From 0c6cd0d7d1a2947c81dad88b12f20e9308f328e0 Mon Sep 17 00:00:00 2001
From: Oscar Branson <ob266@cam.ac.uk>
Date: Tue, 13 Feb 2024 20:53:04 +0000
Subject: [PATCH] add model figures

---
 book/06_oceancarbon/02_solubility.md    | 9 +++++++++
 book/06_oceancarbon/03_biopump.md       | 9 +++++++++
 book/06_oceancarbon/04_carbonatepump.md | 9 +++++++++
 book/_toc.yml                           | 2 +-
 4 files changed, 28 insertions(+), 1 deletion(-)

diff --git a/book/06_oceancarbon/02_solubility.md b/book/06_oceancarbon/02_solubility.md
index b0dbd8ff..d9d4ad5b 100644
--- a/book/06_oceancarbon/02_solubility.md
+++ b/book/06_oceancarbon/02_solubility.md
@@ -286,6 +286,15 @@ To include the solubility pump in our model, we must:
 3. Track the speciation of DIC in the surface ocean.
 4. Track the concentration of DIC.
 
+```{figure} figures/ocean-3box-CO2.png
+---
+name: fig:carbon:3box
+figclass: margin-caption
+width: 60%
+---
+To model the solubility pump, we need to include the exchange of CO<sub>2</sub> between the ocean and atmosphere, the conservative transport of DIC through the ocean interior, and the speciation of DIC in the surface ocean.
+```
+
 ### 1. The Atmosphere
 
 We will model the atmosphere as a single, well-mixed box that overlies both surface ocean boxes.
diff --git a/book/06_oceancarbon/03_biopump.md b/book/06_oceancarbon/03_biopump.md
index 657d9a08..f20bf3da 100644
--- a/book/06_oceancarbon/03_biopump.md
+++ b/book/06_oceancarbon/03_biopump.md
@@ -237,6 +237,15 @@ To include the biological pump in our model we must:
 1. Include a nutrient to limit biological productivity
 2. Parameterise the impact of photosynethsis and remineralisation on ocean carbon.
 
+```{figure} figures/ocean-3box-CO2-bio.png
+---
+name: fig:carbon:3box
+figclass: margin-caption
+width: 60%
+---
+To model the solubility pump, we need to include the conservative transport of a nutrient through the ocean boxes to fuel biological productivity. We then need to paramterise the production of organic matter in the surface ocean, which takes up DIC and nutrients and exports them to the deep ocean.
+```
+
 ### Adding a nutrient
 
 For our model we will use Phosphate (PO<sub>4</sub>) as our limiting nutrient.
diff --git a/book/06_oceancarbon/04_carbonatepump.md b/book/06_oceancarbon/04_carbonatepump.md
index 1eaca7b4..ab656044 100644
--- a/book/06_oceancarbon/04_carbonatepump.md
+++ b/book/06_oceancarbon/04_carbonatepump.md
@@ -196,6 +196,15 @@ The interaction between ballasting and ocean acidification is a significant sour
 
 ## Modelling the Carbonate Pump
 
+```{figure} figures/ocean-3box-CO2-bio-calc.png
+---
+name: fig:carbon:3box
+figclass: margin-caption
+width: 60%
+---
+To model the carbonate pump, we need to include the production of CaCO<sub>3<sub> by biological life, which takes up DIC and TA in the surface ocean and exports it to the deep ocean.
+```
+
 Calcification is biologically-mediated, and takes up CO<sub>3</sub><sup>-2</sup> from the surface ocean and exports it to the deep.
 We will therefore model calcification as a function of biological productivity in the surface ocean, assuming that some fraction of biological carbon export ($f_{calc}$) is accompanied by calcification:
 
diff --git a/book/_toc.yml b/book/_toc.yml
index 42446b18..ac83b8d3 100644
--- a/book/_toc.yml
+++ b/book/_toc.yml
@@ -54,7 +54,7 @@ chapters:
   - file: 06_oceancarbon/02_solubility
   - file: 06_oceancarbon/03_biopump
   - file: 06_oceancarbon/04_carbonatepump
-  # - file: 06_oceancarbon/05_futureoceans
+  - file: 06_oceancarbon/05_futureoceans
 # - file: 07_landcarbon/intro/intro
 #   sections:
 #   - file: 07_landcarbon/l40/l40