adjustments and include download links

JuliaGeodynamics · Mar 1, 2024 · 87d31d1 · 87d31d1
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diff --git a/docs/src/man/Tutorial_Jura.md b/docs/src/man/Tutorial_Jura.md
@@ -27,7 +27,7 @@ We downloaded the pdf map, and cropped it to the lower left and upper right corn
 The resulting map was uploaded to zenodo; it can be downloaded with
 
 ```julia
-#download_data("https://zenodo.org/10726801/SchoriM_Encl_01_Jura-map_A1.png", "SchoriM_Encl_01_Jura-map_A1.png")
+download_data("https://zenodo.org/records/10726801/files/SchoriM_Encl_01_Jura-map_A1.png", "SchoriM_Encl_01_Jura-map_A1.png")
 ```
 
 We also used a slightly larger version of the map along with the online tool [https://apps.automeris.io](https://apps.automeris.io) to extract the location of the corners (using the indicated blue lon/lat values on the map as reference points).
@@ -67,7 +67,7 @@ Within `GeophysicalModelGenerator`, we need a `longlat` coordinate system. It is
 We did this and saved the resulting image in Zenodo:
 
 ```julia
-#download_data("https://zenodo.org/10726801/BMes_Spline_longlat.tif", "BMes_Spline_longlat.tif")
+download_data("https://zenodo.org/records/10726801/files/BMes_Spline_longlat.tif", "BMes_Spline_longlat.tif")
 ```
 
 Now, import the GeoTIFF as:
@@ -86,7 +86,7 @@ Often that is not the case and you have to use the mapview along with the digiti
 As example, we use the cross-section
 
 ```julia
-#download_data("https://zenodo.org/10726801/BMes_Spline_longlat.tif", "BMes_Spline_longlat.tif")
+download_data("https://zenodo.org/records/10726801/files/Schori_2020_Ornans-Miserey-v2_whiteBG.png", "Schori_2020_Ornans-Miserey-v2_whiteBG.png")
 Corner_LowerLeft = (5.92507, 47.31300, -2.0)
 Corner_UpperRight = (6.25845, 46.99550, 2.0)
 CrossSection_1 = Screenshot_To_GeoData("Schori_2020_Ornans-Miserey-v2_whiteBG.png", Corner_LowerLeft, Corner_UpperRight) # name should have "colors" in it
@@ -202,15 +202,15 @@ Write_Paraview(CrossSection_1_cart,"CrossSection_1_cart")
 The result looks like:
 ![Jura_Tutorial_1](../assets/img/Jura_1.png)
 
+## 3. Geological block model
 Yet, if you want to perform a numerical simulation of the Jura, it is more convenient to rotate the maps such that we can perform a simulation perpendicular to the strike of the mountain belt.
 This can be done with `RotateTranslateScale`:
 
 ```julia
-RotationAngle = -43;
-TopoGeology_cart_rot    = RotateTranslateScale(TopoGeology_cart, Rotate=RotationAngle);
-Basement_cart_rot       = RotateTranslateScale(Basement_cart, Rotate=RotationAngle);
-CrossSection_1_cart_rot = RotateTranslateScale(CrossSection_1_cart, Rotate=RotationAngle);
-nothing #hide
+RotationAngle = -43
+TopoGeology_cart_rot    = RotateTranslateScale(TopoGeology_cart, Rotate=RotationAngle)
+Basement_cart_rot       = RotateTranslateScale(Basement_cart, Rotate=RotationAngle)
+CrossSection_1_cart_rot = RotateTranslateScale(CrossSection_1_cart, Rotate=RotationAngle)
 ```
 
 Next, we can create a new computational grid that is more conveniently oriented:
@@ -219,9 +219,8 @@ We create both a surface and a 3D block
 ```julia
 nx, ny, nz = 1024, 1024, 128
 x,y,z = range(-100,180,nx), range(-50,70,ny), range(-8,4,nz)
-ComputationalSurf  =  CartData(XYZGrid(x,y,0));
-ComputationalGrid  =  CartData(XYZGrid(x,y,z));
-nothing #hide
+ComputationalSurf  =  CartData(XYZGrid(x,y,0))
+ComputationalGrid  =  CartData(XYZGrid(x,y,z))
 ```
 
 Re-interpolate the rotated to the new grid:
@@ -235,24 +234,21 @@ Next we can use the surfaces to create a 3D block model.
 We start with a block model that has the different rocktypes:
 
 ```julia
-Phases = zeros(Int8,size(ComputationalGrid.x)); #Define rock types
-nothing #hide
+Phases = zeros(Int8,size(ComputationalGrid.x)) #Define rock types
 ```
 
 Set everything below the topography to 1
 
 ```julia
-id = BelowSurface(ComputationalGrid, GeologyTopo_comp_surf);
-Phases[id] .= 1;
-nothing #hide
+id = BelowSurface(ComputationalGrid, GeologyTopo_comp_surf)
+Phases[id] .= 1
 ```
 
 The basement is set to 2
 
 ```julia
-id = BelowSurface(ComputationalGrid, Basement_comp_surf);
-Phases[id] .= 2;
-nothing #hide
+id = BelowSurface(ComputationalGrid, Basement_comp_surf)
+Phases[id] .= 2
 ```
 
 Add to the computational grid:
@@ -265,18 +261,17 @@ ComputationalGrid = RemoveField(ComputationalGrid,"Z")
 Save the surfaces, cross-section and the grid:
 
 ```julia
-Write_Paraview(GeologyTopo_comp_surf,"GeologyTopo_comp_surf");
-Write_Paraview(Basement_comp_surf,   "Basement_comp_surf");
-Write_Paraview(CrossSection_1_cart_rot,"CrossSection_1_cart_rot");
-Write_Paraview(ComputationalGrid,"ComputationalGrid");
-nothing #hide
+Write_Paraview(GeologyTopo_comp_surf,"GeologyTopo_comp_surf")
+Write_Paraview(Basement_comp_surf,   "Basement_comp_surf")
+Write_Paraview(CrossSection_1_cart_rot,"CrossSection_1_cart_rot")
+Write_Paraview(ComputationalGrid,"ComputationalGrid")
 ```
 
 We can visualize this in paraview:
 ![Jura_Tutorial_2](../assets/img/Jura_2.png)
 
-Note that the `y`-direction is now perpendicular to the Jura mountains.
-The paraview statefiles to generate the two figures shown here are `/tutorials/Jura_1.pvsm` and `/tutorials/Jura_2.pvsm`.
+We use a vertical exaggeration of factor two. Also note that the `y`-direction is now perpendicular to the Jura mountains.
+The paraview statefiles to generate this figure is `/tutorials/Jura_2.pvsm`.
 
 ---