Interpolated inital conditions (#60)

* stuff * run decaying med * some changes * some change * try on tartarus * try it out on tartarus * test it on GPU * bugfix * bugfix * some changes * change example * some exports * depth instead of minimum_depth * works without diffusion? * better * little more "blackboxy" * forgot to regrid * works * take away show * take away show * some changes * name change * this works! * fine * some comments * some changes * some comments * comment * bugfix * more restructuring * more cleanup * small bugfix * organize a bit * comment * finished * freely decaying med simpler set! * bugfix * return a value * some changes * test it out * bugfix * probably ready to go? * fixes CI * fiox download test * small fix * tests should pass * comment on interpolation passes * comment * comment * better name * Change name to inpaint_mask and update ECCO2 initialization * update Oceananigans * change some docstrings * include submodules in docs + don't error when missing_docs * bugfix * bigfix --------- Co-authored-by: Gregory Wagner <[email protected]> Co-authored-by: Navid C. Constantinou <[email protected]>
CliMA · Mar 28, 2024 · de17150 · de17150
1 parent 1bd1700
commit de17150
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diff --git a/docs/make.jl b/docs/make.jl
@@ -43,13 +43,14 @@ pages = [
 ]
 
 makedocs(
-   sitename = "ClimaOcean.jl",
-    modules = [ClimaOcean],
-     format = format,
-      pages = pages,
-    doctest = true,
-      clean = true,
-  checkdocs = :exports
+     sitename = "ClimaOcean.jl",
+      modules = [ClimaOcean],
+       format = format,
+        pages = pages,
+      doctest = true,
+        clean = true,
+     warnonly = [:cross_references, :missing_docs],
+    checkdocs = :exports
 )
 
 @info "Clean up temporary .jld2 and .nc output created by doctests or literated examples..."

diff --git a/docs/src/library/internals.md b/docs/src/library/internals.md
@@ -16,3 +16,31 @@ Modules = [ClimaOcean.Diagnostics]
 Public = false
 ```
 
+
+## InitialConditions
+
+```@autodocs
+Modules = [ClimaOcean.InitialConditions]
+Public = false
+```
+
+## DataWrangling
+
+```@autodocs
+Modules = [ClimaOcean.DataWrangling]
+Public = false
+```
+
+## ECCO2
+
+```@autodocs
+Modules = [ClimaOcean.ECCO2]
+Public = false
+```
+
+## Bathymetry
+
+```@autodocs
+Modules = [ClimaOcean.Bathymetry]
+Public = false
+```
diff --git a/docs/src/library/public.md b/docs/src/library/public.md
@@ -17,3 +17,32 @@ Private = false
 Modules = [ClimaOcean.Diagnostics]
 Private = false
 ```
+
+## InitialConditions
+
+```@autodocs
+Modules = [ClimaOcean.InitialConditions]
+Private = false
+```
+
+## DataWrangling
+
+```@autodocs
+Modules = [ClimaOcean.DataWrangling]
+Private = false
+```
+
+## ECCO2
+
+```@autodocs
+Modules = [ClimaOcean.ECCO2]
+Private = false
+```
+
+## Bathymetry
+
+```@autodocs
+Modules = [ClimaOcean.Bathymetry]
+Private = false
+```
+
diff --git a/examples/analyze_neverworld_simulation.jl b/examples/analyze_neverworld_simulation.jl
diff --git a/examples/animate_neverworld_simulation.jl b/examples/animate_neverworld_simulation.jl