[skip ci] Updates

OpenDrift · Aug 22, 2024 · b28a8ae · b28a8ae
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diff --git a/.buildinfo b/.buildinfo
@@ -1,4 +1,4 @@
 # Sphinx build info version 1
 # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
-config: 961236987da095f2b89aae0ccf5de8be
+config: 6e54e2140df77ecc7afe898df21f952a
 tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/_downloads/029881e221949484b26146d507a804ad/example_depth.zip b/_downloads/029881e221949484b26146d507a804ad/example_depth.zip
diff --git a/_downloads/033af0d93f9b09e836d807ac3b9561f7/example_relative.zip b/_downloads/033af0d93f9b09e836d807ac3b9561f7/example_relative.zip
diff --git a/_downloads/053b8b00e60c7fece7f7aff0a68521f8/example_oil_verticalmixing.zip b/_downloads/053b8b00e60c7fece7f7aff0a68521f8/example_oil_verticalmixing.zip
diff --git a/_downloads/0f924af619246b5eb8bbb3b1416da11f/example_checkerboard.zip b/_downloads/0f924af619246b5eb8bbb3b1416da11f/example_checkerboard.zip
diff --git a/_downloads/12323c17693ac6b1a46fd45c87dba9f4/example_river_runoff.zip b/_downloads/12323c17693ac6b1a46fd45c87dba9f4/example_river_runoff.zip
diff --git a/_downloads/1921a56b43c069f0ee75d875d1350ea9/example_eulerdrift_norkyst.zip b/_downloads/1921a56b43c069f0ee75d875d1350ea9/example_eulerdrift_norkyst.zip
diff --git a/_downloads/1e1bba607769b3f663de8fe1c2ecb874/example_grid_time.zip b/_downloads/1e1bba607769b3f663de8fe1c2ecb874/example_grid_time.zip
diff --git a/_downloads/1e965db755ac760751848acdb71bc467/example_oil_ice.zip b/_downloads/1e965db755ac760751848acdb71bc467/example_oil_ice.zip
diff --git a/_downloads/1ee21c1c9da59a051056e26d628ae8c4/example_rungekutta_norkyst.zip b/_downloads/1ee21c1c9da59a051056e26d628ae8c4/example_rungekutta_norkyst.zip
diff --git a/_downloads/277bc7a8b45fa070871b2cc55c9d8b70/example_schism_native.zip b/_downloads/277bc7a8b45fa070871b2cc55c9d8b70/example_schism_native.zip
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diff --git a/_downloads/3e1891a00b762309cf481b6d46b3d8bf/example_reader_boundary.zip b/_downloads/3e1891a00b762309cf481b6d46b3d8bf/example_reader_boundary.zip
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diff --git a/_downloads/40c1bf26eb9c91246c7e7678c2a1a1f3/example_chemicaldrift.zip b/_downloads/40c1bf26eb9c91246c7e7678c2a1a1f3/example_chemicaldrift.zip
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diff --git a/_downloads/47f8632ba955814362b594cdfe79728d/example_long_global_thredds.zip b/_downloads/47f8632ba955814362b594cdfe79728d/example_long_global_thredds.zip
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diff --git a/_downloads/55c56f11981bc8994b23dd67ccffd4ea/example_larvae.zip b/_downloads/55c56f11981bc8994b23dd67ccffd4ea/example_larvae.zip
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diff --git a/_downloads/74bbdecc9b43573def05356fd17d47a9/example_compare_oilbudgets.zip b/_downloads/74bbdecc9b43573def05356fd17d47a9/example_compare_oilbudgets.zip
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diff --git a/...loads/7e80e31e6c97c2ef0aff4bdebab277de/example_wind_drift_coefficient_from_trajectory.zip b/...loads/7e80e31e6c97c2ef0aff4bdebab277de/example_wind_drift_coefficient_from_trajectory.zip
diff --git a/_downloads/80232020e698aa1c3db016afe427fe84/example_openoil.zip b/_downloads/80232020e698aa1c3db016afe427fe84/example_openoil.zip
diff --git a/_downloads/82130a81132586982fb4a0a0c18d9ebb/example_coastline_options.zip b/_downloads/82130a81132586982fb4a0a0c18d9ebb/example_coastline_options.zip
diff --git a/_downloads/836e6f7e2cc742f7cd4789d7d1ed4302/example_biodegradation.zip b/_downloads/836e6f7e2cc742f7cd4789d7d1ed4302/example_biodegradation.zip
diff --git a/_downloads/838aeedbd6bf9f4ea6ea3789d94e546a/example_fjord.zip b/_downloads/838aeedbd6bf9f4ea6ea3789d94e546a/example_fjord.zip
diff --git a/_downloads/85cf52470116f3e3cbc8ce8017629f43/example_roms_native.zip b/_downloads/85cf52470116f3e3cbc8ce8017629f43/example_roms_native.zip
diff --git a/_downloads/88c41376e9019965854675edef72677d/example_oil_budget_noaa.zip b/_downloads/88c41376e9019965854675edef72677d/example_oil_budget_noaa.zip
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diff --git a/_downloads/9279195b7d521d2dd58211cf2d1ee7e2/example_codegg.zip b/_downloads/9279195b7d521d2dd58211cf2d1ee7e2/example_codegg.zip
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diff --git a/_images/example_sediments_resuspension_0.gif b/_images/example_sediments_resuspension_0.gif
diff --git a/_images/example_seed_from_shapefile_0.gif b/_images/example_seed_from_shapefile_0.gif
diff --git a/_images/example_shipdrift_0.gif b/_images/example_shipdrift_0.gif
diff --git a/_images/example_shipdrift_leeway_0.gif b/_images/example_shipdrift_leeway_0.gif
diff --git a/_images/example_static_2d_current_0.gif b/_images/example_static_2d_current_0.gif
diff --git a/_images/sphx_glr_example_2d_001.png b/_images/sphx_glr_example_2d_001.png
diff --git a/_images/sphx_glr_example_2d_thumb.png b/_images/sphx_glr_example_2d_thumb.png
diff --git a/_images/sphx_glr_example_advection_schemes_eddy_001.png b/_images/sphx_glr_example_advection_schemes_eddy_001.png
diff --git a/_images/sphx_glr_example_advection_schemes_eddy_thumb.png b/_images/sphx_glr_example_advection_schemes_eddy_thumb.png
diff --git a/_images/sphx_glr_example_biodegradation_001.png b/_images/sphx_glr_example_biodegradation_001.png
diff --git a/_images/sphx_glr_example_biodegradation_thumb.png b/_images/sphx_glr_example_biodegradation_thumb.png
diff --git a/_images/sphx_glr_example_chemicaldrift_001.png b/_images/sphx_glr_example_chemicaldrift_001.png
diff --git a/_images/sphx_glr_example_chemicaldrift_thumb.png b/_images/sphx_glr_example_chemicaldrift_thumb.png
diff --git a/_images/sphx_glr_example_codegg_001.png b/_images/sphx_glr_example_codegg_001.png
diff --git a/_images/sphx_glr_example_codegg_thumb.png b/_images/sphx_glr_example_codegg_thumb.png
diff --git a/_images/sphx_glr_example_cone_001.png b/_images/sphx_glr_example_cone_001.png
diff --git a/_images/sphx_glr_example_cone_thumb.png b/_images/sphx_glr_example_cone_thumb.png
diff --git a/_images/sphx_glr_example_depth_001.png b/_images/sphx_glr_example_depth_001.png
diff --git a/_images/sphx_glr_example_depth_thumb.png b/_images/sphx_glr_example_depth_thumb.png
diff --git a/_images/sphx_glr_example_ensemble_001.png b/_images/sphx_glr_example_ensemble_001.png
diff --git a/_images/sphx_glr_example_ensemble_thumb.png b/_images/sphx_glr_example_ensemble_thumb.png
diff --git a/_images/sphx_glr_example_entrainment_rate_oil_types_001.png b/_images/sphx_glr_example_entrainment_rate_oil_types_001.png
diff --git a/_images/sphx_glr_example_entrainment_rate_oil_types_002.png b/_images/sphx_glr_example_entrainment_rate_oil_types_002.png
diff --git a/_images/sphx_glr_example_entrainment_rate_oil_types_thumb.png b/_images/sphx_glr_example_entrainment_rate_oil_types_thumb.png
diff --git a/_images/sphx_glr_example_huge_output_001.png b/_images/sphx_glr_example_huge_output_001.png
diff --git a/_images/sphx_glr_example_huge_output_thumb.png b/_images/sphx_glr_example_huge_output_thumb.png
diff --git a/_images/sphx_glr_example_oil_ice_001.png b/_images/sphx_glr_example_oil_ice_001.png
diff --git a/_images/sphx_glr_example_oil_ice_thumb.png b/_images/sphx_glr_example_oil_ice_thumb.png
diff --git a/_images/sphx_glr_example_oil_thickness_001.png b/_images/sphx_glr_example_oil_thickness_001.png
diff --git a/_images/sphx_glr_example_oil_thickness_002.png b/_images/sphx_glr_example_oil_thickness_002.png
diff --git a/_images/sphx_glr_example_oil_thickness_thumb.png b/_images/sphx_glr_example_oil_thickness_thumb.png
diff --git a/_images/sphx_glr_example_oil_verticalmixing_001.png b/_images/sphx_glr_example_oil_verticalmixing_001.png
diff --git a/_images/sphx_glr_example_oil_verticalmixing_002.png b/_images/sphx_glr_example_oil_verticalmixing_002.png
diff --git a/_images/sphx_glr_example_oil_verticalmixing_003.png b/_images/sphx_glr_example_oil_verticalmixing_003.png
diff --git a/_images/sphx_glr_example_oil_verticalmixing_thumb.png b/_images/sphx_glr_example_oil_verticalmixing_thumb.png
diff --git a/_images/sphx_glr_example_oilspill_seafloor_biodegradation_001.png b/_images/sphx_glr_example_oilspill_seafloor_biodegradation_001.png
diff --git a/_images/sphx_glr_example_oilspill_seafloor_biodegradation_002.png b/_images/sphx_glr_example_oilspill_seafloor_biodegradation_002.png
diff --git a/_images/sphx_glr_example_oilspill_seafloor_biodegradation_thumb.png b/_images/sphx_glr_example_oilspill_seafloor_biodegradation_thumb.png
diff --git a/_images/sphx_glr_example_openberg_001.png b/_images/sphx_glr_example_openberg_001.png
diff --git a/_images/sphx_glr_example_openberg_002.png b/_images/sphx_glr_example_openberg_002.png
diff --git a/_images/sphx_glr_example_openberg_thumb.png b/_images/sphx_glr_example_openberg_thumb.png
diff --git a/_images/sphx_glr_example_river_runoff_001.png b/_images/sphx_glr_example_river_runoff_001.png
diff --git a/_images/sphx_glr_example_river_runoff_002.png b/_images/sphx_glr_example_river_runoff_002.png
diff --git a/_images/sphx_glr_example_river_runoff_thumb.png b/_images/sphx_glr_example_river_runoff_thumb.png
diff --git a/_images/sphx_glr_example_sediments_001.png b/_images/sphx_glr_example_sediments_001.png
diff --git a/_images/sphx_glr_example_sediments_resuspension_001.png b/_images/sphx_glr_example_sediments_resuspension_001.png
diff --git a/_images/sphx_glr_example_sediments_resuspension_thumb.png b/_images/sphx_glr_example_sediments_resuspension_thumb.png
diff --git a/_images/sphx_glr_example_sediments_thumb.png b/_images/sphx_glr_example_sediments_thumb.png
diff --git a/_images/sphx_glr_example_seed_from_shapefile_001.png b/_images/sphx_glr_example_seed_from_shapefile_001.png
diff --git a/_images/sphx_glr_example_seed_from_shapefile_thumb.png b/_images/sphx_glr_example_seed_from_shapefile_thumb.png
diff --git a/_images/sphx_glr_example_shipdrift_001.png b/_images/sphx_glr_example_shipdrift_001.png
diff --git a/_images/sphx_glr_example_shipdrift_leeway_001.png b/_images/sphx_glr_example_shipdrift_leeway_001.png
diff --git a/_images/sphx_glr_example_shipdrift_leeway_thumb.png b/_images/sphx_glr_example_shipdrift_leeway_thumb.png
diff --git a/_images/sphx_glr_example_shipdrift_thumb.png b/_images/sphx_glr_example_shipdrift_thumb.png
diff --git a/_images/sphx_glr_example_thredds_resources_008.png b/_images/sphx_glr_example_thredds_resources_008.png
diff --git a/_images/sphx_glr_example_thredds_resources_009.png b/_images/sphx_glr_example_thredds_resources_009.png
diff --git a/_modules/opendrift/readers/reader_ROMS_native.html b/_modules/opendrift/readers/reader_ROMS_native.html
@@ -203,8 +203,8 @@ <h1>Source code for opendrift.readers.reader_ROMS_native</h1><div class="highlig
             <span class="s1">&#39;zeta&#39;</span><span class="p">:</span> <span class="s1">&#39;sea_surface_height&#39;</span><span class="p">,</span>
             <span class="s1">&#39;u&#39;</span><span class="p">:</span> <span class="s1">&#39;x_sea_water_velocity&#39;</span><span class="p">,</span>
             <span class="s1">&#39;v&#39;</span><span class="p">:</span> <span class="s1">&#39;y_sea_water_velocity&#39;</span><span class="p">,</span>
-            <span class="c1">#&#39;u_eastward&#39;: &#39;x_sea_water_velocity&#39;,  # these are wrognly rotated below</span>
-            <span class="c1">#&#39;v_northward&#39;: &#39;y_sea_water_velocity&#39;,</span>
+            <span class="s1">&#39;u_eastward&#39;</span><span class="p">:</span> <span class="s1">&#39;x_sea_water_velocity&#39;</span><span class="p">,</span>
+            <span class="s1">&#39;v_northward&#39;</span><span class="p">:</span> <span class="s1">&#39;y_sea_water_velocity&#39;</span><span class="p">,</span>
             <span class="s1">&#39;w&#39;</span><span class="p">:</span> <span class="s1">&#39;upward_sea_water_velocity&#39;</span><span class="p">,</span>
             <span class="s1">&#39;temp&#39;</span><span class="p">:</span> <span class="s1">&#39;sea_water_temperature&#39;</span><span class="p">,</span>
             <span class="s1">&#39;salt&#39;</span><span class="p">:</span> <span class="s1">&#39;sea_water_salinity&#39;</span><span class="p">,</span>

diff --git a/_sources/autoapi/NO00159_SVALE/index.rst.txt b/_sources/autoapi/NO00159_SVALE/index.rst.txt
@@ -1,93 +1,99 @@
-:py:mod:`NO00159_SVALE`
-=======================
+NO00159_SVALE
+=============
 
 .. py:module:: NO00159_SVALE
 
 
+Attributes
+----------
+
+.. autoapisummary::
+
+   NO00159_SVALE.id
+   NO00159_SVALE.name
+   NO00159_SVALE.product_type
+   NO00159_SVALE.specific_gravity
+   NO00159_SVALE.reference
+   NO00159_SVALE.reference_year
+   NO00159_SVALE.sample_year
+   NO00159_SVALE.asphaltenes_percent
+   NO00159_SVALE.wax_percent
+   NO00159_SVALE.pour_point
+   NO00159_SVALE.flash_point
+   NO00159_SVALE.weathering_names
+   NO00159_SVALE.weathering_visc_mpas
+   NO00159_SVALE.weathering_density
+   NO00159_SVALE.weathering_volume
+   NO00159_SVALE.weathering_ref_temp
+   NO00159_SVALE.cuts
+
+
 Module Contents
 ---------------
 
 .. py:data:: id
    :value: 'NO00159'
 
-
 
 .. py:data:: name
    :value: 'SVALE'
 
-
 
 .. py:data:: product_type
    :value: 'crude oil nos'
 
-
 
 .. py:data:: specific_gravity
    :value: 0.9138
 
-
 
 .. py:data:: reference
-   :value: 'Sorheim et al. (2010), Kartlegging av forvitringsegenskaper av Norne Blend, Staer, Svale og Alve...'
+   :value: 'Sorheim et al. (2010), Kartlegging av forvitringsegenskaper av Norne Blend, Staer, Svale og...
 
-
 
 .. py:data:: reference_year
    :value: 2010
 
-
 
 .. py:data:: sample_year
    :value: 2009
 
-
 
 .. py:data:: asphaltenes_percent
    :value: 0.32
 
-
 
 .. py:data:: wax_percent
    :value: 2.12
 
-
 
 .. py:data:: pour_point
 
-   
-
 .. py:data:: flash_point
    :value: 13
 
-
 
 .. py:data:: weathering_names
    :value: ['Fresh oil', 'Topped to 150C', 'Topped to 200C', 'Topped to 250C']
 
-
 
 .. py:data:: weathering_visc_mpas
    :value: [257, 322, 309, 443]
 
-
 
 .. py:data:: weathering_density
    :value: [913.8, 917.0, 917.1, 919.9]
 
-
 
 .. py:data:: weathering_volume
    :value: [100, 96.7, 96.3, 92.3]
 
-
 
 .. py:data:: weathering_ref_temp
    :value: 5
 
-
 
 .. py:data:: cuts
    :value: [[69, 0.62], [99, 1.26], [126, 2.33], [151, 3.17], [175, 4.52], [217, 8.07], [253, 13.2], [287,...
 
-
 
diff --git a/_sources/autoapi/hodograph/index.rst.txt b/_sources/autoapi/hodograph/index.rst.txt
@@ -1,34 +1,29 @@
-:py:mod:`hodograph`
-===================
+hodograph
+=========
 
 .. py:module:: hodograph
 
 
-Module Contents
----------------
-
-
-Functions
-~~~~~~~~~
+Attributes
+----------
 
 .. autoapisummary::
 
-   hodograph.main
-
+   hodograph.readers
 
 
-Attributes
-~~~~~~~~~~
+Functions
+---------
 
 .. autoapisummary::
 
-   hodograph.readers
+   hodograph.main
 
 
-.. py:data:: readers
+Module Contents
+---------------
 
-   
+.. py:data:: readers
 
 .. py:function:: main()
 
-
diff --git a/_sources/autoapi/index.rst.txt b/_sources/autoapi/index.rst.txt
@@ -6,16 +6,16 @@ This page contains auto-generated API reference documentation [#f1]_.
 .. toctree::
    :titlesonly:
 
-   /autoapi/opendrift/index
-   /autoapi/NO00159_SVALE/index
    /autoapi/parse/index
-   /autoapi/parse_oil_pdf/index
    /autoapi/shyfem/index
+   /autoapi/opendrift/index
    /autoapi/hodograph/index
-   /autoapi/opendrift_animate/index
-   /autoapi/opendrift_animate_profile/index
+   /autoapi/readerinfo/index
+   /autoapi/NO00159_SVALE/index
+   /autoapi/parse_oil_pdf/index
    /autoapi/opendrift_gui/index
    /autoapi/opendrift_plot/index
-   /autoapi/readerinfo/index
+   /autoapi/opendrift_animate/index
+   /autoapi/opendrift_animate_profile/index
 
 .. [#f1] Created with `sphinx-autoapi <https://github.com/readthedocs/sphinx-autoapi>`_
diff --git a/_sources/autoapi/opendrift/config/index.rst.txt b/_sources/autoapi/opendrift/config/index.rst.txt
@@ -1,24 +1,11 @@
-:py:mod:`opendrift.config`
-==========================
+opendrift.config
+================
 
 .. py:module:: opendrift.config
 
 
-Module Contents
----------------
-
-Classes
-~~~~~~~
-
-.. autoapisummary::
-
-   opendrift.config.Configurable
-
-
-
-
 Attributes
-~~~~~~~~~~
+----------
 
 .. autoapisummary::
 
@@ -28,32 +15,38 @@ Attributes
    opendrift.config.CONFIG_LEVEL_ADVANCED
 
 
-.. py:data:: logger
+Classes
+-------
 
-   
+.. autoapisummary::
+
+   opendrift.config.Configurable
+
+
+Module Contents
+---------------
+
+.. py:data:: logger
 
 .. py:data:: CONFIG_LEVEL_ESSENTIAL
    :value: 1
 
-
 
 .. py:data:: CONFIG_LEVEL_BASIC
    :value: 2
 
-
 
 .. py:data:: CONFIG_LEVEL_ADVANCED
    :value: 3
 
-
 
 .. py:class:: Configurable
 
-
    .. py:attribute:: _config
-      :type: Union[Dict, None]
+      :type:  Union[Dict, None]
+      :value: None
+
 
-
 
    .. py:method:: get_config(key, default='raise')
 
@@ -63,11 +56,13 @@ Attributes
       List all possible configuration settings with values
 
 
+
    .. py:method:: list_configspec(prefix='')
 
       Readable formatting of config specification
 
 
+
    .. py:method:: get_configspec(prefix='', level=[1, 2, 3])
 
 
@@ -79,6 +74,7 @@ Attributes
       Update both default and actual value of a config setting
 
 
+
    .. py:method:: _add_config(config, overwrite=True)
 
       Add configuration settings

diff --git a/_sources/autoapi/opendrift/elements/elements/index.rst.txt b/_sources/autoapi/opendrift/elements/elements/index.rst.txt
@@ -1,25 +1,22 @@
-:py:mod:`opendrift.elements.elements`
-=====================================
+opendrift.elements.elements
+===========================
 
 .. py:module:: opendrift.elements.elements
 
 
-Module Contents
----------------
-
 Classes
-~~~~~~~
+-------
 
 .. autoapisummary::
 
    opendrift.elements.elements.LagrangianArray
 
 
-
+Module Contents
+---------------
 
 .. py:class:: LagrangianArray(**kwargs)
 
-
    A generic array-like class for Lagrangian particle tracking.
 
    A LagrangianArray is a generic class keeping the values of given
@@ -59,27 +56,46 @@ Classes
        is specified in the OrderedDict 'variables'
        An empty object may be created by giving no input.
 
+
    .. py:attribute:: variables
 
-      
+
+   .. py:attribute:: default_values
+
+
+   .. py:attribute:: missing_args
+
+
+   .. py:attribute:: redundant_args
+
+
+   .. py:attribute:: array_lengths
+
+
+   .. py:attribute:: dtype
+
 
    .. py:method:: add_variables(new_variables)
       :classmethod:
 
+
       Method used by subclasses to add specific properties/variables.
 
 
+
    .. py:method:: extend(other)
 
       Add elements from another object.
 
 
+
    .. py:method:: move_elements(other, indices)
 
       Remove elements with given indices, and append to another object.
       NB: indices is boolean array, not real indices!
 
 
+
    .. py:method:: __len__()