WIP: finished text and code up to BST 10, figuers still missing.

GeodynamicWorldBuilder · May 15, 2023 · 47e6ea7 · 47e6ea7
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Showing 31 changed files with 211 additions and 125 deletions.
diff --git a/...ic/gwb_input_files/BST_1_minimal_box.grid → ...c/gwb_input_files/BST_02_minimal_box.grid b/...ic/gwb_input_files/BST_1_minimal_box.grid → ...c/gwb_input_files/BST_02_minimal_box.grid
diff --git a/...atic/gwb_input_files/BST_1_minimal_box.wb → ...tic/gwb_input_files/BST_02_minimal_box.wb b/...atic/gwb_input_files/BST_1_minimal_box.wb → ...tic/gwb_input_files/BST_02_minimal_box.wb
diff --git a/...b_input_files/BST_2_overriding_plate.grid → ..._input_files/BST_04_overriding_plate.grid b/...b_input_files/BST_2_overriding_plate.grid → ..._input_files/BST_04_overriding_plate.grid
diff --git a/...gwb_input_files/BST_2_overriding_plate.wb → ...wb_input_files/BST_04_overriding_plate.wb b/...gwb_input_files/BST_2_overriding_plate.wb → ...wb_input_files/BST_04_overriding_plate.wb
diff --git a/...ic/gwb_input_files/BST_3_limit_depth.grid → ...c/gwb_input_files/BST_05_limit_depth.grid b/...ic/gwb_input_files/BST_3_limit_depth.grid → ...c/gwb_input_files/BST_05_limit_depth.grid
diff --git a/...atic/gwb_input_files/BST_3_limit_depth.wb → ...tic/gwb_input_files/BST_05_limit_depth.wb b/...atic/gwb_input_files/BST_3_limit_depth.wb → ...tic/gwb_input_files/BST_05_limit_depth.wb
diff --git a/...iles/BST_4_oceanic_plate_temperature.grid → ...les/BST_06_oceanic_plate_temperature.grid b/...iles/BST_4_oceanic_plate_temperature.grid → ...les/BST_06_oceanic_plate_temperature.grid
diff --git a/..._files/BST_4_oceanic_plate_temperature.wb → ...files/BST_06_oceanic_plate_temperature.wb b/..._files/BST_4_oceanic_plate_temperature.wb → ...files/BST_06_oceanic_plate_temperature.wb
diff --git a/.../BST_5_subducting_plate_oceanic_part.grid → ...BST_07_subducting_plate_oceanic_part.grid b/.../BST_5_subducting_plate_oceanic_part.grid → ...BST_07_subducting_plate_oceanic_part.grid
diff --git a/...es/BST_5_subducting_plate_oceanic_part.wb → ...s/BST_07_subducting_plate_oceanic_part.wb b/...es/BST_5_subducting_plate_oceanic_part.wb → ...s/BST_07_subducting_plate_oceanic_part.wb
diff --git a/...nput_files/BST_6_adding_mantle_layer.grid → ...BST_08_passive_margin_variable_depth.grid b/...nput_files/BST_6_adding_mantle_layer.grid → ...BST_08_passive_margin_variable_depth.grid
@@ -5,7 +5,7 @@ compositions = 3
 vtu_output_format = ASCII
 
 # domain of the grid
-x_min = 0e3
+x_min = -1000e3
 x_max = 2000e3 
 y_min = 0e3
 y_max = 1000e3 

diff --git a/..._input_files/BST_6_adding_mantle_layer.wb → ...s/BST_08_passive_margin_variable_depth.wb b/..._input_files/BST_6_adding_mantle_layer.wb → ...s/BST_08_passive_margin_variable_depth.wb
@@ -3,11 +3,6 @@
   "coordinate system":{"model":"cartesian"},
   "features":
   [
-    {
-       "model":"mantle layer", "name":"upper mantle", "max depth":660e3,
-       "coordinates":[[0,0],[0,1000e3],[2000e3,1000e3],[2000e3,0]],
-       "composition models":[{"model":"uniform", "compositions":[4]}]
-    },
     {
        "model":"oceanic plate", "name":"Overriding Plate", "max depth":100e3, 
        "coordinates":[[0,0],[0,1000e3],[1500e3,1000e3],[1600e3,350e3],[1500e3,0]],
@@ -16,9 +11,21 @@
            {"model":"half space model", "max depth":100e3, "spreading velocity":0.04, 
             "ridge coordinates":[[[400e3,-1],[-100e3,2000e3]]]}
          ],
+       "composition models":[{"model":"uniform", "compositions":[0], "max depth":50e3}]
+    },
+    {
+       "model":"continental plate", "name":"Passive margin", "max depth":[[200e3]], 
+       "coordinates":[[-1000e3,0],[-1000e3,1000e3],[0,1000e3],[0,0]],
+       "temperature models":
+         [
+           {"model":"linear", "max depth":[[150e3],[200e3,[[-500e3,0],[-500e3,1000e3]]]]}
+         ],
        "composition models":
          [
-           {"model":"uniform", "compositions":[0], "max depth":50e3}
+           {"model":"uniform", "compositions":[3], 
+            "max depth":[[150e3],[200e3,[[-500e3,0],[-500e3,1000e3]]]]},
+           {"model":"uniform", "compositions":[1], 
+            "min depth":[[150e3],[200e3,[[-500e3,0],[-500e3,1000e3]]]]}
          ]
     },
     {

diff --git a/.../BST_7_passive_margin_variable_depth.grid → ...put_files/BST_09_adding_mantle_layer.grid b/.../BST_7_passive_margin_variable_depth.grid → ...put_files/BST_09_adding_mantle_layer.grid
@@ -5,7 +5,7 @@ compositions = 3
 vtu_output_format = ASCII
 
 # domain of the grid
-x_min = 0e3
+x_min = -1000e3
 x_max = 2000e3 
 y_min = 0e3
 y_max = 1000e3 

diff --git a/...es/BST_7_passive_margin_variable_depth.wb → ...input_files/BST_09_adding_mantle_layer.wb b/...es/BST_7_passive_margin_variable_depth.wb → ...input_files/BST_09_adding_mantle_layer.wb
@@ -5,7 +5,7 @@
   [
     {
        "model":"mantle layer", "name":"upper mantle", "max depth":660e3,
-       "coordinates":[[0,0],[0,1000e3],[2000e3,1000e3],[2000e3,0]],
+       "coordinates":[[-1000e3,0],[-1000e3,1000e3],[3000e3,1000e3],[3000e3,0]],
        "composition models":[{"model":"uniform", "compositions":[4]}]
     },
     {
@@ -16,9 +16,21 @@
            {"model":"half space model", "max depth":100e3, "spreading velocity":0.04, 
             "ridge coordinates":[[[400e3,-1],[-100e3,2000e3]]]}
          ],
+       "composition models":[{"model":"uniform", "compositions":[0], "max depth":50e3}]
+    },
+    {
+       "model":"continental plate", "name":"Passive margin", "max depth":[[200e3]], 
+       "coordinates":[[-1000e3,0],[-1000e3,1000e3],[0,1000e3],[0,0]],
+       "temperature models":
+         [
+           {"model":"linear", "max depth":[[150e3],[200e3,[[-500e3,0],[-500e3,1000e3]]]]}
+         ],
        "composition models":
          [
-           {"model":"uniform", "compositions":[0], "max depth":50e3}
+           {"model":"uniform", "compositions":[3], 
+            "max depth":[[150e3],[200e3,[[-500e3,0],[-500e3,1000e3]]]]},
+           {"model":"uniform", "compositions":[1], 
+            "min depth":[[150e3],[200e3,[[-500e3,0],[-500e3,1000e3]]]]}
          ]
     },
     {

diff --git a/doc/sphinx/_static/gwb_input_files/BST_12_sections.wb_bak b/doc/sphinx/_static/gwb_input_files/BST_12_sections.wb_bak
@@ -0,0 +1,39 @@
+{
+  "version":"0.5",
+  "coordinate system":{"model":"cartesian"},
+  "cross section":[[0,200e3],[100e3,200e3]],
+  "features":
+  [
+    {"model":"mantle layer", "name":"upper mantle", "min depth":100e3, "max depth":660e3,
+       "coordinates":[[0,0],[0,1000e3],[2000e3,1000e3],[2000e3,0]],
+       "composition models":[{"model":"uniform", "compositions":[4]}]},
+
+    {"model":"oceanic plate", "name":"Overriding plate", "max depth":100e3,
+       "coordinates":[[0,0],[0,1000e3],[1500e3,1000e3],[1600e3,350e3],[1500e3,0]],
+       "temperature models":[{"model":"plate model", "max depth":100e3, "spreading velocity":0.01,
+                              "ridge coordinates":[[[400e3,-1],[-100e3,2000e3]]]}],
+       "composition models":[{"model":"uniform", "compositions":[0], "max depth":100e3}]},
+
+    {"model":"oceanic plate", "name":"Atlantic Plate", "max depth":100e3,
+       "coordinates":[[2000e3,0],[2000e3,1000e3],[1500e3,1000e3],[1600e3,350e3],[1500e3,0]],
+       "temperature models":[{"model":"linear", "max depth":100e3}],
+       "composition models":[{"model":"uniform", "compositions":[3], "max depth":50e3},
+                             {"model":"uniform", "compositions":[1], "min depth":50e3}]},
+
+    {"model":"subducting plate", "name":"Slab",
+       "coordinates":[[1500e3,1000e3],[1600e3,350e3],[1500e3,0]],
+       "dip point":[0,0],
+       "segments":[{"length":300e3, "thickness":[100e3], "angle":[0,60],
+                   "composition models":[{"model":"uniform", "compositions":[3], "max distance slab top":50e3},
+                                        {"model":"uniform", "compositions":[2], "min distance slab top":50e3}]},
+                   {"length":500e3, "thickness":[100e3], "angle":[60,20]}],
+       "sections":[
+         {"coordinate":0,
+        "segments":[{"length":300e3, "thickness":[100e3], "angle":[0,60]},
+                    {"length":400e3, "thickness":[100e3,50e3], "angle":[60]}],
+         "composition models":[{"model":"uniform", "compositions":[1]}]}
+       ],
+       "temperature models":[{"model":"plate model", "density":3300, "plate velocity":0.02 }],
+       "composition models":[{"model":"uniform", "compositions":[2], "max distance slab top":100e3}]}
+  ]
+}
diff --git a/doc/sphinx/user_manual/basic_starter_tutorial/02_your_first_input_file.md b/doc/sphinx/user_manual/basic_starter_tutorial/02_your_first_input_file.md
@@ -6,17 +6,17 @@ GWB input files are plain-text files, which generally have the extension `.wb`.
 
 
 
-```{literalinclude} ../../_static/gwb_input_files/BST_1_minimal_box.wb
+```{literalinclude} ../../_static/gwb_input_files/BST_02_minimal_box.wb
 :language: json
 :lineno-start: 1
 ```
 
 ::::{grid} 2
 :::{grid-item-card}  Download BST_1_minimal_box.wb
-:link: ../../_static/gwb_input_files/BST_1_minimal_box.wb
+:link: ../../_static/gwb_input_files/BST_02_minimal_box.wb
 :::
 :::{grid-item-card}  Download BST_1_minimal_box.grid
-:link: ../../_static/gwb_input_files/BST_1_minimal_box.grid
+:link: ../../_static/gwb_input_files/BST_02_minimal_box.grid
 :::
 ::::
 

diff --git a/doc/sphinx/user_manual/basic_starter_tutorial/03_optional_coordinate_system.md b/doc/sphinx/user_manual/basic_starter_tutorial/03_optional_coordinate_system.md
@@ -89,5 +89,5 @@ lineno-start: 1
 
 This should be a good default spherical coordiante system. For more information on how to derive this from the paramter listing and what the options are, please expand and read the dropbox above.
 
-In the following sections we will continue using the Cartesian coordinate system. We will also show this in  {ref}`part:user_manual:chap:concepts:sec:16_spherical_models`, where we show how easy it is to switch between cartesian an spherical coordiante systems in our finished subdction example.
+In the following sections we will continue using the Cartesian coordinate system. We will also show this in  {ref}`part:user_manual:chap:concepts:sec:17_spherical_models`, where we show how easy it is to switch between cartesian an spherical coordiante systems in our finished subdction example.
 ````
diff --git a/doc/sphinx/user_manual/basic_starter_tutorial/04_adding_first_tectonic_feature.md b/doc/sphinx/user_manual/basic_starter_tutorial/04_adding_first_tectonic_feature.md
@@ -20,17 +20,17 @@ There are some other options, which we will cover later. The file below shows th
 :::::{tab-item} Important lines
 :sync: Partial
 
-```{literalinclude} ../../_static/gwb_input_files/BST_2_overriding_plate.wb
+```{literalinclude} ../../_static/gwb_input_files/BST_04_overriding_plate.wb
 :language: json
 :lineno-start: 4
 :lines: 4-12
 ```
 ::::{grid} 2
-:::{grid-item-card}  Download BST_2_overriding_plate.wb
-:link: ../../_static/gwb_input_files/BST_2_overriding_plate.wb
+:::{grid-item-card}  Download BST_04_overriding_plate.wb
+:link: ../../_static/gwb_input_files/BST_04_overriding_plate.wb
 :::
-:::{grid-item-card}  Download BST_2_overriding_plate.grid
-:link: ../../_static/gwb_input_files/BST_2_overriding_plate.grid
+:::{grid-item-card}  Download BST_04_overriding_plate.grid
+:link: ../../_static/gwb_input_files/BST_04_overriding_plate.grid
 :::
 ::::
 :::::
@@ -39,17 +39,17 @@ There are some other options, which we will cover later. The file below shows th
 :sync: Full
 
 
-```{literalinclude} ../../_static/gwb_input_files/BST_2_overriding_plate.wb
+```{literalinclude} ../../_static/gwb_input_files/BST_04_overriding_plate.wb
 :language: json
 :lineno-start: 1
 ```
 
 ::::{grid} 2
-:::{grid-item-card}  Download BST_2_overriding_plate.wb
-:link: ../../_static/gwb_input_files/BST_2_overriding_plate.wb
+:::{grid-item-card}  Download BST_04_overriding_plate.wb
+:link: ../../_static/gwb_input_files/BST_04_overriding_plate.wb
 :::
-:::{grid-item-card}  Download BST_2_overriding_plate.grid
-:link: ../../_static/gwb_input_files/BST_2_overriding_plate.grid
+:::{grid-item-card}  Download BST_04_overriding_plate.grid
+:link: ../../_static/gwb_input_files/BST_04_overriding_plate.grid
 :::
 ::::
 :::::

diff --git a/doc/sphinx/user_manual/basic_starter_tutorial/05_limit_temperature_with_depth.md b/doc/sphinx/user_manual/basic_starter_tutorial/05_limit_temperature_with_depth.md
@@ -14,18 +14,18 @@ If we would have set the max depth of the composition to be larger than the feat
 :::::{tab-item} Important lines
 :sync: Partial
 
-```{literalinclude} ../../_static/gwb_input_files/BST_3_limit_depth.wb
+```{literalinclude} ../../_static/gwb_input_files/BST_05_limit_depth.wb
 :language: json
 :lineno-start: 5
 :lines: 5-15
 :emphasize-lines: 3,8
 ```
 ::::{grid} 2
-:::{grid-item-card}  Download BST_3_limit_depth.wb
-:link: ../../_static/gwb_input_files/BST_3_limit_depth.wb
+:::{grid-item-card}  Download BST_05_limit_depth.wb
+:link: ../../_static/gwb_input_files/BST_05_limit_depth.wb
 :::
-:::{grid-item-card}  Download BST_3_limit_depth.grid
-:link: ../../_static/gwb_input_files/BST_3_limit_depth.grid
+:::{grid-item-card}  Download BST_05_limit_depth.grid
+:link: ../../_static/gwb_input_files/BST_05_limit_depth.grid
 :::
 ::::
 :::::
@@ -34,18 +34,18 @@ If we would have set the max depth of the composition to be larger than the feat
 :sync: Full
 
 
-```{literalinclude} ../../_static/gwb_input_files/BST_3_limit_depth.wb
+```{literalinclude} ../../_static/gwb_input_files/BST_05_limit_depth.wb
 :language: json
 :lineno-start: 1
 :emphasize-lines: 7,12
 ```
 
 ::::{grid} 2
-:::{grid-item-card}  Download BST_3_limit_depth.wb
-:link: ../../_static/gwb_input_files/BST_3_limit_depth.wb
+:::{grid-item-card}  Download BST_05_limit_depth.wb
+:link: ../../_static/gwb_input_files/BST_05_limit_depth.wb
 :::
-:::{grid-item-card}  Download BST_3_limit_depth.grid
-:link: ../../_static/gwb_input_files/BST_3_limit_depth.grid
+:::{grid-item-card}  Download BST_05_limit_depth.grid
+:link: ../../_static/gwb_input_files/BST_05_limit_depth.grid
 :::
 ::::
 :::::

diff --git a/doc/sphinx/user_manual/basic_starter_tutorial/06_oceanic_plate_temperature.md b/doc/sphinx/user_manual/basic_starter_tutorial/06_oceanic_plate_temperature.md
@@ -16,18 +16,18 @@ If you are familair with the half space cooling model, you would also think some
 :::::{tab-item} Important lines
 :sync: Partial
 
-```{literalinclude} ../../_static/gwb_input_files/BST_4_oceanic_plate_temperature.wb
+```{literalinclude} ../../_static/gwb_input_files/BST_06_oceanic_plate_temperature.wb
 :language: json
 :lineno-start: 6
 :lines: 6-14
 :emphasize-lines: 6,7
 ```
 ::::{grid} 2
-:::{grid-item-card}  Download BST_4_oceanic_plate_temperature.wb
-:link: ../../_static/gwb_input_files/BST_4_oceanic_plate_temperature.wb
+:::{grid-item-card}  Download BST_06_oceanic_plate_temperature.wb
+:link: ../../_static/gwb_input_files/BST_06_oceanic_plate_temperature.wb
 :::
-:::{grid-item-card}  Download BST_4_oceanic_plate_temperature.grid
-:link: ../../_static/gwb_input_files/BST_4_oceanic_plate_temperature.grid
+:::{grid-item-card}  Download BST_06_oceanic_plate_temperature.grid
+:link: ../../_static/gwb_input_files/BST_06_oceanic_plate_temperature.grid
 :::
 ::::
 :::::
@@ -36,18 +36,18 @@ If you are familair with the half space cooling model, you would also think some
 :sync: Full
 
 
-```{literalinclude} ../../_static/gwb_input_files/BST_4_oceanic_plate_temperature.wb
+```{literalinclude} ../../_static/gwb_input_files/BST_06_oceanic_plate_temperature.wb
 :language: json
 :lineno-start: 1
 :emphasize-lines: 11,12
 ```
 
 ::::{grid} 2
-:::{grid-item-card}  Download BST_4_oceanic_plate_temperature.wb
-:link: ../../_static/gwb_input_files/BST_4_oceanic_plate_temperature.wb
+:::{grid-item-card}  Download BST_06_oceanic_plate_temperature.wb
+:link: ../../_static/gwb_input_files/BST_06_oceanic_plate_temperature.wb
 :::
-:::{grid-item-card}  Download BST_4_oceanic_plate_temperature.grid
-:link: ../../_static/gwb_input_files/BST_4_oceanic_plate_temperature.grid
+:::{grid-item-card}  Download BST_06_oceanic_plate_temperature.grid
+:link: ../../_static/gwb_input_files/BST_06_oceanic_plate_temperature.grid
 :::
 ::::
 :::::

diff --git a/doc/sphinx/user_manual/basic_starter_tutorial/07_subducting_plate_oceanic_part.md b/doc/sphinx/user_manual/basic_starter_tutorial/07_subducting_plate_oceanic_part.md
@@ -11,18 +11,18 @@ For the composition, we are going to do something a bit more special. A commen t
 :::::{tab-item} Important lines
 :sync: Partial
 
-```{literalinclude} ../../_static/gwb_input_files/BST_5_subducting_plate_oceanic_part.wb
+```{literalinclude} ../../_static/gwb_input_files/BST_07_subducting_plate_oceanic_part.wb
 :language: json
 :lineno-start: 18
 :lines: 18-25
 :emphasize-lines: 5,6,7
 ```
 ::::{grid} 2
-:::{grid-item-card}  Download BST_5_subducting_plate_oceanic_part.wb
-:link: ../../_static/gwb_input_files/BST_5_subducting_plate_oceanic_part.wb
+:::{grid-item-card}  Download BST_07_subducting_plate_oceanic_part.wb
+:link: ../../_static/gwb_input_files/BST_07_subducting_plate_oceanic_part.wb
 :::
-:::{grid-item-card}  Download BST_5_subducting_plate_oceanic_part.grid
-:link: ../../_static/gwb_input_files/BST_5_subducting_plate_oceanic_part.grid
+:::{grid-item-card}  Download BST_07_subducting_plate_oceanic_part.grid
+:link: ../../_static/gwb_input_files/BST_07_subducting_plate_oceanic_part.grid
 :::
 ::::
 :::::
@@ -31,18 +31,18 @@ For the composition, we are going to do something a bit more special. A commen t
 :sync: Full
 
 
-```{literalinclude} ../../_static/gwb_input_files/BST_5_subducting_plate_oceanic_part.wb
+```{literalinclude} ../../_static/gwb_input_files/BST_07_subducting_plate_oceanic_part.wb
 :language: json
 :lineno-start: 1
 :emphasize-lines: 22,23,24
 ```
 
 ::::{grid} 2
-:::{grid-item-card}  Download BST_5_subducting_plate_oceanic_part.wb
-:link: ../../_static/gwb_input_files/BST_5_subducting_plate_oceanic_part.wb
+:::{grid-item-card}  Download BST_07_subducting_plate_oceanic_part.wb
+:link: ../../_static/gwb_input_files/BST_07_subducting_plate_oceanic_part.wb
 :::
-:::{grid-item-card}  Download BST_5_subducting_plate_oceanic_part.grid
-:link: ../../_static/gwb_input_files/BST_5_subducting_plate_oceanic_part.grid
+:::{grid-item-card}  Download BST_07_subducting_plate_oceanic_part.grid
+:link: ../../_static/gwb_input_files/BST_07_subducting_plate_oceanic_part.grid
 :::
 ::::
 :::::