -117,9 +118,7 @@ def step_parser(step: dict, step_input: any, output_file_path: Path) -> str:
                 logging.info(f"operator: {step['operator']}")
             elif isinstance(step[key], dict) and "operator" in step[key]:
                 logging.debug(f"Recursing into argument: {key}")
-                kwargs[key] = step_parser(step[key], step_input, output_file_path)
-            elif step[key] == "CSET_OUTPUT_PATH":
-                kwargs[key] = output_file_path
+                kwargs[key] = step_parser(step[key], step_input)
             else:
                 kwargs[key] = step[key]
         logging.debug("args: %s", kwargs)
@@ -135,13 +134,22 @@ def step_parser(step: dict, step_input: any, output_file_path: Path) -> str:
 
     recipe = parse_recipe(recipe_yaml)
 
+    original_working_directory = Path.cwd()
+    try:
+        output_directory.mkdir(parents=True, exist_ok=True)
+    except FileExistsError as err:
+        logging.error("Output directory is a file. %s", output_directory)
+        raise err
+    os.chdir(output_directory)
+
     # Execute the recipe.
     step_input = input_file
     for step in recipe["steps"]:
-        step_input = step_parser(step, step_input, output_file)
-
+        step_input = step_parser(step, step_input)
     logging.info("Recipe output: %s", step_input)
 
+    os.chdir(original_working_directory)
+
 
 __all__ = [
     "aggregate",
diff --git a/src/CSET/operators/plot.py b/src/CSET/operators/plot.py
index 3c270068d..503cacc6a 100644
--- a/src/CSET/operators/plot.py
+++ b/src/CSET/operators/plot.py
@@ -59,7 +59,7 @@ def _check_single_cube(
 
 
 def spatial_contour_plot(
-    cube: iris.cube.Cube, file_path: Path, **kwargs
+    cube: iris.cube.Cube, filename: Path, **kwargs
 ) -> iris.cube.Cube:
     """
     Plot a spatial variable onto a map.
@@ -68,7 +68,7 @@ def spatial_contour_plot(
     ----------
     cube: Cube
         An iris cube of the data to plot. It should be 2 dimensional (lat and lon).
-    file_path: pathlike
+    filename: pathlike
         The path of the plot to write.
 
     Returns
@@ -85,14 +85,14 @@ def spatial_contour_plot(
     """
     cube = _check_single_cube(cube)
     qplt.contourf(cube)
-    file_path = Path(file_path).with_suffix(".svg")
-    plt.savefig(file_path)
-    logging.info("Saved contour plot to %s", file_path)
+    filename = Path(filename).with_suffix(".svg")
+    plt.savefig(filename)
+    logging.info("Saved contour plot to %s", filename)
     return cube
 
 
 def postage_stamp_contour_plot(
-    cube: iris.cube.Cube, file_path: Path, coordinate: str = "realization", **kwargs
+    cube: iris.cube.Cube, filename: Path, coordinate: str = "realization", **kwargs
 ) -> iris.cube.Cube:
     """Plot postage stamp contour plots from an ensemble.
 
@@ -100,7 +100,7 @@ def postage_stamp_contour_plot(
     ----------
     cube: Cube
         Iris cube of data to be plotted. It must have a realization coordinate.
-    file_path: pathlike
+    filename: pathlike
         The path of the plot to write.
     coordinate: str
         The coordinate that becomes different plots. Defaults to "realization".
@@ -142,8 +142,8 @@ def postage_stamp_contour_plot(
     colorbar = plt.colorbar(plot, colorbar_axes, orientation="horizontal")
     colorbar.set_label(f"{cube.name()} / {cube.units}")
 
-    file_path = Path(file_path).with_suffix(".svg")
-    plt.savefig(file_path)
-    logging.info("Saved contour postage stamp plot to %s", file_path)
+    filename = Path(filename).with_suffix(".svg")
+    plt.savefig(filename)
+    logging.info("Saved contour postage stamp plot to %s", filename)
 
     return cube
diff --git a/src/CSET/operators/write.py b/src/CSET/operators/write.py
index 24970acd6..eb1dc27cf 100644
--- a/src/CSET/operators/write.py
+++ b/src/CSET/operators/write.py
@@ -22,7 +22,7 @@
 
 
 def write_cube_to_nc(
-    cube: Union[iris.cube.Cube, iris.cube.CubeList], file_path: Path, **kwargs
+    cube: Union[iris.cube.Cube, iris.cube.CubeList], filename: Path, **kwargs
 ) -> str:
     """Write a cube to a NetCDF file.
 
@@ -33,7 +33,7 @@ def write_cube_to_nc(
     ---------
     cube: iris.cube.Cube | iris.cube.CubeList
         Data to save
-    file_path: Path
+    filename: Path
         Path to save the cubes too
 
     Returns
@@ -41,8 +41,8 @@ def write_cube_to_nc(
     Cube | CubeList
         The inputted cube(list) (so further operations can be applied)
     """
-    # Ensure that output_file_path is a Path with a .nc suffix
-    file_path = Path(file_path).with_suffix(".nc")
+    # Ensure that output filename is a Path with a .nc suffix
+    filename = Path(filename).with_suffix(".nc")
     # Save the file as nc compliant (iris should handle this)
-    iris.save(cube, file_path)
+    iris.save(cube, filename)
     return cube
diff --git a/src/CSET/recipes/ensemble_3_hour_air_temp.yaml b/src/CSET/recipes/ensemble_3_hour_air_temp.yaml
index 3bef95a37..b9cfecba7 100644
--- a/src/CSET/recipes/ensemble_3_hour_air_temp.yaml
+++ b/src/CSET/recipes/ensemble_3_hour_air_temp.yaml
@@ -5,26 +5,5 @@ steps:
       operator: constraints.generate_stash_constraint
       stash: m01s03i236
 
-  # - operator: aggregate.aggregate
-  #   dimension: time
-  #   method: mean
-  #   interval: PT3H
-
-  # - operator: aggregate.aggregate
-  #   dimension: lat
-  #   method: iris.analysis.weighted_mean
-  #   interval: 0.5  # degrees
-
-  # - operator: write.write_cube_to_nc
-  #   # This is a magic value that becomes the runtime output file path.
-  #   file_path: CSET_OUTPUT_PATH
-
   - operator: plot.postage_stamp_contour_plot
-    file_path: CSET_OUTPUT_PATH
-
-  # - operator: aggregate.aggregate
-  #   dimension: realization
-  #   method: iris.analysis.mean
-
-  # - operator: plot.spatial_plot
-  #   file_path: CSET_OUTPUT_PATH
+    filename: plot.svg
diff --git a/src/CSET/recipes/extract_instant_air_temp.yaml b/src/CSET/recipes/extract_instant_air_temp.yaml
index 144d2d495..28cc60c1a 100644
--- a/src/CSET/recipes/extract_instant_air_temp.yaml
+++ b/src/CSET/recipes/extract_instant_air_temp.yaml
@@ -23,5 +23,4 @@ steps:
         cell_methods: []
 
   - operator: write.write_cube_to_nc
-    # This is a magic value that becomes the runtime output file path.
-    file_path: CSET_OUTPUT_PATH
+    filename: processed_data.nc
diff --git a/tests/operators/test_plots.py b/tests/operators/test_plots.py
index 86338734b..865180ed8 100644
--- a/tests/operators/test_plots.py
+++ b/tests/operators/test_plots.py
@@ -26,21 +26,20 @@
 def test_spatial_plot(tmp_path: Path):
     """Plot spatial contour plot of instant air temp."""
     input_file = Path("tests/test_data/air_temp.nc")
-    output_file = tmp_path / f"{uuid4()}"
+    output_dir = tmp_path / f"{uuid4()}"
     recipe_file = Path("tests/test_data/plot_instant_air_temp.yaml")
-    CSET.operators.execute_recipe(recipe_file, input_file, output_file)
-    actual_output_file = output_file.with_suffix(".svg")
-    assert actual_output_file.exists()
-    actual_output_file.unlink()
+    CSET.operators.execute_recipe(recipe_file, input_file, output_dir)
+    actual_output_file = output_dir / "plot.svg"
+    assert actual_output_file.is_file()
 
 
 def test_postage_stamp_plots(tmp_path: Path):
     """Plot postage stamp plots of ensemble data."""
     input_file = Path("tests/test_data/")
-    output_file = tmp_path / f"{uuid4()}.svg"
+    output_dir = tmp_path / f"{uuid4()}"
     recipe_file = Path("tests/test_data/ensemble_air_temp.yaml")
-    CSET.operators.execute_recipe(recipe_file, input_file, output_file)
-    assert output_file.exists()
+    CSET.operators.execute_recipe(recipe_file, input_file, output_dir)
+    assert output_dir.joinpath("plot.svg").is_file()
 
 
 def test_postage_stamp_realization_check(tmp_path: Path):
diff --git a/tests/test_cli.py b/tests/test_cli.py
index 1326db47e..9122923c2 100644
--- a/tests/test_cli.py
+++ b/tests/test_cli.py
@@ -80,7 +80,7 @@ def test_graph_creation(tmp_path: Path):
         ("cset", "graph", "-o", str(output_file), "tests/test_data/noop_recipe.yaml"),
         check=True,
     )
-    assert output_file.exists()
+    assert output_file.is_file()
     output_file.unlink()
 
 
@@ -95,7 +95,7 @@ def test_graph_creation_env_var(tmp_path: Path):
     # Run with output path specified
     output_file = tmp_path / f"{uuid4()}.svg"
     subprocess.run(("cset", "graph", "-o", str(output_file)), check=True)
-    assert output_file.exists()
+    assert output_file.is_file()
     output_file.unlink()
 
 
@@ -113,18 +113,17 @@ def test_graph_details(tmp_path: Path):
         ),
         check=True,
     )
-    assert output_file.exists()
-    output_file.unlink()
+    assert output_file.is_file()
 
 
 def test_cookbook_cwd():
     """Unpacking the recipes into the current working directory."""
     subprocess.run(["cset", "cookbook"], check=True)
-    assert Path.cwd().joinpath("recipes/extract_instant_air_temp.yaml").exists()
+    assert Path.cwd().joinpath("recipes/extract_instant_air_temp.yaml").is_file()
     shutil.rmtree(Path.cwd().joinpath("recipes"))
 
 
 def test_cookbook_path(tmp_path: Path):
     """Unpacking the recipes into a specified directory."""
     subprocess.run(["cset", "cookbook", tmp_path], check=True)
-    assert (tmp_path / "extract_instant_air_temp.yaml").exists()
+    assert (tmp_path / "extract_instant_air_temp.yaml").is_file()
diff --git a/tests/test_data/ensemble_air_temp.yaml b/tests/test_data/ensemble_air_temp.yaml
index b9d948866..028302f5b 100644
--- a/tests/test_data/ensemble_air_temp.yaml
+++ b/tests/test_data/ensemble_air_temp.yaml
@@ -6,4 +6,4 @@ steps:
       stash: m01s03i236
 
   - operator: plot.postage_stamp_contour_plot
-    file_path: CSET_OUTPUT_PATH
+    filename: plot.svg
diff --git a/tests/test_data/plot_instant_air_temp.yaml b/tests/test_data/plot_instant_air_temp.yaml
index 3aa635d82..b0b5e3acc 100644
--- a/tests/test_data/plot_instant_air_temp.yaml
+++ b/tests/test_data/plot_instant_air_temp.yaml
@@ -24,8 +24,7 @@ steps:
         time_end: 2022-09-21T03:30:00
 
   - operator: write.write_cube_to_nc
-    # This is a magic value that becomes the runtime output file path.
-    file_path: CSET_OUTPUT_PATH
-    plot_data_as_well:
-      operator: plot.spatial_contour_plot
-      file_path: CSET_OUTPUT_PATH
+    file_path: processed_data.nc
+
+  - operator: plot.spatial_contour_plot
+    file_path: plot.svg
diff --git a/tests/test_data/plot_instant_air_temp_collapse.yaml b/tests/test_data/plot_instant_air_temp_collapse.yaml
index 35a19e431..4e3930289 100644
--- a/tests/test_data/plot_instant_air_temp_collapse.yaml
+++ b/tests/test_data/plot_instant_air_temp_collapse.yaml
@@ -24,8 +24,7 @@ steps:
     additional_percent: 90
 
   - operator: write.write_cube_to_nc
-    # This is a magic value that becomes the runtime output file path.
-    file_path: CSET_OUTPUT_PATH
-    plot_data_as_well:
-      operator: plot.spatial_contour_plot
-      file_path: CSET_OUTPUT_PATH
+    filename: processed_data.nc
+
+  - operator: plot.spatial_contour_plot
+    filename: plot.svg
diff --git a/tests/test_recipes.py b/tests/test_recipes.py
index 8a0427140..25186ec13 100644
--- a/tests/test_recipes.py
+++ b/tests/test_recipes.py
@@ -24,7 +24,7 @@
 def test_unpack(tmp_path: Path):
     """Unpack directory containing sub-directories."""
     CSET.recipes._unpack_recipes_from_dir(Path("tests"), tmp_path)
-    assert Path(tmp_path, "test_data/noop_recipe.yaml").exists()
+    assert Path(tmp_path, "test_data/noop_recipe.yaml").is_file()
     # Run again to check that warnings are produced when files collide.
     CSET.recipes._unpack_recipes_from_dir(Path("tests"), tmp_path)
 
diff --git a/tests/test_run_recipes.py b/tests/test_run_recipes.py
index e83024868..6651a055e 100644
--- a/tests/test_run_recipes.py
+++ b/tests/test_run_recipes.py
@@ -49,16 +49,14 @@ def test_get_operator_exception_not_callable():
 def test_execute_recipe(tmp_path: Path):
     """Execute recipe to test happy case (this is really an integration test)."""
     input_file = Path("tests/test_data/air_temp.nc")
-    output_file = tmp_path / f"{uuid4()}.nc"
+    output_dir = tmp_path / f"{uuid4()}"
     recipe_file = Path("tests/test_data/plot_instant_air_temp.yaml")
-    CSET.operators.execute_recipe(recipe_file, input_file, output_file)
-    output_file.unlink()
+    CSET.operators.execute_recipe(recipe_file, input_file, output_dir)
 
 
 def test_execute_recipe_edge_cases(tmp_path: Path):
     """Test weird edge cases. Also tests data paths not being pathlib Paths."""
     input_file = "tests/test_data/air_temp.nc"
-    output_file = tmp_path / f"{uuid4()}.nc"
+    output_dir = tmp_path / f"{uuid4()}"
     recipe = Path("tests/test_data/noop_recipe.yaml")
-    CSET.operators.execute_recipe(recipe, input_file, output_file)
-    # The output_file doesn't actually get written, so doesn't need removing.
+    CSET.operators.execute_recipe(recipe, input_file, output_dir)

From c7f63b2e70e1cae62acced98adec66d9637f676c Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Thu, 16 Nov 2023 15:46:42 +0000
Subject: [PATCH 02/14] Test fixes

---
 src/CSET/operators/__init__.py             | 20 ++++++++++----------
 tests/test_cli.py                          |  7 ++++---
 tests/test_data/plot_instant_air_temp.yaml |  4 ++--
 3 files changed, 16 insertions(+), 15 deletions(-)

diff --git a/src/CSET/operators/__init__.py b/src/CSET/operators/__init__.py
index 86686f79c..6d34b3a1b 100644
--- a/src/CSET/operators/__init__.py
+++ b/src/CSET/operators/__init__.py
@@ -133,22 +133,22 @@ def step_parser(step: dict, step_input: any) -> str:
             return operator(**kwargs)
 
     recipe = parse_recipe(recipe_yaml)
-
-    original_working_directory = Path.cwd()
+    step_input = Path(input_file).absolute()
     try:
         output_directory.mkdir(parents=True, exist_ok=True)
     except FileExistsError as err:
         logging.error("Output directory is a file. %s", output_directory)
         raise err
-    os.chdir(output_directory)
-
-    # Execute the recipe.
-    step_input = input_file
-    for step in recipe["steps"]:
-        step_input = step_parser(step, step_input)
-    logging.info("Recipe output: %s", step_input)
 
-    os.chdir(original_working_directory)
+    original_working_directory = Path.cwd()
+    os.chdir(output_directory)
+    try:
+        # Execute the recipe.
+        for step in recipe["steps"]:
+            step_input = step_parser(step, step_input)
+        logging.info("Recipe output: %s", step_input)
+    finally:
+        os.chdir(original_working_directory)
 
 
 __all__ = [
diff --git a/tests/test_cli.py b/tests/test_cli.py
index 9122923c2..1f3fbe066 100644
--- a/tests/test_cli.py
+++ b/tests/test_cli.py
@@ -20,6 +20,7 @@
 import os
 import shutil
 import subprocess
+import tempfile
 from pathlib import Path
 from uuid import uuid4
 
@@ -27,7 +28,7 @@
 def test_command_line_help():
     """Check that help commands work."""
     subprocess.run(["cset", "--help"], check=True)
-    # test verbose options. This is really just to up the coverage number.
+    # Test verbose options. This is really just to up the coverage number.
     subprocess.run(["cset", "-v"], check=True)
     subprocess.run(["cset", "-vv"], check=True)
     subprocess.run(["cset", "--version"], check=True)
@@ -42,7 +43,7 @@ def test_recipe_execution():
             "cset",
             "bake",
             os.devnull,
-            os.devnull,
+            tempfile.gettempdir(),
             "tests/test_data/noop_recipe.yaml",
         ],
         check=True,
@@ -62,7 +63,7 @@ def test_environ_var_recipe():
             "cset",
             "bake",
             os.devnull,
-            os.devnull,
+            tempfile.gettempdir(),
         ],
         check=True,
     )
diff --git a/tests/test_data/plot_instant_air_temp.yaml b/tests/test_data/plot_instant_air_temp.yaml
index b0b5e3acc..01603d993 100644
--- a/tests/test_data/plot_instant_air_temp.yaml
+++ b/tests/test_data/plot_instant_air_temp.yaml
@@ -24,7 +24,7 @@ steps:
         time_end: 2022-09-21T03:30:00
 
   - operator: write.write_cube_to_nc
-    file_path: processed_data.nc
+    filename: processed_data.nc
 
   - operator: plot.spatial_contour_plot
-    file_path: plot.svg
+    filename: plot.svg

From a9530754e8a0ecd654002efd789da0024040a413 Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Thu, 16 Nov 2023 16:41:28 +0000
Subject: [PATCH 03/14] Add stub time-series contour plot operator

---
 src/CSET/operators/plot.py | 30 ++++++++++++++++++++++++++++--
 1 file changed, 28 insertions(+), 2 deletions(-)

diff --git a/src/CSET/operators/plot.py b/src/CSET/operators/plot.py
index 503cacc6a..f3b876770 100644
--- a/src/CSET/operators/plot.py
+++ b/src/CSET/operators/plot.py
@@ -61,8 +61,7 @@ def _check_single_cube(
 def spatial_contour_plot(
     cube: iris.cube.Cube, filename: Path, **kwargs
 ) -> iris.cube.Cube:
-    """
-    Plot a spatial variable onto a map.
+    """Plot a spatial variable onto a map.
 
     Parameters
     ----------
@@ -147,3 +146,30 @@ def postage_stamp_contour_plot(
     logging.info("Saved contour postage stamp plot to %s", filename)
 
     return cube
+
+
+def time_series_contour_plot(
+    cube: iris.cube.Cube, filename: Path, **kwargs
+) -> iris.cube.Cube:
+    """Plot a spatial variable for all time values.
+
+    The files are named sequentially, e.g. 1.svg, 2.svg, ...
+
+    Parameters
+    ----------
+    cube: Cube
+        An iris cube of the data to plot. It should be 2 dimensional (lat and lon).
+
+    Returns
+    -------
+    Cube
+        The inputted cube (so further operations can be applied)
+
+    Raises
+    ------
+    ValueError
+        If the cube doesn't have the right dimensions.
+    TypeError
+        If cube isn't a Cube.
+    """
+    raise NotImplementedError

From 70c225e2eba14502126e66711265a10a14f32909 Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Fri, 17 Nov 2023 09:53:06 +0000
Subject: [PATCH 04/14] Add mo_pack as dependency

---
 pyproject.toml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/pyproject.toml b/pyproject.toml
index 90b0a9917..46f171db5 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -15,6 +15,7 @@ dependencies = [
     "scitools-iris >= 3.6",
     "ruamel.yaml >= 0.17",
     "pygraphviz >= 1.11",
+    "mo_pack >= 0.3.0",
     "isodate",
 ]
 

From 78bd3061ac504531f8519a0f3da509e060d626b4 Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Mon, 20 Nov 2023 15:47:49 +0000
Subject: [PATCH 05/14] Add ruff as development dependency

---
 requirements/environment.yml | 1 +
 1 file changed, 1 insertion(+)

diff --git a/requirements/environment.yml b/requirements/environment.yml
index 7085481e4..320799af0 100644
--- a/requirements/environment.yml
+++ b/requirements/environment.yml
@@ -17,6 +17,7 @@ dependencies:
   # Development dependencies
   - pre-commit
   - black
+  - ruff
 
   # Testing dependencies
   - tox < 4.0

From c5d9b6128c8fab62e5afc95d477e9dab79bf5df9 Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Mon, 20 Nov 2023 16:07:06 +0000
Subject: [PATCH 06/14] Write out metadata file when running recipes

---
 src/CSET/operators/__init__.py | 14 ++++++++++++++
 1 file changed, 14 insertions(+)

diff --git a/src/CSET/operators/__init__.py b/src/CSET/operators/__init__.py
index 6d34b3a1b..5a5637410 100644
--- a/src/CSET/operators/__init__.py
+++ b/src/CSET/operators/__init__.py
@@ -15,6 +15,7 @@
 """Subpackage contains all of CSET's operators."""
 
 import inspect
+import json
 import logging
 import os
 from pathlib import Path
@@ -77,6 +78,17 @@ def get_operator(name: str):
         raise ValueError(f"Unknown operator: {name}") from err
 
 
+def _write_metadata(recipe: dict):
+    """Write a meta.json file in the CWD, with all recipe keys except steps."""
+    metadata = recipe.copy()
+    del metadata["steps"]
+    with open("meta.json", "wt", encoding="UTF-8") as fp:
+        json.dump(metadata, fp)
+    os.sync()
+    # Stat directory to force NFS to synchronise metadata.
+    os.stat(Path.cwd())
+
+
 def execute_recipe(
     recipe_yaml: Union[Path, str], input_file: Path, output_directory: Path
 ) -> None:
@@ -142,6 +154,8 @@ def step_parser(step: dict, step_input: any) -> str:
 
     original_working_directory = Path.cwd()
     os.chdir(output_directory)
+    # Create metadata file used by some steps.
+    _write_metadata(recipe)
     try:
         # Execute the recipe.
         for step in recipe["steps"]:

From 284f012b9767f53e29af78d35bc2759ec355f0fe Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Mon, 20 Nov 2023 16:59:55 +0000
Subject: [PATCH 07/14] Automatically name plots and written files

Fixes https://github.com/MetOffice/CSET-workflow/issues/124
---
 src/CSET/_common.py                           | 17 ++++++++++++++
 src/CSET/operators/constraints.py             |  2 +-
 src/CSET/operators/plot.py                    | 22 ++++++++++++++-----
 src/CSET/operators/write.py                   | 14 +++++++-----
 src/CSET/recipes/aggregate_precipitation.yaml |  3 ---
 .../recipes/ensemble_3_hour_air_temp.yaml     |  9 --------
 ...mperature_ensemble_postage_stamp_plot.yaml | 20 +++++++++++++++++
 tests/test_common.py                          | 14 ++++++++++++
 8 files changed, 78 insertions(+), 23 deletions(-)
 delete mode 100644 src/CSET/recipes/ensemble_3_hour_air_temp.yaml
 create mode 100644 src/CSET/recipes/initial_time-step_surface_air_temperature_ensemble_postage_stamp_plot.yaml

diff --git a/src/CSET/_common.py b/src/CSET/_common.py
index f38a4218e..57ae992ea 100644
--- a/src/CSET/_common.py
+++ b/src/CSET/_common.py
@@ -15,7 +15,9 @@
 """Common functionality used across CSET."""
 
 import io
+import json
 import logging
+import re
 from pathlib import Path
 from typing import Union
 
@@ -80,3 +82,18 @@ def parse_recipe(recipe_yaml: Union[Path, str]):
         raise err  # pragma: no cover
 
     return recipe
+
+
+def slugify(s: str) -> str:
+    """Turn a string into a version that can be used everywhere.
+
+    The resultant string will only consist of a-z, 0-9, dots, dashes, and
+    underscores.
+    """
+    return re.sub(r"[^a-z0-9\._-]+", "_", s.casefold()).strip("_")
+
+
+def get_recipe_title_slug():
+    """Get the slug of the recipe title for use in file names."""
+    with open("meta.json", "rt", encoding="UTF-8") as fp:
+        return slugify(json.load(fp)["title"])
diff --git a/src/CSET/operators/constraints.py b/src/CSET/operators/constraints.py
index 012c2c629..cc2819ef5 100644
--- a/src/CSET/operators/constraints.py
+++ b/src/CSET/operators/constraints.py
@@ -155,7 +155,7 @@ def combine_constraints(
     Arguments
     ---------
     constraint: iris.Constraint
-        First constraint to combine. This must be named "constraint".
+        First constraint to combine.
     additional_constraint_1: iris.Constraint
         Second constraint to combine. This must be a named argument.
     additional_constraint_2: iris.Constraint
diff --git a/src/CSET/operators/plot.py b/src/CSET/operators/plot.py
index f3b876770..69a3f94c2 100644
--- a/src/CSET/operators/plot.py
+++ b/src/CSET/operators/plot.py
@@ -26,6 +26,8 @@
 import iris.quickplot as qplt
 import matplotlib.pyplot as plt
 
+from CSET._common import get_recipe_title_slug
+
 
 def _check_single_cube(
     cube: Union[iris.cube.Cube, iris.cube.CubeList]
@@ -59,7 +61,7 @@ def _check_single_cube(
 
 
 def spatial_contour_plot(
-    cube: iris.cube.Cube, filename: Path, **kwargs
+    cube: iris.cube.Cube, filename: Path = None, **kwargs
 ) -> iris.cube.Cube:
     """Plot a spatial variable onto a map.
 
@@ -82,16 +84,21 @@ def spatial_contour_plot(
     TypeError
         If cube isn't a Cube.
     """
+    if not filename:
+        filename = get_recipe_title_slug()
+    filename = Path(filename).with_suffix(".svg")
     cube = _check_single_cube(cube)
     qplt.contourf(cube)
-    filename = Path(filename).with_suffix(".svg")
     plt.savefig(filename)
     logging.info("Saved contour plot to %s", filename)
     return cube
 
 
 def postage_stamp_contour_plot(
-    cube: iris.cube.Cube, filename: Path, coordinate: str = "realization", **kwargs
+    cube: iris.cube.Cube,
+    filename: Path = None,
+    coordinate: str = "realization",
+    **kwargs,
 ) -> iris.cube.Cube:
     """Plot postage stamp contour plots from an ensemble.
 
@@ -116,6 +123,10 @@ def postage_stamp_contour_plot(
     TypeError
         If cube isn't a Cube.
     """
+    if not filename:
+        filename = get_recipe_title_slug()
+    filename = Path(filename).with_suffix(".svg")
+
     # Validate input is in the right form.
     cube = _check_single_cube(cube)
     try:
@@ -141,7 +152,6 @@ def postage_stamp_contour_plot(
     colorbar = plt.colorbar(plot, colorbar_axes, orientation="horizontal")
     colorbar.set_label(f"{cube.name()} / {cube.units}")
 
-    filename = Path(filename).with_suffix(".svg")
     plt.savefig(filename)
     logging.info("Saved contour postage stamp plot to %s", filename)
 
@@ -149,7 +159,7 @@ def postage_stamp_contour_plot(
 
 
 def time_series_contour_plot(
-    cube: iris.cube.Cube, filename: Path, **kwargs
+    cube: iris.cube.Cube, filename: Path = None, **kwargs
 ) -> iris.cube.Cube:
     """Plot a spatial variable for all time values.
 
@@ -172,4 +182,6 @@ def time_series_contour_plot(
     TypeError
         If cube isn't a Cube.
     """
+    if not filename:
+        filename = get_recipe_title_slug()
     raise NotImplementedError
diff --git a/src/CSET/operators/write.py b/src/CSET/operators/write.py
index eb1dc27cf..ebcf6ece5 100644
--- a/src/CSET/operators/write.py
+++ b/src/CSET/operators/write.py
@@ -20,9 +20,11 @@
 import iris
 import iris.cube
 
+from CSET._common import get_recipe_title_slug
+
 
 def write_cube_to_nc(
-    cube: Union[iris.cube.Cube, iris.cube.CubeList], filename: Path, **kwargs
+    cube: Union[iris.cube.Cube, iris.cube.CubeList], filename: Path = None, **kwargs
 ) -> str:
     """Write a cube to a NetCDF file.
 
@@ -32,17 +34,19 @@ def write_cube_to_nc(
     Arguments
     ---------
     cube: iris.cube.Cube | iris.cube.CubeList
-        Data to save
-    filename: Path
-        Path to save the cubes too
+        Data to save.
+    filename: Path, optional
+        Path to save the cubes too. Defaults to the recipe title + .nc
 
     Returns
     -------
     Cube | CubeList
         The inputted cube(list) (so further operations can be applied)
     """
+    if not filename:
+        filename = get_recipe_title_slug()
     # Ensure that output filename is a Path with a .nc suffix
     filename = Path(filename).with_suffix(".nc")
     # Save the file as nc compliant (iris should handle this)
-    iris.save(cube, filename)
+    iris.save(cube, filename, zlib=True)
     return cube
diff --git a/src/CSET/recipes/aggregate_precipitation.yaml b/src/CSET/recipes/aggregate_precipitation.yaml
index 1384d3741..3e7759d1d 100644
--- a/src/CSET/recipes/aggregate_precipitation.yaml
+++ b/src/CSET/recipes/aggregate_precipitation.yaml
@@ -23,8 +23,5 @@ steps:
     interval_iso: PT2H
 
   - operator: plot.spatial_contour_plot
-    file_path: CSET_OUTPUT_PATH
 
   - operator: write.write_cube_to_nc
-    # This is a magic value that becomes the runtime output file path.
-    file_path: CSET_OUTPUT_PATH
diff --git a/src/CSET/recipes/ensemble_3_hour_air_temp.yaml b/src/CSET/recipes/ensemble_3_hour_air_temp.yaml
deleted file mode 100644
index b9cfecba7..000000000
--- a/src/CSET/recipes/ensemble_3_hour_air_temp.yaml
+++ /dev/null
@@ -1,9 +0,0 @@
-steps:
-  - operator: read.read_cubes
-    filename_pattern: "*_em*.nc"
-    constraint:
-      operator: constraints.generate_stash_constraint
-      stash: m01s03i236
-
-  - operator: plot.postage_stamp_contour_plot
-    filename: plot.svg
diff --git a/src/CSET/recipes/initial_time-step_surface_air_temperature_ensemble_postage_stamp_plot.yaml b/src/CSET/recipes/initial_time-step_surface_air_temperature_ensemble_postage_stamp_plot.yaml
new file mode 100644
index 000000000..51686f1a9
--- /dev/null
+++ b/src/CSET/recipes/initial_time-step_surface_air_temperature_ensemble_postage_stamp_plot.yaml
@@ -0,0 +1,20 @@
+title: Initial Time-step Surface Air Temperature Ensemble Postage Stamp Plot
+description: |
+  Plots the first time-step from a set of ensemble air temperature files with a
+  filename containing the ensemble member in the form `\*_em\*.nc`.
+
+steps:
+  - operator: read.read_cubes
+    filename_pattern: "*_em*.nc"
+    constraint:
+      operator: constraints.generate_stash_constraint
+      stash: m01s03i236
+
+  - operator: collapse.collapse
+    coordinate: time
+    method: MIN
+
+  - operator: plot.postage_stamp_contour_plot
+    filename: plot.svg
+
+  - operator: write.write_cube_to_nc
diff --git a/tests/test_common.py b/tests/test_common.py
index 004e0c61f..f3b146033 100644
--- a/tests/test_common.py
+++ b/tests/test_common.py
@@ -90,3 +90,17 @@ def test_parse_recipe_exception_non_dict():
     """Test exception for recipe that parses to a non-dict."""
     with pytest.raises(ValueError):
         common.parse_recipe("[]")
+
+
+def test_slugify():
+    """Test slugify removes special characters."""
+    assert common.slugify("Test") == "test"
+    assert (
+        common.slugify("Mean Surface Air Temperature Spatial Plot")
+        == "mean_surface_air_temperature_spatial_plot"
+    )
+    assert common.slugify("file-name.yaml") == "file-name.yaml"
+    assert common.slugify("First Line\nSecond Line") == "first_line_second_line"
+    assert common.slugify("greekαβγδchars") == "greek_chars"
+    assert common.slugify("  ABC ") == "abc"
+    assert common.slugify("あいうえお") == ""

From 11862514413f847ea658a9d9d57bcfe413a9d793 Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Mon, 20 Nov 2023 17:02:28 +0000
Subject: [PATCH 08/14] Ensure automatic filenaming is tested

---
 tests/test_data/plot_instant_air_temp_collapse.yaml | 2 --
 1 file changed, 2 deletions(-)

diff --git a/tests/test_data/plot_instant_air_temp_collapse.yaml b/tests/test_data/plot_instant_air_temp_collapse.yaml
index 4e3930289..29209694a 100644
--- a/tests/test_data/plot_instant_air_temp_collapse.yaml
+++ b/tests/test_data/plot_instant_air_temp_collapse.yaml
@@ -24,7 +24,5 @@ steps:
     additional_percent: 90
 
   - operator: write.write_cube_to_nc
-    filename: processed_data.nc
 
   - operator: plot.spatial_contour_plot
-    filename: plot.svg

From e15d3488137c8880d387e4f660c1f06266ef073f Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Tue, 21 Nov 2023 15:41:48 +0000
Subject: [PATCH 09/14] Generate HTML in plot operator

---
 pyproject.toml               |  1 +
 requirements/environment.yml |  1 +
 src/CSET/_common.py          |  6 +--
 src/CSET/operators/plot.py   | 76 +++++++++++++++++++++++++++++++++---
 src/CSET/operators/write.py  |  4 +-
 5 files changed, 77 insertions(+), 11 deletions(-)

diff --git a/pyproject.toml b/pyproject.toml
index 46f171db5..3f37f5994 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -17,6 +17,7 @@ dependencies = [
     "pygraphviz >= 1.11",
     "mo_pack >= 0.3.0",
     "isodate",
+    "markdown-it-py >= 3.0",
 ]
 
 [project.urls]
diff --git a/requirements/environment.yml b/requirements/environment.yml
index 320799af0..6560c5dfb 100644
--- a/requirements/environment.yml
+++ b/requirements/environment.yml
@@ -9,6 +9,7 @@ dependencies:
   - mo_pack # For handling pp files.
   - pygraphviz
   - isodate
+  - markdown-it-py >= 3.0
 
   # Build dependencies
   - setuptools>=61.0
diff --git a/src/CSET/_common.py b/src/CSET/_common.py
index 57ae992ea..4f320be70 100644
--- a/src/CSET/_common.py
+++ b/src/CSET/_common.py
@@ -93,7 +93,7 @@ def slugify(s: str) -> str:
     return re.sub(r"[^a-z0-9\._-]+", "_", s.casefold()).strip("_")
 
 
-def get_recipe_title_slug():
-    """Get the slug of the recipe title for use in file names."""
+def get_recipe_metadata() -> dict:
+    """Get the metadata of the running recipe."""
     with open("meta.json", "rt", encoding="UTF-8") as fp:
-        return slugify(json.load(fp)["title"])
+        return json.load(fp)
diff --git a/src/CSET/operators/plot.py b/src/CSET/operators/plot.py
index 69a3f94c2..7617940eb 100644
--- a/src/CSET/operators/plot.py
+++ b/src/CSET/operators/plot.py
@@ -25,8 +25,71 @@
 import iris.plot as iplt
 import iris.quickplot as qplt
 import matplotlib.pyplot as plt
-
-from CSET._common import get_recipe_title_slug
+from markdown_it import MarkdownIt
+
+from CSET._common import get_recipe_metadata, slugify
+
+
+def _make_plot_html_page(plot_filename: str) -> None:
+    """Create a HTML page to display a plot image."""
+    meta = get_recipe_metadata()
+    title = meta["title"]
+    description = MarkdownIt().render(meta["description"])
+
+    # Template stylesheet so we don't have to escape the {}.
+    stylesheet = """body {
+  font-family: sans-serif;
+  display: flex;
+  flex-wrap: wrap;
+  justify-content: space-around;
+}
+
+.hidden {
+  display: none;
+}
+
+.plot-container {
+  width: min(95vw, 95vh);
+  > img {
+    width: 100%;
+  }
+}
+
+#description-container {
+  flex: 30ch;
+  max-height: 90vh;
+  max-width: 80ch;
+  margin: 1em;
+  padding: 0 1em;
+  background-color: whitesmoke;
+  box-shadow: 4px 4px 4px grey;
+  outline: darkgrey solid 1px;
+  overflow: auto;
+}
+"""
+
+    html = rf"""<!DOCTYPE html>
+<html lang="en">
+<head>
+    <meta charset="UTF-8">
+    <meta name="viewport" content="width=device-width, initial-scale=1.0">
+    <title>{title}</title>
+    <style>
+        {stylesheet}
+    </style>
+</head>
+<body>
+    <main class="plot-container">
+        <img src="{plot_filename}" alt="plot">
+    </main>
+    <aside id="description-container">
+        <h1>{title}</h1>
+        {description}
+    </aside>
+</body>
+"""
+    with open("index.html", "wt", encoding="UTF-8") as fp:
+        fp.write(html)
 
 
 def _check_single_cube(
@@ -85,12 +148,13 @@ def spatial_contour_plot(
         If cube isn't a Cube.
     """
     if not filename:
-        filename = get_recipe_title_slug()
+        filename = slugify(get_recipe_metadata()["title"])
     filename = Path(filename).with_suffix(".svg")
     cube = _check_single_cube(cube)
     qplt.contourf(cube)
     plt.savefig(filename)
     logging.info("Saved contour plot to %s", filename)
+    _make_plot_html_page(filename)
     return cube
 
 
@@ -124,7 +188,7 @@ def postage_stamp_contour_plot(
         If cube isn't a Cube.
     """
     if not filename:
-        filename = get_recipe_title_slug()
+        filename = slugify(get_recipe_metadata()["title"])
     filename = Path(filename).with_suffix(".svg")
 
     # Validate input is in the right form.
@@ -154,7 +218,7 @@ def postage_stamp_contour_plot(
 
     plt.savefig(filename)
     logging.info("Saved contour postage stamp plot to %s", filename)
-
+    _make_plot_html_page(filename)
     return cube
 
 
@@ -183,5 +247,5 @@ def time_series_contour_plot(
         If cube isn't a Cube.
     """
     if not filename:
-        filename = get_recipe_title_slug()
+        filename = slugify(get_recipe_metadata()["title"])
     raise NotImplementedError
diff --git a/src/CSET/operators/write.py b/src/CSET/operators/write.py
index ebcf6ece5..eeaf285f8 100644
--- a/src/CSET/operators/write.py
+++ b/src/CSET/operators/write.py
@@ -20,7 +20,7 @@
 import iris
 import iris.cube
 
-from CSET._common import get_recipe_title_slug
+from CSET._common import get_recipe_metadata, slugify
 
 
 def write_cube_to_nc(
@@ -44,7 +44,7 @@ def write_cube_to_nc(
         The inputted cube(list) (so further operations can be applied)
     """
     if not filename:
-        filename = get_recipe_title_slug()
+        filename = slugify(get_recipe_metadata()["title"])
     # Ensure that output filename is a Path with a .nc suffix
     filename = Path(filename).with_suffix(".nc")
     # Save the file as nc compliant (iris should handle this)

From 53ee32d053342907337fed8b8d95f4e06736df05 Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Tue, 21 Nov 2023 15:49:35 +0000
Subject: [PATCH 10/14] Handle unspecified metadata

---
 src/CSET/operators/plot.py  | 10 +++++-----
 src/CSET/operators/write.py |  2 +-
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/src/CSET/operators/plot.py b/src/CSET/operators/plot.py
index 7617940eb..b200e807e 100644
--- a/src/CSET/operators/plot.py
+++ b/src/CSET/operators/plot.py
@@ -33,8 +33,8 @@
 def _make_plot_html_page(plot_filename: str) -> None:
     """Create a HTML page to display a plot image."""
     meta = get_recipe_metadata()
-    title = meta["title"]
-    description = MarkdownIt().render(meta["description"])
+    title = meta.get("title", "Untitled")
+    description = MarkdownIt().render(meta.get("description", ""))
 
     # Template stylesheet so we don't have to escape the {}.
     stylesheet = """body {
@@ -148,7 +148,7 @@ def spatial_contour_plot(
         If cube isn't a Cube.
     """
     if not filename:
-        filename = slugify(get_recipe_metadata()["title"])
+        filename = slugify(get_recipe_metadata().get("title", "Untitled"))
     filename = Path(filename).with_suffix(".svg")
     cube = _check_single_cube(cube)
     qplt.contourf(cube)
@@ -188,7 +188,7 @@ def postage_stamp_contour_plot(
         If cube isn't a Cube.
     """
     if not filename:
-        filename = slugify(get_recipe_metadata()["title"])
+        filename = slugify(get_recipe_metadata().get("title", "Untitled"))
     filename = Path(filename).with_suffix(".svg")
 
     # Validate input is in the right form.
@@ -247,5 +247,5 @@ def time_series_contour_plot(
         If cube isn't a Cube.
     """
     if not filename:
-        filename = slugify(get_recipe_metadata()["title"])
+        filename = slugify(get_recipe_metadata().get("title", "Untitled"))
     raise NotImplementedError
diff --git a/src/CSET/operators/write.py b/src/CSET/operators/write.py
index eeaf285f8..6052f01b9 100644
--- a/src/CSET/operators/write.py
+++ b/src/CSET/operators/write.py
@@ -44,7 +44,7 @@ def write_cube_to_nc(
         The inputted cube(list) (so further operations can be applied)
     """
     if not filename:
-        filename = slugify(get_recipe_metadata()["title"])
+        filename = slugify(get_recipe_metadata().get("title", "Untitled"))
     # Ensure that output filename is a Path with a .nc suffix
     filename = Path(filename).with_suffix(".nc")
     # Save the file as nc compliant (iris should handle this)

From 7b3f2b8aede4b3e53275bd25d77e9e7a6f8c9774 Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Thu, 23 Nov 2023 11:25:11 +0000
Subject: [PATCH 11/14] Don't use CSS nesting due to support old browsers

---
 src/CSET/operators/plot.py | 12 +++++-------
 1 file changed, 5 insertions(+), 7 deletions(-)

diff --git a/src/CSET/operators/plot.py b/src/CSET/operators/plot.py
index b200e807e..ac1983035 100644
--- a/src/CSET/operators/plot.py
+++ b/src/CSET/operators/plot.py
@@ -42,24 +42,22 @@ def _make_plot_html_page(plot_filename: str) -> None:
   display: flex;
   flex-wrap: wrap;
   justify-content: space-around;
+  margin: 0;
 }
-
 .hidden {
   display: none;
 }
-
 .plot-container {
   width: min(95vw, 95vh);
-  > img {
-    width: 100%;
-  }
 }
-
+.plot-container>img {
+  width: 100%;
+}
 #description-container {
   flex: 30ch;
   max-height: 90vh;
   max-width: 80ch;
-  margin: 1em;
+  margin: min(1em, 5vh);
   padding: 0 1em;
   background-color: whitesmoke;
   box-shadow: 4px 4px 4px grey;

From 0398bcf41475a289ad1e3e41e3a512becea4b7f3 Mon Sep 17 00:00:00 2001
From: jfrost-mo <jfrost-mo@users.noreply.github.com>
Date: Thu, 23 Nov 2023 14:19:02 +0000
Subject: [PATCH 12/14] [CI] Update conda lock files

---
 requirements/locks/py310-lock-linux-64.txt | 31 ++++++++++++----------
 requirements/locks/py311-lock-linux-64.txt | 31 ++++++++++++----------
 requirements/locks/py312-lock-linux-64.txt | 31 ++++++++++++----------
 requirements/locks/py39-lock-linux-64.txt  | 31 ++++++++++++----------
 4 files changed, 68 insertions(+), 56 deletions(-)

diff --git a/requirements/locks/py310-lock-linux-64.txt b/requirements/locks/py310-lock-linux-64.txt
index 85a68ef67..5e68029d4 100644
--- a/requirements/locks/py310-lock-linux-64.txt
+++ b/requirements/locks/py310-lock-linux-64.txt
@@ -1,6 +1,6 @@
 # Generated by conda-lock.
 # platform: linux-64
-# input_hash: 5d0d2545ac3255e4f9045616cbc9dac927012f154808af7d295721558d507c73
+# input_hash: 842904ffd08b0703e4cfc17991e80b01b831ab882fcd7de15d2c7f8c546c57ac
 @EXPLICIT
 https://conda.anaconda.org/conda-forge/linux-64/_libgcc_mutex-0.1-conda_forge.tar.bz2#d7c89558ba9fa0495403155b64376d81
 https://conda.anaconda.org/conda-forge/linux-64/ca-certificates-2023.11.17-hbcca054_0.conda#01ffc8d36f9eba0ce0b3c1955fa780ee
@@ -18,7 +18,7 @@ https://conda.anaconda.org/conda-forge/linux-64/_openmp_mutex-4.5-2_gnu.tar.bz2#
 https://conda.anaconda.org/conda-forge/noarch/fonts-conda-ecosystem-1-0.tar.bz2#fee5683a3f04bd15cbd8318b096a27ab
 https://conda.anaconda.org/conda-forge/linux-64/libgcc-ng-13.2.0-h807b86a_3.conda#23fdf1fef05baeb7eadc2aed5fb0011f
 https://conda.anaconda.org/conda-forge/linux-64/bzip2-1.0.8-hd590300_5.conda#69b8b6202a07720f448be700e300ccf4
-https://conda.anaconda.org/conda-forge/linux-64/c-ares-1.21.0-hd590300_0.conda#c06fa0440048270817b9e3142cc661bf
+https://conda.anaconda.org/conda-forge/linux-64/c-ares-1.22.1-hd590300_0.conda#8430bd266c7b2cfbda403f7585d5ee86
 https://conda.anaconda.org/conda-forge/linux-64/fribidi-1.0.10-h36c2ea0_0.tar.bz2#ac7bc6a654f8f41b352b38f4051135f8
 https://conda.anaconda.org/conda-forge/linux-64/geos-3.12.0-h59595ed_0.conda#3fdf79ef322c8379ae83be491d805369
 https://conda.anaconda.org/conda-forge/linux-64/gettext-0.21.1-h27087fc_0.tar.bz2#14947d8770185e5153fdd04d4673ed37
@@ -66,7 +66,7 @@ https://conda.anaconda.org/conda-forge/linux-64/libedit-3.1.20191231-he28a2e2_2.
 https://conda.anaconda.org/conda-forge/linux-64/libgfortran-ng-13.2.0-h69a702a_3.conda#73031c79546ad06f1fe62e57fdd021bc
 https://conda.anaconda.org/conda-forge/linux-64/libnghttp2-1.58.0-h47da74e_0.conda#9b13d5ee90fc9f09d54fd403247342b4
 https://conda.anaconda.org/conda-forge/linux-64/libpng-1.6.39-h753d276_0.conda#e1c890aebdebbfbf87e2c917187b4416
-https://conda.anaconda.org/conda-forge/linux-64/libsqlite-3.44.0-h2797004_0.conda#b58e6816d137f3aabf77d341dd5d732b
+https://conda.anaconda.org/conda-forge/linux-64/libsqlite-3.44.1-h2797004_0.conda#b4ad86d2527b890e43ff2efc68b239f4
 https://conda.anaconda.org/conda-forge/linux-64/libssh2-1.11.0-h0841786_0.conda#1f5a58e686b13bcfde88b93f547d23fe
 https://conda.anaconda.org/conda-forge/linux-64/libudunits2-2.2.28-h40f5838_3.conda#4bdace082e911a3e1f1f0b721bed5b56
 https://conda.anaconda.org/conda-forge/linux-64/libxcb-1.15-h0b41bf4_0.conda#33277193f5b92bad9fdd230eb700929c
@@ -83,10 +83,10 @@ https://conda.anaconda.org/conda-forge/linux-64/brotli-bin-1.1.0-hd590300_1.cond
 https://conda.anaconda.org/conda-forge/linux-64/freetype-2.12.1-h267a509_2.conda#9ae35c3d96db2c94ce0cef86efdfa2cb
 https://conda.anaconda.org/conda-forge/linux-64/krb5-1.21.2-h659d440_0.conda#cd95826dbd331ed1be26bdf401432844
 https://conda.anaconda.org/conda-forge/linux-64/libglib-2.78.1-h783c2da_1.conda#70052d6c1e84643e30ffefb21ab6950f
-https://conda.anaconda.org/conda-forge/linux-64/libopenblas-0.3.24-pthreads_h413a1c8_0.conda#6e4ef6ca28655124dcde9bd500e44c32
+https://conda.anaconda.org/conda-forge/linux-64/libopenblas-0.3.25-pthreads_h413a1c8_0.conda#d172b34a443b95f86089e8229ddc9a17
 https://conda.anaconda.org/conda-forge/linux-64/libtiff-4.6.0-ha9c0a0a_2.conda#55ed21669b2015f77c180feb1dd41930
 https://conda.anaconda.org/conda-forge/linux-64/python-3.10.13-hd12c33a_0_cpython.conda#f3a8c32aa764c3e7188b4b810fc9d6ce
-https://conda.anaconda.org/conda-forge/linux-64/sqlite-3.44.0-h2c6b66d_0.conda#df56c636df4a98990462d66ac7be2330
+https://conda.anaconda.org/conda-forge/linux-64/sqlite-3.44.1-h2c6b66d_0.conda#cf535736bb0de7bf388dbfd2d6a50f53
 https://conda.anaconda.org/conda-forge/linux-64/udunits2-2.2.28-h40f5838_3.conda#6bb8deb138f87c9d48320ac21b87e7a1
 https://conda.anaconda.org/conda-forge/linux-64/xorg-libx11-1.8.7-h8ee46fc_0.conda#49e482d882669206653b095f5206c05b
 https://conda.anaconda.org/conda-forge/noarch/alabaster-0.7.13-pyhd8ed1ab_0.conda#06006184e203b61d3525f90de394471e
@@ -103,7 +103,7 @@ https://conda.anaconda.org/conda-forge/noarch/colorama-0.4.6-pyhd8ed1ab_0.tar.bz
 https://conda.anaconda.org/conda-forge/noarch/cycler-0.12.1-pyhd8ed1ab_0.conda#5cd86562580f274031ede6aa6aa24441
 https://conda.anaconda.org/conda-forge/noarch/distlib-0.3.7-pyhd8ed1ab_0.conda#12d8aae6994f342618443a8f05c652a0
 https://conda.anaconda.org/conda-forge/linux-64/docutils-0.20.1-py310hff52083_2.conda#ac157d9b464d15fac78b13fcabc0f845
-https://conda.anaconda.org/conda-forge/noarch/exceptiongroup-1.1.3-pyhd8ed1ab_0.conda#e6518222753f519e911e83136d2158d9
+https://conda.anaconda.org/conda-forge/noarch/exceptiongroup-1.2.0-pyhd8ed1ab_0.conda#f6c211fee3c98229652b60a9a42ef363
 https://conda.anaconda.org/conda-forge/noarch/filelock-3.13.1-pyhd8ed1ab_0.conda#0c1729b74a8152fde6a38ba0a2ab9f45
 https://conda.anaconda.org/conda-forge/linux-64/fontconfig-2.14.2-h14ed4e7_0.conda#0f69b688f52ff6da70bccb7ff7001d1d
 https://conda.anaconda.org/conda-forge/noarch/fsspec-2023.10.0-pyhca7485f_0.conda#5b86cf1ceaaa9be2ec4627377e538db1
@@ -114,11 +114,12 @@ https://conda.anaconda.org/conda-forge/noarch/imagesize-1.4.1-pyhd8ed1ab_0.tar.b
 https://conda.anaconda.org/conda-forge/noarch/iniconfig-2.0.0-pyhd8ed1ab_0.conda#f800d2da156d08e289b14e87e43c1ae5
 https://conda.anaconda.org/conda-forge/linux-64/kiwisolver-1.4.5-py310hd41b1e2_1.conda#b8d67603d43b23ce7e988a5d81a7ab79
 https://conda.anaconda.org/conda-forge/linux-64/lcms2-2.15-hb7c19ff_3.conda#e96637dd92c5f340215c753a5c9a22d7
-https://conda.anaconda.org/conda-forge/linux-64/libblas-3.9.0-19_linux64_openblas.conda#420f4e9be59d0dc9133a0f43f7bab3f3
+https://conda.anaconda.org/conda-forge/linux-64/libblas-3.9.0-20_linux64_openblas.conda#2b7bb4f7562c8cf334fc2e20c2d28abc
 https://conda.anaconda.org/conda-forge/linux-64/libcurl-8.4.0-hca28451_0.conda#1158ac1d2613b28685644931f11ee807
 https://conda.anaconda.org/conda-forge/linux-64/libwebp-1.3.2-h658648e_1.conda#0ebb65e8d86843865796c7c95a941f34
 https://conda.anaconda.org/conda-forge/noarch/locket-1.0.0-pyhd8ed1ab_0.tar.bz2#91e27ef3d05cc772ce627e51cff111c4
 https://conda.anaconda.org/conda-forge/linux-64/markupsafe-2.1.3-py310h2372a71_1.conda#b74e07a054c479e45a83a83fc5be713c
+https://conda.anaconda.org/conda-forge/noarch/mdurl-0.1.0-pyhd8ed1ab_0.tar.bz2#f8dab71fdc13b1bf29a01248b156d268
 https://conda.anaconda.org/conda-forge/noarch/munkres-1.1.4-pyh9f0ad1d_0.tar.bz2#2ba8498c1018c1e9c61eb99b973dfe19
 https://conda.anaconda.org/conda-forge/noarch/mypy_extensions-1.0.0-pyha770c72_0.conda#4eccaeba205f0aed9ac3a9ea58568ca3
 https://conda.anaconda.org/conda-forge/linux-64/openjpeg-2.5.0-h488ebb8_3.conda#128c25b7fe6a25286a48f3a6a9b5b6f3
@@ -127,7 +128,7 @@ https://conda.anaconda.org/conda-forge/noarch/pathspec-0.11.2-pyhd8ed1ab_0.conda
 https://conda.anaconda.org/conda-forge/noarch/pluggy-1.3.0-pyhd8ed1ab_0.conda#2390bd10bed1f3fdc7a537fb5a447d8d
 https://conda.anaconda.org/conda-forge/noarch/py-1.11.0-pyh6c4a22f_0.tar.bz2#b4613d7e7a493916d867842a6a148054
 https://conda.anaconda.org/conda-forge/noarch/pycparser-2.21-pyhd8ed1ab_0.tar.bz2#076becd9e05608f8dc72757d5f3a91ff
-https://conda.anaconda.org/conda-forge/noarch/pygments-2.17.0-pyhd8ed1ab_0.conda#33598684e190a91fa5b4ec82b546778d
+https://conda.anaconda.org/conda-forge/noarch/pygments-2.17.2-pyhd8ed1ab_0.conda#140a7f159396547e9799aa98f9f0742e
 https://conda.anaconda.org/conda-forge/noarch/pyparsing-3.1.1-pyhd8ed1ab_0.conda#176f7d56f0cfe9008bdf1bccd7de02fb
 https://conda.anaconda.org/conda-forge/noarch/pyshp-2.3.1-pyhd8ed1ab_0.tar.bz2#92a889dc236a5197612bc85bee6d7174
 https://conda.anaconda.org/conda-forge/noarch/pysocks-1.7.1-pyha2e5f31_6.tar.bz2#2a7de29fb590ca14b5243c4c812c8025
@@ -135,6 +136,7 @@ https://conda.anaconda.org/conda-forge/linux-64/python-xxhash-3.4.1-py310h2372a7
 https://conda.anaconda.org/conda-forge/noarch/pytz-2023.3.post1-pyhd8ed1ab_0.conda#c93346b446cd08c169d843ae5fc0da97
 https://conda.anaconda.org/conda-forge/linux-64/pyyaml-6.0.1-py310h2372a71_1.conda#bb010e368de4940771368bc3dc4c63e7
 https://conda.anaconda.org/conda-forge/linux-64/ruamel.yaml.clib-0.2.7-py310h2372a71_2.conda#7c9da9721ee545d57ad759f020172853
+https://conda.anaconda.org/conda-forge/linux-64/ruff-0.1.6-py310h3d77a66_0.conda#6e9f417149948f5d623cc650f4537be9
 https://conda.anaconda.org/conda-forge/noarch/setuptools-68.2.2-pyhd8ed1ab_0.conda#fc2166155db840c634a1291a5c35a709
 https://conda.anaconda.org/conda-forge/noarch/six-1.16.0-pyh6c4a22f_0.tar.bz2#e5f25f8dbc060e9a8d912e432202afc2
 https://conda.anaconda.org/conda-forge/noarch/snowballstemmer-2.2.0-pyhd8ed1ab_0.tar.bz2#4d22a9315e78c6827f806065957d566e
@@ -154,14 +156,15 @@ https://conda.anaconda.org/conda-forge/noarch/beautifulsoup4-4.12.2-pyha770c72_0
 https://conda.anaconda.org/conda-forge/linux-64/cairo-1.18.0-h3faef2a_0.conda#f907bb958910dc404647326ca80c263e
 https://conda.anaconda.org/conda-forge/linux-64/cffi-1.16.0-py310h2fee648_0.conda#45846a970e71ac98fd327da5d40a0a2c
 https://conda.anaconda.org/conda-forge/linux-64/coverage-7.3.2-py310h2372a71_0.conda#33c03cd5711885c920ddff676fb84f98
-https://conda.anaconda.org/conda-forge/linux-64/fonttools-4.44.3-py310h2372a71_0.conda#b4bfb11c034c257e20159e9001cd8e28
+https://conda.anaconda.org/conda-forge/linux-64/fonttools-4.45.1-py310h2372a71_0.conda#c2dcff257e040bcda00e2a30a9d85333
 https://conda.anaconda.org/conda-forge/linux-64/hdf5-1.14.2-nompi_h4f84152_100.conda#2de6a9bc8083b49f09b2f6eb28d3ba3c
 https://conda.anaconda.org/conda-forge/noarch/importlib-metadata-6.8.0-pyha770c72_0.conda#4e9f59a060c3be52bc4ddc46ee9b6946
 https://conda.anaconda.org/conda-forge/noarch/isodate-0.6.1-pyhd8ed1ab_0.tar.bz2#4a62c93c1b5c0b920508ae3fd285eaf5
 https://conda.anaconda.org/conda-forge/noarch/jinja2-3.1.2-pyhd8ed1ab_1.tar.bz2#c8490ed5c70966d232fdd389d0dbed37
-https://conda.anaconda.org/conda-forge/linux-64/libcblas-3.9.0-19_linux64_openblas.conda#d12374af44575413fbbd4a217d46ea33
+https://conda.anaconda.org/conda-forge/linux-64/libcblas-3.9.0-20_linux64_openblas.conda#36d486d72ab64ffea932329a1d3729a3
 https://conda.anaconda.org/conda-forge/linux-64/libgd-2.3.3-h119a65a_9.conda#cfebc557e54905dadc355c0e9f003004
-https://conda.anaconda.org/conda-forge/linux-64/liblapack-3.9.0-19_linux64_openblas.conda#9f100edf65436e3eabc2a51fc00b2c37
+https://conda.anaconda.org/conda-forge/linux-64/liblapack-3.9.0-20_linux64_openblas.conda#6fabc51f5e647d09cc010c40061557e0
+https://conda.anaconda.org/conda-forge/noarch/markdown-it-py-3.0.0-pyhd8ed1ab_0.conda#93a8e71256479c62074356ef6ebf501b
 https://conda.anaconda.org/conda-forge/noarch/nodeenv-1.8.0-pyhd8ed1ab_0.conda#2a75b296096adabbabadd5e9782e5fcc
 https://conda.anaconda.org/conda-forge/noarch/partd-1.4.1-pyhd8ed1ab_0.conda#acf4b7c0bcd5fa3b0e05801c4d2accd6
 https://conda.anaconda.org/conda-forge/linux-64/pillow-10.1.0-py310h01dd4db_0.conda#95d87a906d88b5824d7d36eeef091dba
@@ -194,15 +197,15 @@ https://conda.anaconda.org/conda-forge/noarch/virtualenv-20.24.6-pyhd8ed1ab_0.co
 https://conda.anaconda.org/conda-forge/linux-64/cf-units-3.2.0-py310h1f7b6fc_4.conda#0ca55ca20891d393846695354b32ebc5
 https://conda.anaconda.org/conda-forge/linux-64/gtk2-2.24.33-h90689f9_2.tar.bz2#957a0255ab58aaf394a91725d73ab422
 https://conda.anaconda.org/conda-forge/linux-64/librsvg-2.56.3-h98fae49_0.conda#620e754f4344f4c27259ff460a2b9c50
-https://conda.anaconda.org/conda-forge/linux-64/matplotlib-base-3.8.1-py310h62c0568_0.conda#e650bd952e5618050ccb088bc0c6dfb4
+https://conda.anaconda.org/conda-forge/linux-64/matplotlib-base-3.8.2-py310h62c0568_0.conda#3cbbc7d0b54df02c9a006d3de14911d9
 https://conda.anaconda.org/conda-forge/linux-64/netcdf4-1.6.5-nompi_py310hba70d50_100.conda#e19392760c7e4da3b9cb0ee5bf61bc4b
 https://conda.anaconda.org/conda-forge/noarch/pre-commit-3.5.0-pyha770c72_0.conda#964e3d762e427661c59263435a14c492
 https://conda.anaconda.org/conda-forge/noarch/tox-3.27.1-pyhd8ed1ab_0.tar.bz2#62b743e1030b17163c70654601afb60d
 https://conda.anaconda.org/conda-forge/linux-64/cartopy-0.22.0-py310hcc13569_1.conda#31ef447724fb19066a9d00a660dab1bd
-https://conda.anaconda.org/conda-forge/linux-64/graphviz-8.1.0-h28d9a01_0.conda#33628e0e3de7afd2c8172f76439894cb
+https://conda.anaconda.org/conda-forge/linux-64/graphviz-9.0.0-h28d9a01_0.conda#32cde7a2ac1ca255ed2a926d548b9d6c
 https://conda.anaconda.org/conda-forge/noarch/tox-conda-0.9.2-pyhd8ed1ab_0.tar.bz2#8494c2ad4bef7bfe2e2d8603b4c2a185
 https://conda.anaconda.org/conda-forge/noarch/iris-3.7.0-pyha770c72_0.conda#dccc1f660bf455c239adaabf56b91dc9
-https://conda.anaconda.org/conda-forge/linux-64/pygraphviz-1.11-py310h91ff30a_1.conda#bfd594dcd60b78ce03e65103144567c3
+https://conda.anaconda.org/conda-forge/linux-64/pygraphviz-1.11-py310h31db22a_2.conda#9cb14eb945de9ffe216b547f90d08f64
 https://conda.anaconda.org/conda-forge/noarch/sphinx-basic-ng-1.0.0b2-pyhd8ed1ab_1.conda#a631f5c7b7f5045448f966ad71aa2881
 https://conda.anaconda.org/conda-forge/noarch/furo-2023.9.10-pyhd8ed1ab_0.conda#0dcfacf6d3e49f2957c69c81356cf892
 https://conda.anaconda.org/conda-forge/noarch/sphinxcontrib-applehelp-1.0.7-pyhd8ed1ab_0.conda#aebfabcb60c33a89c1f9290cab49bc93
diff --git a/requirements/locks/py311-lock-linux-64.txt b/requirements/locks/py311-lock-linux-64.txt
index 6cce013ef..e32296391 100644
--- a/requirements/locks/py311-lock-linux-64.txt
+++ b/requirements/locks/py311-lock-linux-64.txt
@@ -1,6 +1,6 @@
 # Generated by conda-lock.
 # platform: linux-64
-# input_hash: f3aa8893be8cc1034fdf84686e12a938785cec12a99d28fd52635533b3992809
+# input_hash: b5f29690e8746320e50397c7a8ed926e7b30f205758cbb1bd91edd0aa75daf2f
 @EXPLICIT
 https://conda.anaconda.org/conda-forge/linux-64/_libgcc_mutex-0.1-conda_forge.tar.bz2#d7c89558ba9fa0495403155b64376d81
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@@ -18,7 +18,7 @@ https://conda.anaconda.org/conda-forge/linux-64/_openmp_mutex-4.5-2_gnu.tar.bz2#
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@@ -66,7 +66,7 @@ https://conda.anaconda.org/conda-forge/linux-64/libedit-3.1.20191231-he28a2e2_2.
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@@ -83,10 +83,10 @@ https://conda.anaconda.org/conda-forge/linux-64/brotli-bin-1.1.0-hd590300_1.cond
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@@ -103,7 +103,7 @@ https://conda.anaconda.org/conda-forge/noarch/colorama-0.4.6-pyhd8ed1ab_0.tar.bz
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@@ -114,11 +114,12 @@ https://conda.anaconda.org/conda-forge/noarch/imagesize-1.4.1-pyhd8ed1ab_0.tar.b
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+https://conda.anaconda.org/conda-forge/linux-64/libblas-3.9.0-20_linux64_openblas.conda#2b7bb4f7562c8cf334fc2e20c2d28abc
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@@ -127,7 +128,7 @@ https://conda.anaconda.org/conda-forge/noarch/pathspec-0.11.2-pyhd8ed1ab_0.conda
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-https://conda.anaconda.org/conda-forge/noarch/pygments-2.17.0-pyhd8ed1ab_0.conda#33598684e190a91fa5b4ec82b546778d
+https://conda.anaconda.org/conda-forge/noarch/pygments-2.17.2-pyhd8ed1ab_0.conda#140a7f159396547e9799aa98f9f0742e
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@@ -135,6 +136,7 @@ https://conda.anaconda.org/conda-forge/linux-64/python-xxhash-3.4.1-py311h459d7e
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+https://conda.anaconda.org/conda-forge/linux-64/ruff-0.1.6-py311h7145743_0.conda#aff8387edd5157da054c4b46cc38ffdc
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@@ -153,14 +155,15 @@ https://conda.anaconda.org/conda-forge/noarch/beautifulsoup4-4.12.2-pyha770c72_0
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+https://conda.anaconda.org/conda-forge/linux-64/matplotlib-base-3.8.2-py311h54ef318_0.conda#9f80753bc008bfc9b95f39d9ff9f1694
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diff --git a/requirements/locks/py312-lock-linux-64.txt b/requirements/locks/py312-lock-linux-64.txt
index a1226bbf7..b735011f9 100644
--- a/requirements/locks/py312-lock-linux-64.txt
+++ b/requirements/locks/py312-lock-linux-64.txt
@@ -1,6 +1,6 @@
 # Generated by conda-lock.
 # platform: linux-64
-# input_hash: 3188d91717c24356904e95603e2116e940c1ea0f420715e05d754e4577f7c24b
+# input_hash: aab05fa0c24defb4081c76d8726ac62442f235d55b6bffd06bf50dcc102865c4
 @EXPLICIT
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@@ -83,10 +83,10 @@ https://conda.anaconda.org/conda-forge/linux-64/brotli-bin-1.1.0-hd590300_1.cond
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+https://conda.anaconda.org/conda-forge/linux-64/libopenblas-0.3.25-pthreads_h413a1c8_0.conda#d172b34a443b95f86089e8229ddc9a17
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-https://conda.anaconda.org/conda-forge/linux-64/sqlite-3.44.0-h2c6b66d_0.conda#df56c636df4a98990462d66ac7be2330
+https://conda.anaconda.org/conda-forge/linux-64/sqlite-3.44.1-h2c6b66d_0.conda#cf535736bb0de7bf388dbfd2d6a50f53
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@@ -103,7 +103,7 @@ https://conda.anaconda.org/conda-forge/noarch/colorama-0.4.6-pyhd8ed1ab_0.tar.bz
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-https://conda.anaconda.org/conda-forge/noarch/exceptiongroup-1.1.3-pyhd8ed1ab_0.conda#e6518222753f519e911e83136d2158d9
+https://conda.anaconda.org/conda-forge/noarch/exceptiongroup-1.2.0-pyhd8ed1ab_0.conda#f6c211fee3c98229652b60a9a42ef363
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 https://conda.anaconda.org/conda-forge/noarch/fsspec-2023.10.0-pyhca7485f_0.conda#5b86cf1ceaaa9be2ec4627377e538db1
@@ -114,11 +114,12 @@ https://conda.anaconda.org/conda-forge/noarch/imagesize-1.4.1-pyhd8ed1ab_0.tar.b
 https://conda.anaconda.org/conda-forge/noarch/iniconfig-2.0.0-pyhd8ed1ab_0.conda#f800d2da156d08e289b14e87e43c1ae5
 https://conda.anaconda.org/conda-forge/linux-64/kiwisolver-1.4.5-py312h8572e83_1.conda#c1e71f2bc05d8e8e033aefac2c490d05
 https://conda.anaconda.org/conda-forge/linux-64/lcms2-2.15-hb7c19ff_3.conda#e96637dd92c5f340215c753a5c9a22d7
-https://conda.anaconda.org/conda-forge/linux-64/libblas-3.9.0-19_linux64_openblas.conda#420f4e9be59d0dc9133a0f43f7bab3f3
+https://conda.anaconda.org/conda-forge/linux-64/libblas-3.9.0-20_linux64_openblas.conda#2b7bb4f7562c8cf334fc2e20c2d28abc
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 https://conda.anaconda.org/conda-forge/linux-64/markupsafe-2.1.3-py312h98912ed_1.conda#79d118a8f1da01773dd5b334af5ce8d4
+https://conda.anaconda.org/conda-forge/noarch/mdurl-0.1.0-pyhd8ed1ab_0.tar.bz2#f8dab71fdc13b1bf29a01248b156d268
 https://conda.anaconda.org/conda-forge/noarch/munkres-1.1.4-pyh9f0ad1d_0.tar.bz2#2ba8498c1018c1e9c61eb99b973dfe19
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@@ -127,7 +128,7 @@ https://conda.anaconda.org/conda-forge/noarch/pathspec-0.11.2-pyhd8ed1ab_0.conda
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 https://conda.anaconda.org/conda-forge/noarch/pycparser-2.21-pyhd8ed1ab_0.tar.bz2#076becd9e05608f8dc72757d5f3a91ff
-https://conda.anaconda.org/conda-forge/noarch/pygments-2.17.0-pyhd8ed1ab_0.conda#33598684e190a91fa5b4ec82b546778d
+https://conda.anaconda.org/conda-forge/noarch/pygments-2.17.2-pyhd8ed1ab_0.conda#140a7f159396547e9799aa98f9f0742e
 https://conda.anaconda.org/conda-forge/noarch/pyparsing-3.1.1-pyhd8ed1ab_0.conda#176f7d56f0cfe9008bdf1bccd7de02fb
 https://conda.anaconda.org/conda-forge/noarch/pyshp-2.3.1-pyhd8ed1ab_0.tar.bz2#92a889dc236a5197612bc85bee6d7174
 https://conda.anaconda.org/conda-forge/noarch/pysocks-1.7.1-pyha2e5f31_6.tar.bz2#2a7de29fb590ca14b5243c4c812c8025
@@ -135,6 +136,7 @@ https://conda.anaconda.org/conda-forge/linux-64/python-xxhash-3.4.1-py312h98912e
 https://conda.anaconda.org/conda-forge/noarch/pytz-2023.3.post1-pyhd8ed1ab_0.conda#c93346b446cd08c169d843ae5fc0da97
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 https://conda.anaconda.org/conda-forge/linux-64/ruamel.yaml.clib-0.2.7-py312h98912ed_2.conda#17591efb6a03e1dea6567cb15c619d1c
+https://conda.anaconda.org/conda-forge/linux-64/ruff-0.1.6-py312h9118e91_0.conda#c708eafa346ff11e7db95e8a840235cb
 https://conda.anaconda.org/conda-forge/noarch/setuptools-68.2.2-pyhd8ed1ab_0.conda#fc2166155db840c634a1291a5c35a709
 https://conda.anaconda.org/conda-forge/noarch/six-1.16.0-pyh6c4a22f_0.tar.bz2#e5f25f8dbc060e9a8d912e432202afc2
 https://conda.anaconda.org/conda-forge/noarch/snowballstemmer-2.2.0-pyhd8ed1ab_0.tar.bz2#4d22a9315e78c6827f806065957d566e
@@ -153,14 +155,15 @@ https://conda.anaconda.org/conda-forge/noarch/beautifulsoup4-4.12.2-pyha770c72_0
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 https://conda.anaconda.org/conda-forge/linux-64/coverage-7.3.2-py312h98912ed_0.conda#b248b512221477e79e600c3b9368c7d0
-https://conda.anaconda.org/conda-forge/linux-64/fonttools-4.44.3-py312h98912ed_0.conda#ceae07376754cd9cccc54719999df20c
+https://conda.anaconda.org/conda-forge/linux-64/fonttools-4.45.1-py312h98912ed_0.conda#c7fc51c5a349dc323012bdce734b88a0
 https://conda.anaconda.org/conda-forge/linux-64/hdf5-1.14.2-nompi_h4f84152_100.conda#2de6a9bc8083b49f09b2f6eb28d3ba3c
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-https://conda.anaconda.org/conda-forge/linux-64/libcblas-3.9.0-19_linux64_openblas.conda#d12374af44575413fbbd4a217d46ea33
+https://conda.anaconda.org/conda-forge/linux-64/libcblas-3.9.0-20_linux64_openblas.conda#36d486d72ab64ffea932329a1d3729a3
 https://conda.anaconda.org/conda-forge/linux-64/libgd-2.3.3-h119a65a_9.conda#cfebc557e54905dadc355c0e9f003004
-https://conda.anaconda.org/conda-forge/linux-64/liblapack-3.9.0-19_linux64_openblas.conda#9f100edf65436e3eabc2a51fc00b2c37
+https://conda.anaconda.org/conda-forge/linux-64/liblapack-3.9.0-20_linux64_openblas.conda#6fabc51f5e647d09cc010c40061557e0
+https://conda.anaconda.org/conda-forge/noarch/markdown-it-py-3.0.0-pyhd8ed1ab_0.conda#93a8e71256479c62074356ef6ebf501b
 https://conda.anaconda.org/conda-forge/noarch/nodeenv-1.8.0-pyhd8ed1ab_0.conda#2a75b296096adabbabadd5e9782e5fcc
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@@ -193,15 +196,15 @@ https://conda.anaconda.org/conda-forge/noarch/virtualenv-20.24.6-pyhd8ed1ab_0.co
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+https://conda.anaconda.org/conda-forge/linux-64/matplotlib-base-3.8.2-py312he5832f3_0.conda#1bf345f8df6896b5a8016f16188946ba
 https://conda.anaconda.org/conda-forge/linux-64/netcdf4-1.6.5-nompi_py312h26027e0_100.conda#2d7b4954dc5a090796e0ba89c325d09b
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+https://conda.anaconda.org/conda-forge/linux-64/graphviz-9.0.0-h28d9a01_0.conda#32cde7a2ac1ca255ed2a926d548b9d6c
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+https://conda.anaconda.org/conda-forge/linux-64/pygraphviz-1.11-py312h7a1eb4d_2.conda#d68cf48ff74d75294900253fd9aa0c07
 https://conda.anaconda.org/conda-forge/noarch/sphinx-basic-ng-1.0.0b2-pyhd8ed1ab_1.conda#a631f5c7b7f5045448f966ad71aa2881
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diff --git a/requirements/locks/py39-lock-linux-64.txt b/requirements/locks/py39-lock-linux-64.txt
index d493495a8..1f1d15386 100644
--- a/requirements/locks/py39-lock-linux-64.txt
+++ b/requirements/locks/py39-lock-linux-64.txt
@@ -1,6 +1,6 @@
 # Generated by conda-lock.
 # platform: linux-64
-# input_hash: c2c4394ff39079ce37d87cd0a1a80aa5baa62993d86e1d8b3c4cf4d2b67e67ba
+# input_hash: 8619f0bb2bd1b8f699af028d948f8949ff093da00d1a294e59e6564c5ed70e24
 @EXPLICIT
 https://conda.anaconda.org/conda-forge/linux-64/_libgcc_mutex-0.1-conda_forge.tar.bz2#d7c89558ba9fa0495403155b64376d81
 https://conda.anaconda.org/conda-forge/linux-64/ca-certificates-2023.11.17-hbcca054_0.conda#01ffc8d36f9eba0ce0b3c1955fa780ee
@@ -18,7 +18,7 @@ https://conda.anaconda.org/conda-forge/linux-64/_openmp_mutex-4.5-2_gnu.tar.bz2#
 https://conda.anaconda.org/conda-forge/noarch/fonts-conda-ecosystem-1-0.tar.bz2#fee5683a3f04bd15cbd8318b096a27ab
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 https://conda.anaconda.org/conda-forge/linux-64/bzip2-1.0.8-hd590300_5.conda#69b8b6202a07720f448be700e300ccf4
-https://conda.anaconda.org/conda-forge/linux-64/c-ares-1.21.0-hd590300_0.conda#c06fa0440048270817b9e3142cc661bf
+https://conda.anaconda.org/conda-forge/linux-64/c-ares-1.22.1-hd590300_0.conda#8430bd266c7b2cfbda403f7585d5ee86
 https://conda.anaconda.org/conda-forge/linux-64/fribidi-1.0.10-h36c2ea0_0.tar.bz2#ac7bc6a654f8f41b352b38f4051135f8
 https://conda.anaconda.org/conda-forge/linux-64/geos-3.12.0-h59595ed_0.conda#3fdf79ef322c8379ae83be491d805369
 https://conda.anaconda.org/conda-forge/linux-64/gettext-0.21.1-h27087fc_0.tar.bz2#14947d8770185e5153fdd04d4673ed37
@@ -66,7 +66,7 @@ https://conda.anaconda.org/conda-forge/linux-64/libedit-3.1.20191231-he28a2e2_2.
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-https://conda.anaconda.org/conda-forge/linux-64/libsqlite-3.44.0-h2797004_0.conda#b58e6816d137f3aabf77d341dd5d732b
+https://conda.anaconda.org/conda-forge/linux-64/libsqlite-3.44.1-h2797004_0.conda#b4ad86d2527b890e43ff2efc68b239f4
 https://conda.anaconda.org/conda-forge/linux-64/libssh2-1.11.0-h0841786_0.conda#1f5a58e686b13bcfde88b93f547d23fe
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@@ -83,10 +83,10 @@ https://conda.anaconda.org/conda-forge/linux-64/brotli-bin-1.1.0-hd590300_1.cond
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+https://conda.anaconda.org/conda-forge/linux-64/libopenblas-0.3.25-pthreads_h413a1c8_0.conda#d172b34a443b95f86089e8229ddc9a17
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-https://conda.anaconda.org/conda-forge/linux-64/sqlite-3.44.0-h2c6b66d_0.conda#df56c636df4a98990462d66ac7be2330
+https://conda.anaconda.org/conda-forge/linux-64/sqlite-3.44.1-h2c6b66d_0.conda#cf535736bb0de7bf388dbfd2d6a50f53
 https://conda.anaconda.org/conda-forge/linux-64/udunits2-2.2.28-h40f5838_3.conda#6bb8deb138f87c9d48320ac21b87e7a1
 https://conda.anaconda.org/conda-forge/linux-64/xorg-libx11-1.8.7-h8ee46fc_0.conda#49e482d882669206653b095f5206c05b
 https://conda.anaconda.org/conda-forge/noarch/alabaster-0.7.13-pyhd8ed1ab_0.conda#06006184e203b61d3525f90de394471e
@@ -103,7 +103,7 @@ https://conda.anaconda.org/conda-forge/noarch/colorama-0.4.6-pyhd8ed1ab_0.tar.bz
 https://conda.anaconda.org/conda-forge/noarch/cycler-0.12.1-pyhd8ed1ab_0.conda#5cd86562580f274031ede6aa6aa24441
 https://conda.anaconda.org/conda-forge/noarch/distlib-0.3.7-pyhd8ed1ab_0.conda#12d8aae6994f342618443a8f05c652a0
 https://conda.anaconda.org/conda-forge/linux-64/docutils-0.20.1-py39hf3d152e_2.conda#8effc3913cfe3a29f2a89cda29bbff04
-https://conda.anaconda.org/conda-forge/noarch/exceptiongroup-1.1.3-pyhd8ed1ab_0.conda#e6518222753f519e911e83136d2158d9
+https://conda.anaconda.org/conda-forge/noarch/exceptiongroup-1.2.0-pyhd8ed1ab_0.conda#f6c211fee3c98229652b60a9a42ef363
 https://conda.anaconda.org/conda-forge/noarch/filelock-3.13.1-pyhd8ed1ab_0.conda#0c1729b74a8152fde6a38ba0a2ab9f45
 https://conda.anaconda.org/conda-forge/linux-64/fontconfig-2.14.2-h14ed4e7_0.conda#0f69b688f52ff6da70bccb7ff7001d1d
 https://conda.anaconda.org/conda-forge/noarch/fsspec-2023.10.0-pyhca7485f_0.conda#5b86cf1ceaaa9be2ec4627377e538db1
@@ -114,11 +114,12 @@ https://conda.anaconda.org/conda-forge/noarch/imagesize-1.4.1-pyhd8ed1ab_0.tar.b
 https://conda.anaconda.org/conda-forge/noarch/iniconfig-2.0.0-pyhd8ed1ab_0.conda#f800d2da156d08e289b14e87e43c1ae5
 https://conda.anaconda.org/conda-forge/linux-64/kiwisolver-1.4.5-py39h7633fee_1.conda#c9f74d717e5a2847a9f8b779c54130f2
 https://conda.anaconda.org/conda-forge/linux-64/lcms2-2.15-hb7c19ff_3.conda#e96637dd92c5f340215c753a5c9a22d7
-https://conda.anaconda.org/conda-forge/linux-64/libblas-3.9.0-19_linux64_openblas.conda#420f4e9be59d0dc9133a0f43f7bab3f3
+https://conda.anaconda.org/conda-forge/linux-64/libblas-3.9.0-20_linux64_openblas.conda#2b7bb4f7562c8cf334fc2e20c2d28abc
 https://conda.anaconda.org/conda-forge/linux-64/libcurl-8.4.0-hca28451_0.conda#1158ac1d2613b28685644931f11ee807
 https://conda.anaconda.org/conda-forge/linux-64/libwebp-1.3.2-h658648e_1.conda#0ebb65e8d86843865796c7c95a941f34
 https://conda.anaconda.org/conda-forge/noarch/locket-1.0.0-pyhd8ed1ab_0.tar.bz2#91e27ef3d05cc772ce627e51cff111c4
 https://conda.anaconda.org/conda-forge/linux-64/markupsafe-2.1.3-py39hd1e30aa_1.conda#ee2b4665b852ec6ff2758f3c1b91233d
+https://conda.anaconda.org/conda-forge/noarch/mdurl-0.1.0-pyhd8ed1ab_0.tar.bz2#f8dab71fdc13b1bf29a01248b156d268
 https://conda.anaconda.org/conda-forge/noarch/munkres-1.1.4-pyh9f0ad1d_0.tar.bz2#2ba8498c1018c1e9c61eb99b973dfe19
 https://conda.anaconda.org/conda-forge/noarch/mypy_extensions-1.0.0-pyha770c72_0.conda#4eccaeba205f0aed9ac3a9ea58568ca3
 https://conda.anaconda.org/conda-forge/linux-64/openjpeg-2.5.0-h488ebb8_3.conda#128c25b7fe6a25286a48f3a6a9b5b6f3
@@ -127,7 +128,7 @@ https://conda.anaconda.org/conda-forge/noarch/pathspec-0.11.2-pyhd8ed1ab_0.conda
 https://conda.anaconda.org/conda-forge/noarch/pluggy-1.3.0-pyhd8ed1ab_0.conda#2390bd10bed1f3fdc7a537fb5a447d8d
 https://conda.anaconda.org/conda-forge/noarch/py-1.11.0-pyh6c4a22f_0.tar.bz2#b4613d7e7a493916d867842a6a148054
 https://conda.anaconda.org/conda-forge/noarch/pycparser-2.21-pyhd8ed1ab_0.tar.bz2#076becd9e05608f8dc72757d5f3a91ff
-https://conda.anaconda.org/conda-forge/noarch/pygments-2.17.0-pyhd8ed1ab_0.conda#33598684e190a91fa5b4ec82b546778d
+https://conda.anaconda.org/conda-forge/noarch/pygments-2.17.2-pyhd8ed1ab_0.conda#140a7f159396547e9799aa98f9f0742e
 https://conda.anaconda.org/conda-forge/noarch/pyparsing-3.1.1-pyhd8ed1ab_0.conda#176f7d56f0cfe9008bdf1bccd7de02fb
 https://conda.anaconda.org/conda-forge/noarch/pyshp-2.3.1-pyhd8ed1ab_0.tar.bz2#92a889dc236a5197612bc85bee6d7174
 https://conda.anaconda.org/conda-forge/noarch/pysocks-1.7.1-pyha2e5f31_6.tar.bz2#2a7de29fb590ca14b5243c4c812c8025
@@ -135,6 +136,7 @@ https://conda.anaconda.org/conda-forge/linux-64/python-xxhash-3.4.1-py39hd1e30aa
 https://conda.anaconda.org/conda-forge/noarch/pytz-2023.3.post1-pyhd8ed1ab_0.conda#c93346b446cd08c169d843ae5fc0da97
 https://conda.anaconda.org/conda-forge/linux-64/pyyaml-6.0.1-py39hd1e30aa_1.conda#37218233bcdc310e4fde6453bc1b40d8
 https://conda.anaconda.org/conda-forge/linux-64/ruamel.yaml.clib-0.2.7-py39hd1e30aa_2.conda#743d996a1af8502f27770fadfd418434
+https://conda.anaconda.org/conda-forge/linux-64/ruff-0.1.6-py39h7efa1f9_0.conda#aa75a9e12a4a4b8f217f121cd733bf71
 https://conda.anaconda.org/conda-forge/noarch/setuptools-68.2.2-pyhd8ed1ab_0.conda#fc2166155db840c634a1291a5c35a709
 https://conda.anaconda.org/conda-forge/noarch/six-1.16.0-pyh6c4a22f_0.tar.bz2#e5f25f8dbc060e9a8d912e432202afc2
 https://conda.anaconda.org/conda-forge/noarch/snowballstemmer-2.2.0-pyhd8ed1ab_0.tar.bz2#4d22a9315e78c6827f806065957d566e
@@ -154,15 +156,16 @@ https://conda.anaconda.org/conda-forge/noarch/beautifulsoup4-4.12.2-pyha770c72_0
 https://conda.anaconda.org/conda-forge/linux-64/cairo-1.18.0-h3faef2a_0.conda#f907bb958910dc404647326ca80c263e
 https://conda.anaconda.org/conda-forge/linux-64/cffi-1.16.0-py39h7a31438_0.conda#ac992767d7f8ed2cb27e71e78f0fb2d7
 https://conda.anaconda.org/conda-forge/linux-64/coverage-7.3.2-py39hd1e30aa_0.conda#247a02e7fdc7049c6d1babdb7bca4aaa
-https://conda.anaconda.org/conda-forge/linux-64/fonttools-4.44.3-py39hd1e30aa_0.conda#873fb1d81f9e9220d605c6b05a96544c
+https://conda.anaconda.org/conda-forge/linux-64/fonttools-4.45.1-py39hd1e30aa_0.conda#616bc0b442acefebdbe97c7b885d771e
 https://conda.anaconda.org/conda-forge/linux-64/hdf5-1.14.2-nompi_h4f84152_100.conda#2de6a9bc8083b49f09b2f6eb28d3ba3c
 https://conda.anaconda.org/conda-forge/noarch/importlib-metadata-6.8.0-pyha770c72_0.conda#4e9f59a060c3be52bc4ddc46ee9b6946
 https://conda.anaconda.org/conda-forge/noarch/importlib_resources-6.1.1-pyhd8ed1ab_0.conda#3d5fa25cf42f3f32a12b2d874ace8574
 https://conda.anaconda.org/conda-forge/noarch/isodate-0.6.1-pyhd8ed1ab_0.tar.bz2#4a62c93c1b5c0b920508ae3fd285eaf5
 https://conda.anaconda.org/conda-forge/noarch/jinja2-3.1.2-pyhd8ed1ab_1.tar.bz2#c8490ed5c70966d232fdd389d0dbed37
-https://conda.anaconda.org/conda-forge/linux-64/libcblas-3.9.0-19_linux64_openblas.conda#d12374af44575413fbbd4a217d46ea33
+https://conda.anaconda.org/conda-forge/linux-64/libcblas-3.9.0-20_linux64_openblas.conda#36d486d72ab64ffea932329a1d3729a3
 https://conda.anaconda.org/conda-forge/linux-64/libgd-2.3.3-h119a65a_9.conda#cfebc557e54905dadc355c0e9f003004
-https://conda.anaconda.org/conda-forge/linux-64/liblapack-3.9.0-19_linux64_openblas.conda#9f100edf65436e3eabc2a51fc00b2c37
+https://conda.anaconda.org/conda-forge/linux-64/liblapack-3.9.0-20_linux64_openblas.conda#6fabc51f5e647d09cc010c40061557e0
+https://conda.anaconda.org/conda-forge/noarch/markdown-it-py-3.0.0-pyhd8ed1ab_0.conda#93a8e71256479c62074356ef6ebf501b
 https://conda.anaconda.org/conda-forge/noarch/nodeenv-1.8.0-pyhd8ed1ab_0.conda#2a75b296096adabbabadd5e9782e5fcc
 https://conda.anaconda.org/conda-forge/noarch/partd-1.4.1-pyhd8ed1ab_0.conda#acf4b7c0bcd5fa3b0e05801c4d2accd6
 https://conda.anaconda.org/conda-forge/linux-64/pillow-10.1.0-py39had0adad_0.conda#eeaa413fddccecb2ab7f747bdb55b07f
@@ -196,15 +199,15 @@ https://conda.anaconda.org/conda-forge/noarch/virtualenv-20.24.6-pyhd8ed1ab_0.co
 https://conda.anaconda.org/conda-forge/linux-64/cf-units-3.2.0-py39h44dd56e_4.conda#81310d21bf9d91754c1220c585bb72d6
 https://conda.anaconda.org/conda-forge/linux-64/gtk2-2.24.33-h90689f9_2.tar.bz2#957a0255ab58aaf394a91725d73ab422
 https://conda.anaconda.org/conda-forge/linux-64/librsvg-2.56.3-h98fae49_0.conda#620e754f4344f4c27259ff460a2b9c50
-https://conda.anaconda.org/conda-forge/linux-64/matplotlib-base-3.8.1-py39he9076e7_0.conda#89615b866cb3b0d8ad4e2a11e2bcf9a0
+https://conda.anaconda.org/conda-forge/linux-64/matplotlib-base-3.8.2-py39he9076e7_0.conda#6085411aa2f0b2b801d3b46e1d3b83c5
 https://conda.anaconda.org/conda-forge/linux-64/netcdf4-1.6.5-nompi_py39h4282601_100.conda#d2809fbf0d8ae7b8ca92c456cb44a7d4
 https://conda.anaconda.org/conda-forge/noarch/pre-commit-3.5.0-pyha770c72_0.conda#964e3d762e427661c59263435a14c492
 https://conda.anaconda.org/conda-forge/noarch/tox-3.27.1-pyhd8ed1ab_0.tar.bz2#62b743e1030b17163c70654601afb60d
 https://conda.anaconda.org/conda-forge/linux-64/cartopy-0.22.0-py39hddac248_1.conda#8dd2eb1e7aa9a33a92a75bdcea3f0dd0
-https://conda.anaconda.org/conda-forge/linux-64/graphviz-8.1.0-h28d9a01_0.conda#33628e0e3de7afd2c8172f76439894cb
+https://conda.anaconda.org/conda-forge/linux-64/graphviz-9.0.0-h28d9a01_0.conda#32cde7a2ac1ca255ed2a926d548b9d6c
 https://conda.anaconda.org/conda-forge/noarch/tox-conda-0.9.2-pyhd8ed1ab_0.tar.bz2#8494c2ad4bef7bfe2e2d8603b4c2a185
 https://conda.anaconda.org/conda-forge/noarch/iris-3.7.0-pyha770c72_0.conda#dccc1f660bf455c239adaabf56b91dc9
-https://conda.anaconda.org/conda-forge/linux-64/pygraphviz-1.11-py39hfb1e1f0_1.conda#e5b670d58e3006e8a03bd6a56098c44d
+https://conda.anaconda.org/conda-forge/linux-64/pygraphviz-1.11-py39h7ef11f9_2.conda#0eab4d12fd2bab26e0ca5aec2d822c0a
 https://conda.anaconda.org/conda-forge/noarch/sphinx-basic-ng-1.0.0b2-pyhd8ed1ab_1.conda#a631f5c7b7f5045448f966ad71aa2881
 https://conda.anaconda.org/conda-forge/noarch/furo-2023.9.10-pyhd8ed1ab_0.conda#0dcfacf6d3e49f2957c69c81356cf892
 https://conda.anaconda.org/conda-forge/noarch/sphinxcontrib-applehelp-1.0.7-pyhd8ed1ab_0.conda#aebfabcb60c33a89c1f9290cab49bc93

From ee69331992d16cdf7dbd4085343b39f21d2245ea Mon Sep 17 00:00:00 2001
From: Sylvia Bohnenstengel
 <62748926+Sylviabohnenstengel@users.noreply.github.com>
Date: Thu, 23 Nov 2023 14:46:16 +0000
Subject: [PATCH 13/14] Update plot.py

subtle change
---
 src/CSET/operators/plot.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/src/CSET/operators/plot.py b/src/CSET/operators/plot.py
index ac1983035..d54f6a3d1 100644
--- a/src/CSET/operators/plot.py
+++ b/src/CSET/operators/plot.py
@@ -235,7 +235,7 @@ def time_series_contour_plot(
     Returns
     -------
     Cube
-        The inputted cube (so further operations can be applied)
+        The input cube (so further operations can be applied)
 
     Raises
     ------

From eb54edcd987509b781c9ce8d9ab327c683c024d5 Mon Sep 17 00:00:00 2001
From: James Frost <james.frost@metoffice.gov.uk>
Date: Thu, 23 Nov 2023 15:07:30 +0000
Subject: [PATCH 14/14] Docstring tweak

---
 src/CSET/operators/plot.py | 19 +++++++++++--------
 1 file changed, 11 insertions(+), 8 deletions(-)

diff --git a/src/CSET/operators/plot.py b/src/CSET/operators/plot.py
index d54f6a3d1..19de19e7a 100644
--- a/src/CSET/operators/plot.py
+++ b/src/CSET/operators/plot.py
@@ -130,13 +130,13 @@ def spatial_contour_plot(
     ----------
     cube: Cube
         An iris cube of the data to plot. It should be 2 dimensional (lat and lon).
-    filename: pathlike
-        The path of the plot to write.
+    filename: pathlike, optional
+        The path of the plot to write. Defaults to the recipe name.
 
     Returns
     -------
     Cube
-        The inputted cube (so further operations can be applied)
+        The original cube (so further operations can be applied)
 
     Raises
     ------
@@ -168,15 +168,15 @@ def postage_stamp_contour_plot(
     ----------
     cube: Cube
         Iris cube of data to be plotted. It must have a realization coordinate.
-    filename: pathlike
-        The path of the plot to write.
+    filename: pathlike, optional
+        The path of the plot to write. Defaults to the recipe name.
     coordinate: str
         The coordinate that becomes different plots. Defaults to "realization".
 
     Returns
     -------
     Cube
-        The inputted cube (so further operations can be applied)
+        The original cube (so further operations can be applied)
 
     Raises
     ------
@@ -230,12 +230,15 @@ def time_series_contour_plot(
     Parameters
     ----------
     cube: Cube
-        An iris cube of the data to plot. It should be 2 dimensional (lat and lon).
+        An iris cube of the data to plot. It should be 2 dimensional (lat and
+        lon).
+    filename: pathlike, optional
+        Common component of the plot filenames. Defaults to the recipe name.
 
     Returns
     -------
     Cube
-        The input cube (so further operations can be applied)
+        The original cube (so further operations can be applied)
 
     Raises
     ------