diff --git a/book/chapters/data.ipynb b/book/chapters/data.ipynb index 61f0387..f974219 100644 --- a/book/chapters/data.ipynb +++ b/book/chapters/data.ipynb @@ -4,7 +4,7 @@ "cell_type": "markdown", "metadata": {}, "source": [ - "[Jupyter Book](https://geo-smart.github.io/oceanography/intro.html) and [GitHub repo](https://github.com/geo-smart/oceanography).\n", + "[Jupyter Book](https://geo-smart.github.io/oceanography/chapters/data.html) and [GitHub repo](https://github.com/geo-smart/oceanography).\n", "\n", "\n", "# Data\n", @@ -1032,7 +1032,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.11.4" + "version": "3.12.3" } }, "nbformat": 4, diff --git a/book/chapters/ocean_science.ipynb b/book/chapters/oceanscience.ipynb similarity index 89% rename from book/chapters/ocean_science.ipynb rename to book/chapters/oceanscience.ipynb index 8bf3640..e832bb0 100644 --- a/book/chapters/ocean_science.ipynb +++ b/book/chapters/oceanscience.ipynb @@ -36,11 +36,12 @@ "## Science basis\n", "\n", "\n", - "The purpose of this Jupyter Book is to present research ideas in oceanography relative \n", - "to observational data from sensors. The underlying program is to provide a reproducible \n", - "methodology. As *method* can take up all the oxygen in the room: Before diving in\n", - "let us frame the science, beginning with an ambitious question:\n", - "


" + "The purpose of this Jupyter Book is to explore research ideas in oceanography relative \n", + "to observational data from sensors. The underlying agenda is to document a reproducible \n", + "methodology for this exploration. However *method* can take up all the oxygen in the \n", + "room so before diving into the data let us take a moment to frame the science, beginning \n", + "with an ambitious question:\n", + "
" ] }, { @@ -49,29 +50,23 @@ "source": [ "${\\Large \\textrm{How stable is the epipelagic ocean?}}$\n", "\n", - "
\n", "\n", - "\n", - "This question by itself is simplistic so over the following sections\n", - "let's qualify the meaning.\n", + "This question by itself is simplistic so let's qualify its meaning in these ensuing sections.\n", "\n", "\n", "\n", "### *Epipelagic ocean* defined\n", "\n", - "Before tackling *stability*\n", - "let us define the term 'epipelagic ocean'. *Epipelagic* is more or\n", - "less synomymous with *sunlit* or *photic*, appearing most often as *epipelagic zone*. \n", - "This is the upper 200 meter layer of the water column subject to downwelling \n", - "sunlight. Sunlight is in turn the energy source for primary production. We are\n", - "therefore considering the ecosystem of the upper ocean, occupied by phytoplankton,\n", - "that is the engine powering the marine food web.\n", + "*Epipelagic* is more or less synomymous with *sun illuminated* or *photic*, \n", + "appearing most often as *epipelagic zone* or *photic zone*. \n", + "This is approximately the upper 200 meter layer of the water column subjected \n", + "to downwelling sunlight. Sunlight is in turn the energy source of primary production\n", + "by photosynthesizing plankton. This is the ecosystem of the upper ocean:\n", + "The engine powering the marine food web.\n", "\n", "\n", - "*Epipelagic ocean* is intended to evoke manifestations of the epipelagic zone across \n", - "the earth's oceans. We have as an observational starting point three observing sites in the \n", - "northeast Pacific. Each of these sites features unprecedented data accumulated\n", - "by *shallow profiler* sensing platforms.\n", + "Our observational starting point is three observing sites located in the \n", + "northeastern Pacific Ocean. \n", "\n", "\n", "```\n", @@ -86,14 +81,13 @@ "### Limits on observation\n", "\n", "\n", - "Our initial analysis will focus on the three\n", + "Our observational focus is three\n", "[shallow profilers](https://interactiveoceans.washington.edu/technology/shallow-profiler-moorings/) \n", "maintained by the Regional Cabled Array program. \n", - "This amounts to a direct record of the state of the upper ocean at very fine-scale\n", - "spatiotemporal scales at three related locations in the northeast Pacific Ocean.\n", - "Further interest in observation of the upper water column will subsequently pivot\n", - "to other sensor programs, particularly ARGO drifters, satellite remote sensing \n", - "of the sea surface and historical data from NOAA." + "This amounts to a direct record of the state of the upper ocean at two fine scales:\n", + "Time and depth.\n", + "From this starting point we will add other observing resources: ARGO drifters, satellite data, \n", + "NOAA buoys and so forth." ] }, { @@ -107,7 +101,7 @@ "\n", "\n", "- depth dimension: Through the upper 200 meters on scales of centimeters to tens of meters\n", - "- physical stability: temperature, density of water, available light\n", + "- physical stability: temperature, density of water, available light, turbulence\n", "- chemical stability: salinity, dissolved oxygen, inorganic carbon\n", "- biological stability: nutrient concentration (nitrates), particulate distribution, fluorescence, ...\n", "- lateral structure, scales from meters to mesoscale (hundreds of kilometers)\n", @@ -132,9 +126,7 @@ "### Related research topics\n", "\n", "\n", - "Start from epipelagic *stability* let us identify related research topics. Relevance open-ended: \n", - "\n", - "- Plankton community structure and ecology.\n", + "- plankton community structure, ecology\n", "- Terrigenous influence" ] }, @@ -162,15 +154,17 @@ "### The utility of *coincidence* and *persistence*\n", "\n", "\n", - "*Coincidence* here refers to data structure that is present in multiple sensor streams. \n", - "*Persistence* refers to structures that persist through more than one profile. \n", + "*Coincidence* refers to ocean structure that persists across multiple sensor streams. \n", + "*Persistence* refers to structures that persist in time, i.e. for multiple consecutive observations.\n", + "\n", + "\n", + "### How stable is the epipelagic ocean?\n", "\n", "\n", - "The water column is well understood to be stratified. The upper layer is\n", - "the *mixed layer*, below that is a transitional layer, and below this is the upper \n", - "part of the *pelagic layer* which constitutes the bulk of the water column. In this \n", - "work we can begin with a null hypothesis that the sensor data will show these \n", - "three strata with repeatable consistency. \n", + "The water column is well understood as stratified. The upper layer is\n", + "the *mixed layer*, below that is a transitional layer called the *pycnocline*, \n", + "and below this is the *lower epipelagic layer*. ('*Pelagic*' covers the \n", + "entirety of the open ocean water column.) \n", "\n", "\n", "Shortly we commence looking at depth charts that show the epipelagic depth on the vertical axis\n", @@ -560,7 +554,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.11.4" + "version": "3.12.3" } }, "nbformat": 4,