[DOC] Converted all notebooks into .py files that can be rendered by …

…sphinx-gallery
Japhiolite · Apr 19, 2020 · 279bbe9 · 279bbe9
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diff --git a/.gitignore b/.gitignore
@@ -140,5 +140,5 @@ docs/build
 test/figs
 
 Profiles
-notebooks/data/input_data/Claudius/Results_
+examples/data/input_data/Claudius/Results_
 
diff --git a/notebooks/data/figures/ipv.png → examples/data/figures/ipv.png b/notebooks/data/figures/ipv.png → examples/data/figures/ipv.png
diff --git a/notebooks/data/figures/ipyvolume.png → examples/data/figures/ipyvolume.png b/notebooks/data/figures/ipyvolume.png → examples/data/figures/ipyvolume.png
diff --git a/...y_models/Greenstone/Greenstone_extent.npy → ...y_models/Greenstone/Greenstone_extent.npy b/...y_models/Greenstone/Greenstone_extent.npy → ...y_models/Greenstone/Greenstone_extent.npy
diff --git a/...y_models/Greenstone/Greenstone_faults.csv → ...y_models/Greenstone/Greenstone_faults.csv b/...y_models/Greenstone/Greenstone_faults.csv → ...y_models/Greenstone/Greenstone_faults.csv
diff --git a/...reenstone/Greenstone_faults_relations.csv → ...reenstone/Greenstone_faults_relations.csv b/...reenstone/Greenstone_faults_relations.csv → ...reenstone/Greenstone_faults_relations.csv
diff --git a/...ls/Greenstone/Greenstone_kriging_data.csv → ...ls/Greenstone/Greenstone_kriging_data.csv b/...ls/Greenstone/Greenstone_kriging_data.csv → ...ls/Greenstone/Greenstone_kriging_data.csv
diff --git a/..._models/Greenstone/Greenstone_options.csv → ..._models/Greenstone/Greenstone_options.csv b/..._models/Greenstone/Greenstone_options.csv → ..._models/Greenstone/Greenstone_options.csv
diff --git a/...ls/Greenstone/Greenstone_orientations.csv → ...ls/Greenstone/Greenstone_orientations.csv b/...ls/Greenstone/Greenstone_orientations.csv → ...ls/Greenstone/Greenstone_orientations.csv
diff --git a/.../Greenstone/Greenstone_rescaling_data.csv → .../Greenstone/Greenstone_rescaling_data.csv b/.../Greenstone/Greenstone_rescaling_data.csv → .../Greenstone/Greenstone_rescaling_data.csv
diff --git a/...dels/Greenstone/Greenstone_resolution.npy → ...dels/Greenstone/Greenstone_resolution.npy b/...dels/Greenstone/Greenstone_resolution.npy → ...dels/Greenstone/Greenstone_resolution.npy
diff --git a/...y_models/Greenstone/Greenstone_series.csv → ...y_models/Greenstone/Greenstone_series.csv b/...y_models/Greenstone/Greenstone_series.csv → ...y_models/Greenstone/Greenstone_series.csv
diff --git a/.../Greenstone/Greenstone_surface_points.csv → .../Greenstone/Greenstone_surface_points.csv b/.../Greenstone/Greenstone_surface_points.csv → .../Greenstone/Greenstone_surface_points.csv
diff --git a/...models/Greenstone/Greenstone_surfaces.csv → ...models/Greenstone/Greenstone_surfaces.csv b/...models/Greenstone/Greenstone_surfaces.csv → ...models/Greenstone/Greenstone_surfaces.csv
diff --git a/...1_Basics/Tutorial_ch1-1_Basics_extent.npy → ...1_Basics/Tutorial_ch1-1_Basics_extent.npy b/...1_Basics/Tutorial_ch1-1_Basics_extent.npy → ...1_Basics/Tutorial_ch1-1_Basics_extent.npy
diff --git a/...1_Basics/Tutorial_ch1-1_Basics_faults.csv → ...1_Basics/Tutorial_ch1-1_Basics_faults.csv b/...1_Basics/Tutorial_ch1-1_Basics_faults.csv → ...1_Basics/Tutorial_ch1-1_Basics_faults.csv
diff --git a/...utorial_ch1-1_Basics_faults_relations.csv → ...utorial_ch1-1_Basics_faults_relations.csv b/...utorial_ch1-1_Basics_faults_relations.csv → ...utorial_ch1-1_Basics_faults_relations.csv
diff --git a/...cs/Tutorial_ch1-1_Basics_kriging_data.csv → ...cs/Tutorial_ch1-1_Basics_kriging_data.csv b/...cs/Tutorial_ch1-1_Basics_kriging_data.csv → ...cs/Tutorial_ch1-1_Basics_kriging_data.csv
diff --git a/..._Basics/Tutorial_ch1-1_Basics_options.csv → ..._Basics/Tutorial_ch1-1_Basics_options.csv b/..._Basics/Tutorial_ch1-1_Basics_options.csv → ..._Basics/Tutorial_ch1-1_Basics_options.csv
diff --git a/...cs/Tutorial_ch1-1_Basics_orientations.csv → ...cs/Tutorial_ch1-1_Basics_orientations.csv b/...cs/Tutorial_ch1-1_Basics_orientations.csv → ...cs/Tutorial_ch1-1_Basics_orientations.csv
diff --git a/.../Tutorial_ch1-1_Basics_rescaling_data.csv → .../Tutorial_ch1-1_Basics_rescaling_data.csv b/.../Tutorial_ch1-1_Basics_rescaling_data.csv → .../Tutorial_ch1-1_Basics_rescaling_data.csv
diff --git a/...sics/Tutorial_ch1-1_Basics_resolution.npy → ...sics/Tutorial_ch1-1_Basics_resolution.npy b/...sics/Tutorial_ch1-1_Basics_resolution.npy → ...sics/Tutorial_ch1-1_Basics_resolution.npy
diff --git a/...1_Basics/Tutorial_ch1-1_Basics_series.csv → ...1_Basics/Tutorial_ch1-1_Basics_series.csv b/...1_Basics/Tutorial_ch1-1_Basics_series.csv → ...1_Basics/Tutorial_ch1-1_Basics_series.csv
diff --git a/.../Tutorial_ch1-1_Basics_surface_points.csv → .../Tutorial_ch1-1_Basics_surface_points.csv b/.../Tutorial_ch1-1_Basics_surface_points.csv → .../Tutorial_ch1-1_Basics_surface_points.csv
diff --git a/...Basics/Tutorial_ch1-1_Basics_surfaces.csv → ...Basics/Tutorial_ch1-1_Basics_surfaces.csv b/...Basics/Tutorial_ch1-1_Basics_surfaces.csv → ...Basics/Tutorial_ch1-1_Basics_surfaces.csv
diff --git a/...Tutorial_ch1-8_Onlap_relations_extent.npy → ...Tutorial_ch1-8_Onlap_relations_extent.npy b/...Tutorial_ch1-8_Onlap_relations_extent.npy → ...Tutorial_ch1-8_Onlap_relations_extent.npy
diff --git a/...al_ch1-8_Onlap_relations_fault_blocks.npy → ...al_ch1-8_Onlap_relations_fault_blocks.npy b/...al_ch1-8_Onlap_relations_fault_blocks.npy → ...al_ch1-8_Onlap_relations_fault_blocks.npy
diff --git a/...Tutorial_ch1-8_Onlap_relations_faults.csv → ...Tutorial_ch1-8_Onlap_relations_faults.csv b/...Tutorial_ch1-8_Onlap_relations_faults.csv → ...Tutorial_ch1-8_Onlap_relations_faults.csv
diff --git a/...h1-8_Onlap_relations_faults_relations.csv → ...h1-8_Onlap_relations_faults_relations.csv b/...h1-8_Onlap_relations_faults_relations.csv → ...h1-8_Onlap_relations_faults_relations.csv
diff --git a/...torial_ch1-8_Onlap_relations_gradient.npy → ...torial_ch1-8_Onlap_relations_gradient.npy b/...torial_ch1-8_Onlap_relations_gradient.npy → ...torial_ch1-8_Onlap_relations_gradient.npy
diff --git a/...al_ch1-8_Onlap_relations_kriging_data.csv → ...al_ch1-8_Onlap_relations_kriging_data.csv b/...al_ch1-8_Onlap_relations_kriging_data.csv → ...al_ch1-8_Onlap_relations_kriging_data.csv
diff --git a/...rial_ch1-8_Onlap_relations_lith_block.npy → ...rial_ch1-8_Onlap_relations_lith_block.npy b/...rial_ch1-8_Onlap_relations_lith_block.npy → ...rial_ch1-8_Onlap_relations_lith_block.npy
diff --git a/...utorial_ch1-8_Onlap_relations_options.csv → ...utorial_ch1-8_Onlap_relations_options.csv b/...utorial_ch1-8_Onlap_relations_options.csv → ...utorial_ch1-8_Onlap_relations_options.csv
diff --git a/...al_ch1-8_Onlap_relations_orientations.csv → ...al_ch1-8_Onlap_relations_orientations.csv b/...al_ch1-8_Onlap_relations_orientations.csv → ...al_ch1-8_Onlap_relations_orientations.csv
diff --git a/..._ch1-8_Onlap_relations_rescaling_data.csv → ..._ch1-8_Onlap_relations_rescaling_data.csv b/..._ch1-8_Onlap_relations_rescaling_data.csv → ..._ch1-8_Onlap_relations_rescaling_data.csv
diff --git a/...rial_ch1-8_Onlap_relations_resolution.npy → ...rial_ch1-8_Onlap_relations_resolution.npy b/...rial_ch1-8_Onlap_relations_resolution.npy → ...rial_ch1-8_Onlap_relations_resolution.npy
diff --git a/...8_Onlap_relations_scalar_field_faults.npy → ...8_Onlap_relations_scalar_field_faults.npy b/...8_Onlap_relations_scalar_field_faults.npy → ...8_Onlap_relations_scalar_field_faults.npy
diff --git a/...1-8_Onlap_relations_scalar_field_lith.npy → ...1-8_Onlap_relations_scalar_field_lith.npy b/...1-8_Onlap_relations_scalar_field_lith.npy → ...1-8_Onlap_relations_scalar_field_lith.npy
diff --git a/...Tutorial_ch1-8_Onlap_relations_series.csv → ...Tutorial_ch1-8_Onlap_relations_series.csv b/...Tutorial_ch1-8_Onlap_relations_series.csv → ...Tutorial_ch1-8_Onlap_relations_series.csv
diff --git a/..._ch1-8_Onlap_relations_surface_points.csv → ..._ch1-8_Onlap_relations_surface_points.csv b/..._ch1-8_Onlap_relations_surface_points.csv → ..._ch1-8_Onlap_relations_surface_points.csv
diff --git a/...torial_ch1-8_Onlap_relations_surfaces.csv → ...torial_ch1-8_Onlap_relations_surfaces.csv b/...torial_ch1-8_Onlap_relations_surfaces.csv → ...torial_ch1-8_Onlap_relations_surfaces.csv
diff --git a/...al_ch1-8_Onlap_relations_values_block.npy → ...al_ch1-8_Onlap_relations_values_block.npy b/...al_ch1-8_Onlap_relations_values_block.npy → ...al_ch1-8_Onlap_relations_values_block.npy
diff --git a/...utorial_ch1-9a_Fault_relations_extent.npy → ...utorial_ch1-9a_Fault_relations_extent.npy b/...utorial_ch1-9a_Fault_relations_extent.npy → ...utorial_ch1-9a_Fault_relations_extent.npy
diff --git a/...l_ch1-9a_Fault_relations_fault_blocks.npy → ...l_ch1-9a_Fault_relations_fault_blocks.npy b/...l_ch1-9a_Fault_relations_fault_blocks.npy → ...l_ch1-9a_Fault_relations_fault_blocks.npy
diff --git a/...utorial_ch1-9a_Fault_relations_faults.csv → ...utorial_ch1-9a_Fault_relations_faults.csv b/...utorial_ch1-9a_Fault_relations_faults.csv → ...utorial_ch1-9a_Fault_relations_faults.csv
diff --git a/...1-9a_Fault_relations_faults_relations.csv → ...1-9a_Fault_relations_faults_relations.csv b/...1-9a_Fault_relations_faults_relations.csv → ...1-9a_Fault_relations_faults_relations.csv
diff --git a/...orial_ch1-9a_Fault_relations_gradient.npy → ...orial_ch1-9a_Fault_relations_gradient.npy b/...orial_ch1-9a_Fault_relations_gradient.npy → ...orial_ch1-9a_Fault_relations_gradient.npy
diff --git a/...l_ch1-9a_Fault_relations_kriging_data.csv → ...l_ch1-9a_Fault_relations_kriging_data.csv b/...l_ch1-9a_Fault_relations_kriging_data.csv → ...l_ch1-9a_Fault_relations_kriging_data.csv
diff --git a/...ial_ch1-9a_Fault_relations_lith_block.npy → ...ial_ch1-9a_Fault_relations_lith_block.npy b/...ial_ch1-9a_Fault_relations_lith_block.npy → ...ial_ch1-9a_Fault_relations_lith_block.npy
diff --git a/...torial_ch1-9a_Fault_relations_options.csv → ...torial_ch1-9a_Fault_relations_options.csv b/...torial_ch1-9a_Fault_relations_options.csv → ...torial_ch1-9a_Fault_relations_options.csv
diff --git a/...l_ch1-9a_Fault_relations_orientations.csv → ...l_ch1-9a_Fault_relations_orientations.csv b/...l_ch1-9a_Fault_relations_orientations.csv → ...l_ch1-9a_Fault_relations_orientations.csv
diff --git a/...ch1-9a_Fault_relations_rescaling_data.csv → ...ch1-9a_Fault_relations_rescaling_data.csv b/...ch1-9a_Fault_relations_rescaling_data.csv → ...ch1-9a_Fault_relations_rescaling_data.csv
diff --git a/...ial_ch1-9a_Fault_relations_resolution.npy → ...ial_ch1-9a_Fault_relations_resolution.npy b/...ial_ch1-9a_Fault_relations_resolution.npy → ...ial_ch1-9a_Fault_relations_resolution.npy
diff --git a/...a_Fault_relations_scalar_field_faults.npy → ...a_Fault_relations_scalar_field_faults.npy b/...a_Fault_relations_scalar_field_faults.npy → ...a_Fault_relations_scalar_field_faults.npy
diff --git a/...-9a_Fault_relations_scalar_field_lith.npy → ...-9a_Fault_relations_scalar_field_lith.npy b/...-9a_Fault_relations_scalar_field_lith.npy → ...-9a_Fault_relations_scalar_field_lith.npy
diff --git a/...utorial_ch1-9a_Fault_relations_series.csv → ...utorial_ch1-9a_Fault_relations_series.csv b/...utorial_ch1-9a_Fault_relations_series.csv → ...utorial_ch1-9a_Fault_relations_series.csv
diff --git a/...ch1-9a_Fault_relations_surface_points.csv → ...ch1-9a_Fault_relations_surface_points.csv b/...ch1-9a_Fault_relations_surface_points.csv → ...ch1-9a_Fault_relations_surface_points.csv
diff --git a/...orial_ch1-9a_Fault_relations_surfaces.csv → ...orial_ch1-9a_Fault_relations_surfaces.csv b/...orial_ch1-9a_Fault_relations_surfaces.csv → ...orial_ch1-9a_Fault_relations_surfaces.csv
diff --git a/...l_ch1-9a_Fault_relations_values_block.npy → ...l_ch1-9a_Fault_relations_values_block.npy b/...l_ch1-9a_Fault_relations_values_block.npy → ...l_ch1-9a_Fault_relations_values_block.npy
diff --git a/...utorial_ch1-9b_Fault_relations_extent.npy → ...utorial_ch1-9b_Fault_relations_extent.npy b/...utorial_ch1-9b_Fault_relations_extent.npy → ...utorial_ch1-9b_Fault_relations_extent.npy
diff --git a/...l_ch1-9b_Fault_relations_fault_blocks.npy → ...l_ch1-9b_Fault_relations_fault_blocks.npy b/...l_ch1-9b_Fault_relations_fault_blocks.npy → ...l_ch1-9b_Fault_relations_fault_blocks.npy
diff --git a/...utorial_ch1-9b_Fault_relations_faults.csv → ...utorial_ch1-9b_Fault_relations_faults.csv b/...utorial_ch1-9b_Fault_relations_faults.csv → ...utorial_ch1-9b_Fault_relations_faults.csv
diff --git a/...1-9b_Fault_relations_faults_relations.csv → ...1-9b_Fault_relations_faults_relations.csv b/...1-9b_Fault_relations_faults_relations.csv → ...1-9b_Fault_relations_faults_relations.csv
diff --git a/...orial_ch1-9b_Fault_relations_gradient.npy → ...orial_ch1-9b_Fault_relations_gradient.npy b/...orial_ch1-9b_Fault_relations_gradient.npy → ...orial_ch1-9b_Fault_relations_gradient.npy
diff --git a/...l_ch1-9b_Fault_relations_kriging_data.csv → ...l_ch1-9b_Fault_relations_kriging_data.csv b/...l_ch1-9b_Fault_relations_kriging_data.csv → ...l_ch1-9b_Fault_relations_kriging_data.csv
diff --git a/...ial_ch1-9b_Fault_relations_lith_block.npy → ...ial_ch1-9b_Fault_relations_lith_block.npy b/...ial_ch1-9b_Fault_relations_lith_block.npy → ...ial_ch1-9b_Fault_relations_lith_block.npy
diff --git a/...torial_ch1-9b_Fault_relations_options.csv → ...torial_ch1-9b_Fault_relations_options.csv b/...torial_ch1-9b_Fault_relations_options.csv → ...torial_ch1-9b_Fault_relations_options.csv
diff --git a/...l_ch1-9b_Fault_relations_orientations.csv → ...l_ch1-9b_Fault_relations_orientations.csv b/...l_ch1-9b_Fault_relations_orientations.csv → ...l_ch1-9b_Fault_relations_orientations.csv
diff --git a/...ch1-9b_Fault_relations_rescaling_data.csv → ...ch1-9b_Fault_relations_rescaling_data.csv b/...ch1-9b_Fault_relations_rescaling_data.csv → ...ch1-9b_Fault_relations_rescaling_data.csv
diff --git a/...ial_ch1-9b_Fault_relations_resolution.npy → ...ial_ch1-9b_Fault_relations_resolution.npy b/...ial_ch1-9b_Fault_relations_resolution.npy → ...ial_ch1-9b_Fault_relations_resolution.npy
diff --git a/...b_Fault_relations_scalar_field_faults.npy → ...b_Fault_relations_scalar_field_faults.npy b/...b_Fault_relations_scalar_field_faults.npy → ...b_Fault_relations_scalar_field_faults.npy
diff --git a/...-9b_Fault_relations_scalar_field_lith.npy → ...-9b_Fault_relations_scalar_field_lith.npy b/...-9b_Fault_relations_scalar_field_lith.npy → ...-9b_Fault_relations_scalar_field_lith.npy
diff --git a/...utorial_ch1-9b_Fault_relations_series.csv → ...utorial_ch1-9b_Fault_relations_series.csv b/...utorial_ch1-9b_Fault_relations_series.csv → ...utorial_ch1-9b_Fault_relations_series.csv
diff --git a/...ch1-9b_Fault_relations_surface_points.csv → ...ch1-9b_Fault_relations_surface_points.csv b/...ch1-9b_Fault_relations_surface_points.csv → ...ch1-9b_Fault_relations_surface_points.csv
diff --git a/...orial_ch1-9b_Fault_relations_surfaces.csv → ...orial_ch1-9b_Fault_relations_surfaces.csv b/...orial_ch1-9b_Fault_relations_surfaces.csv → ...orial_ch1-9b_Fault_relations_surfaces.csv
diff --git a/...l_ch1-9b_Fault_relations_values_block.npy → ...l_ch1-9b_Fault_relations_values_block.npy b/...l_ch1-9b_Fault_relations_values_block.npy → ...l_ch1-9b_Fault_relations_values_block.npy
diff --git a/...data/input_data/AlesModel/2018_interf.csv → ...data/input_data/AlesModel/2018_interf.csv b/...data/input_data/AlesModel/2018_interf.csv → ...data/input_data/AlesModel/2018_interf.csv
diff --git a/...AlesModel/2018_orient_clust_n_init5_0.csv → ...AlesModel/2018_orient_clust_n_init5_0.csv b/...AlesModel/2018_orient_clust_n_init5_0.csv → ...AlesModel/2018_orient_clust_n_init5_0.csv
diff --git a/...ut_data/AlesModel/_cropped_DEM_coarse.tif → ...ut_data/AlesModel/_cropped_DEM_coarse.tif b/...ut_data/AlesModel/_cropped_DEM_coarse.tif → ...ut_data/AlesModel/_cropped_DEM_coarse.tif
diff --git a/notebooks/data/input_data/Claudius/Fault.csv → examples/data/input_data/Claudius/Fault.csv b/notebooks/data/input_data/Claudius/Fault.csv → examples/data/input_data/Claudius/Fault.csv
@@ -1,94 +1,94 @@
-X,Y,Z,formation
-551308.0638427734,7817436.131347656,-9982.79296875,Claudius_fault
-551332.5639648438,7817579.006347656,-9904.140625,Claudius_fault
-551369.22265625,7817557.0078125,-9829.345703125,Claudius_fault
-551392.1899414062,7817380.302246094,-9829.375,Claudius_fault
-551295.9052734375,7817601.0048828125,-9978.935546875,Claudius_fault
-551263.0708007812,7817619.436035156,-10056.42578125,Claudius_fault
-551238.6942138672,7817445.431152344,-10134.3076171875,Claudius_fault
-551230.236328125,7817637.8671875,-10133.916015625,Claudius_fault
-551263.62109375,7817324.58984375,-10105.4716796875,Claudius_fault
-551313.3098144531,7817272.009277344,-10001.0986328125,Claudius_fault
-551198.9991455078,7817340.512207031,-10290.7216796875,Claudius_fault
-551200.4428710938,7817518.826171875,-10234.3095703125,Claudius_fault
-551250.6811523438,7817214.169921875,-10164.8349609375,Claudius_fault
-551206.1387939453,7817128.526855469,-10322.6513671875,Claudius_fault
-551290.9270019531,7817117.673828125,-10065.6259765625,Claudius_fault
-551344.9963378906,7817056.1494140625,-9946.55078125,Claudius_fault
-551269.4575195312,7817008.346191406,-10155.7412109375,Claudius_fault
-551322.4930419922,7816966.090332031,-10041.7109375,Claudius_fault
-551289.2056884766,7816802.7236328125,-10164.2353515625,Claudius_fault
-551228.7355957031,7816985.663574219,-10296.001953125,Claudius_fault
-551375.7451171875,7816857.3740234375,-9987.642578125,Claudius_fault
-551355.7924804688,7816730.1103515625,-10030.49609375,Claudius_fault
-551414.2355957031,7816951.4853515625,-9911.6533203125,Claudius_fault
-551520.7449951172,7816835.132324219,-9842.5078125,Claudius_fault
-551419.0349121094,7816755.515625,-9938.2119140625,Claudius_fault
-551497.33984375,7816916.469238281,-9819.5302734375,Claudius_fault
-551473.9345703125,7816997.806152344,-9796.5517578125,Claudius_fault
-551450.529296875,7817079.143066406,-9773.57421875,Claudius_fault
-551383.8768310547,7817231.6875,-9863.8818359375,Claudius_fault
-551454.0200195312,7817156.0537109375,-9751.478515625,Claudius_fault
-551456.6416015625,7817233.363769531,-9730.7548828125,Claudius_fault
-551458.6007080078,7817311.084472656,-9711.509765625,Claudius_fault
-551426.5402832031,7817397.7392578125,-9762.8623046875,Claudius_fault
-551408.2010498047,7817522.5703125,-9771.2919921875,Claudius_fault
-551461.3784179688,7817389.3876953125,-9694.8798828125,Claudius_fault
-551454.2790527344,7817438.760253906,-9704.05859375,Claudius_fault
-551447.1796875,7817488.1328125,-9713.2373046875,Claudius_fault
-551499.1973876953,7816760.854980469,-9855.96875,Claudius_fault
-551428.234375,7816643.288574219,-9934.4306640625,Claudius_fault
-551378.8187255859,7816599.999511719,-9999.4306640625,Claudius_fault
-551477.6499023438,7816686.577636719,-9869.4306640625,Claudius_fault
-551342.1833496094,7816599.999511719,-10065.8974609375,Claudius_fault
-551290.9747314453,7816698.323730469,-10164.35546875,Claudius_fault
-551305.5483398438,7816600.0,-10132.3642578125,Claudius_fault
-551245.0620117188,7816742.201660156,-10302.87109375,Claudius_fault
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+X,Y,Z,formation
+551308.0638427734,7817436.131347656,-9982.79296875,Claudius_fault
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diff --git a/...ata/input_data/Moureze/Moureze_Points.csv → ...ata/input_data/Moureze/Moureze_Points.csv b/...ata/input_data/Moureze/Moureze_Points.csv → ...ata/input_data/Moureze/Moureze_Points.csv
diff --git a/...s/data/input_data/Moureze/Sections_EW.csv → ...s/data/input_data/Moureze/Sections_EW.csv b/...s/data/input_data/Moureze/Sections_EW.csv → ...s/data/input_data/Moureze/Sections_EW.csv
diff --git a/...s/data/input_data/Moureze/Sections_NS.csv → ...s/data/input_data/Moureze/Sections_NS.csv b/...s/data/input_data/Moureze/Sections_NS.csv → ...s/data/input_data/Moureze/Sections_NS.csv
diff --git a/...jan_models/fixture_model_orientations.csv → ...jan_models/fixture_model_orientations.csv b/...jan_models/fixture_model_orientations.csv → ...jan_models/fixture_model_orientations.csv
diff --git a/...ata/jan_models/fixture_model_surfaces.csv → ...ata/jan_models/fixture_model_surfaces.csv b/...ata/jan_models/fixture_model_surfaces.csv → ...ata/jan_models/fixture_model_surfaces.csv
diff --git a/...t_data/jan_models/model1_orientations.csv → ...t_data/jan_models/model1_orientations.csv b/...t_data/jan_models/model1_orientations.csv → ...t_data/jan_models/model1_orientations.csv
diff --git a/...data/jan_models/model1_surface_points.csv → ...data/jan_models/model1_surface_points.csv b/...data/jan_models/model1_surface_points.csv → ...data/jan_models/model1_surface_points.csv
diff --git a/...t_data/jan_models/model2_orientations.csv → ...t_data/jan_models/model2_orientations.csv b/...t_data/jan_models/model2_orientations.csv → ...t_data/jan_models/model2_orientations.csv
diff --git a/...data/jan_models/model2_surface_points.csv → ...data/jan_models/model2_surface_points.csv b/...data/jan_models/model2_surface_points.csv → ...data/jan_models/model2_surface_points.csv
diff --git a/...t_data/jan_models/model3_orientations.csv → ...t_data/jan_models/model3_orientations.csv b/...t_data/jan_models/model3_orientations.csv → ...t_data/jan_models/model3_orientations.csv
diff --git a/...data/jan_models/model3_surface_points.csv → ...data/jan_models/model3_surface_points.csv b/...data/jan_models/model3_surface_points.csv → ...data/jan_models/model3_surface_points.csv
diff --git a/...t_data/jan_models/model4_orientations.csv → ...t_data/jan_models/model4_orientations.csv b/...t_data/jan_models/model4_orientations.csv → ...t_data/jan_models/model4_orientations.csv
diff --git a/...data/jan_models/model4_surface_points.csv → ...data/jan_models/model4_surface_points.csv b/...data/jan_models/model4_surface_points.csv → ...data/jan_models/model4_surface_points.csv
diff --git a/...t_data/jan_models/model5_orientations.csv → ...t_data/jan_models/model5_orientations.csv b/...t_data/jan_models/model5_orientations.csv → ...t_data/jan_models/model5_orientations.csv
diff --git a/...data/jan_models/model5_surface_points.csv → ...data/jan_models/model5_surface_points.csv b/...data/jan_models/model5_surface_points.csv → ...data/jan_models/model5_surface_points.csv
diff --git a/...t_data/jan_models/model6_orientations.csv → ...t_data/jan_models/model6_orientations.csv b/...t_data/jan_models/model6_orientations.csv → ...t_data/jan_models/model6_orientations.csv
diff --git a/...data/jan_models/model6_surface_points.csv → ...data/jan_models/model6_surface_points.csv b/...data/jan_models/model6_surface_points.csv → ...data/jan_models/model6_surface_points.csv
diff --git a/...t_data/jan_models/model7_orientations.csv → ...t_data/jan_models/model7_orientations.csv b/...t_data/jan_models/model7_orientations.csv → ...t_data/jan_models/model7_orientations.csv
diff --git a/...data/jan_models/model7_surface_points.csv → ...data/jan_models/model7_surface_points.csv b/...data/jan_models/model7_surface_points.csv → ...data/jan_models/model7_surface_points.csv
diff --git a/...ta/input_data/lisa_models/foliations1.csv → ...ta/input_data/lisa_models/foliations1.csv b/...ta/input_data/lisa_models/foliations1.csv → ...ta/input_data/lisa_models/foliations1.csv
diff --git a/...ta/input_data/lisa_models/foliations2.csv → ...ta/input_data/lisa_models/foliations2.csv b/...ta/input_data/lisa_models/foliations2.csv → ...ta/input_data/lisa_models/foliations2.csv
diff --git a/...ta/input_data/lisa_models/foliations3.csv → ...ta/input_data/lisa_models/foliations3.csv b/...ta/input_data/lisa_models/foliations3.csv → ...ta/input_data/lisa_models/foliations3.csv
diff --git a/...ta/input_data/lisa_models/foliations5.csv → ...ta/input_data/lisa_models/foliations5.csv b/...ta/input_data/lisa_models/foliations5.csv → ...ta/input_data/lisa_models/foliations5.csv
diff --git a/...ta/input_data/lisa_models/foliations6.csv → ...ta/input_data/lisa_models/foliations6.csv b/...ta/input_data/lisa_models/foliations6.csv → ...ta/input_data/lisa_models/foliations6.csv
diff --git a/...ta/input_data/lisa_models/foliations7.csv → ...ta/input_data/lisa_models/foliations7.csv b/...ta/input_data/lisa_models/foliations7.csv → ...ta/input_data/lisa_models/foliations7.csv
diff --git a/...ta/input_data/lisa_models/foliations8.csv → ...ta/input_data/lisa_models/foliations8.csv b/...ta/input_data/lisa_models/foliations8.csv → ...ta/input_data/lisa_models/foliations8.csv
diff --git a/...ta/input_data/lisa_models/foliations9.csv → ...ta/input_data/lisa_models/foliations9.csv b/...ta/input_data/lisa_models/foliations9.csv → ...ta/input_data/lisa_models/foliations9.csv
diff --git a/...ta/input_data/lisa_models/interfaces1.csv → ...ta/input_data/lisa_models/interfaces1.csv b/...ta/input_data/lisa_models/interfaces1.csv → ...ta/input_data/lisa_models/interfaces1.csv
diff --git a/...ta/input_data/lisa_models/interfaces2.csv → ...ta/input_data/lisa_models/interfaces2.csv b/...ta/input_data/lisa_models/interfaces2.csv → ...ta/input_data/lisa_models/interfaces2.csv
diff --git a/...ta/input_data/lisa_models/interfaces3.csv → ...ta/input_data/lisa_models/interfaces3.csv b/...ta/input_data/lisa_models/interfaces3.csv → ...ta/input_data/lisa_models/interfaces3.csv
diff --git a/...ta/input_data/lisa_models/interfaces5.csv → ...ta/input_data/lisa_models/interfaces5.csv b/...ta/input_data/lisa_models/interfaces5.csv → ...ta/input_data/lisa_models/interfaces5.csv
diff --git a/...ta/input_data/lisa_models/interfaces6.csv → ...ta/input_data/lisa_models/interfaces6.csv b/...ta/input_data/lisa_models/interfaces6.csv → ...ta/input_data/lisa_models/interfaces6.csv
diff --git a/...ta/input_data/lisa_models/interfaces7.csv → ...ta/input_data/lisa_models/interfaces7.csv b/...ta/input_data/lisa_models/interfaces7.csv → ...ta/input_data/lisa_models/interfaces7.csv
diff --git a/...ta/input_data/lisa_models/interfaces8.csv → ...ta/input_data/lisa_models/interfaces8.csv b/...ta/input_data/lisa_models/interfaces8.csv → ...ta/input_data/lisa_models/interfaces8.csv
diff --git a/...ta/input_data/lisa_models/interfaces9.csv → ...ta/input_data/lisa_models/interfaces9.csv b/...ta/input_data/lisa_models/interfaces9.csv → ...ta/input_data/lisa_models/interfaces9.csv
diff --git a/.../Paper_GU2F_sc_faults_topo_Foliations.csv → .../Paper_GU2F_sc_faults_topo_Foliations.csv b/.../Paper_GU2F_sc_faults_topo_Foliations.csv → .../Paper_GU2F_sc_faults_topo_Foliations.csv
diff --git a/...asin/Paper_GU2F_sc_faults_topo_Points.csv → ...asin/Paper_GU2F_sc_faults_topo_Points.csv b/...asin/Paper_GU2F_sc_faults_topo_Points.csv → ...asin/Paper_GU2F_sc_faults_topo_Points.csv
diff --git a/...ata/striplog_integration/alpha_strip.tops → ...ata/striplog_integration/alpha_strip.tops b/...ata/striplog_integration/alpha_strip.tops → ...ata/striplog_integration/alpha_strip.tops
diff --git a/...data/striplog_integration/beta_strip.tops → ...data/striplog_integration/beta_strip.tops b/...data/striplog_integration/beta_strip.tops → ...data/striplog_integration/beta_strip.tops
diff --git a/...a/striplog_integration/epsilon_strip.tops → ...a/striplog_integration/epsilon_strip.tops b/...a/striplog_integration/epsilon_strip.tops → ...a/striplog_integration/epsilon_strip.tops
diff --git a/...ata/striplog_integration/gamma_strip.tops → ...ata/striplog_integration/gamma_strip.tops b/...ata/striplog_integration/gamma_strip.tops → ...ata/striplog_integration/gamma_strip.tops
diff --git a/...ooks/data/input_data/tut-ch1-7/bogota.tif → ...ples/data/input_data/tut-ch1-7/bogota.tif b/...ooks/data/input_data/tut-ch1-7/bogota.tif → ...ples/data/input_data/tut-ch1-7/bogota.tif
diff --git a/...ut_data/tut-ch1-7/onelayer_interfaces.csv → ...ut_data/tut-ch1-7/onelayer_interfaces.csv b/...ut_data/tut-ch1-7/onelayer_interfaces.csv → ...ut_data/tut-ch1-7/onelayer_interfaces.csv
diff --git a/.../input_data/tut-ch1-7/onelayer_orient.csv → .../input_data/tut-ch1-7/onelayer_orient.csv b/.../input_data/tut-ch1-7/onelayer_orient.csv → .../input_data/tut-ch1-7/onelayer_orient.csv
diff --git a/...ta/tut_SandStone/SandStone_Foliations.csv → ...ta/tut_SandStone/SandStone_Foliations.csv b/...ta/tut_SandStone/SandStone_Foliations.csv → ...ta/tut_SandStone/SandStone_Foliations.csv
diff --git a/...t_data/tut_SandStone/SandStone_Points.csv → ...t_data/tut_SandStone/SandStone_Points.csv b/...t_data/tut_SandStone/SandStone_Points.csv → ...t_data/tut_SandStone/SandStone_Points.csv
diff --git a/...nput_data/tut_SandStone/Sst_grav_1000.xyz → ...nput_data/tut_SandStone/Sst_grav_1000.xyz b/...nput_data/tut_SandStone/Sst_grav_1000.xyz → ...nput_data/tut_SandStone/Sst_grav_1000.xyz
diff --git a/...nput_data/tut_SandStone/Sst_grav_2000.xyz → ...nput_data/tut_SandStone/Sst_grav_2000.xyz b/...nput_data/tut_SandStone/Sst_grav_2000.xyz → ...nput_data/tut_SandStone/Sst_grav_2000.xyz
diff --git a/...input_data/tut_SandStone/Sst_grav_500.xyz → ...input_data/tut_SandStone/Sst_grav_500.xyz b/...input_data/tut_SandStone/Sst_grav_500.xyz → ...input_data/tut_SandStone/Sst_grav_500.xyz
diff --git a/...put_data/tut_SandStone/Uncertainties.xlsx → ...put_data/tut_SandStone/Uncertainties.xlsx b/...put_data/tut_SandStone/Uncertainties.xlsx → ...put_data/tut_SandStone/Uncertainties.xlsx
diff --git a/.../input_data/tut_SandStone/parameters.xlsx → .../input_data/tut_SandStone/parameters.xlsx b/.../input_data/tut_SandStone/parameters.xlsx → .../input_data/tut_SandStone/parameters.xlsx
diff --git a/...ta/input_data/tut_SandStone/real_grav.npy → ...ta/input_data/tut_SandStone/real_grav.npy b/...ta/input_data/tut_SandStone/real_grav.npy → ...ta/input_data/tut_SandStone/real_grav.npy
diff --git a/...ault_unconformity_model_orientations.csv# → ...ault_unconformity_model_orientations.csv# b/...ault_unconformity_model_orientations.csv# → ...ault_unconformity_model_orientations.csv#
diff --git a/...lock.fault_unconformity_model_points.csv# → ...lock.fault_unconformity_model_points.csv# b/...lock.fault_unconformity_model_points.csv# → ...lock.fault_unconformity_model_points.csv#
diff --git a/...fault_unconformity_model_orientations.csv → ...fault_unconformity_model_orientations.csv b/...fault_unconformity_model_orientations.csv → ...fault_unconformity_model_orientations.csv
diff --git a/...pter1/fault_unconformity_model_points.csv → ...pter1/fault_unconformity_model_points.csv b/...pter1/fault_unconformity_model_points.csv → ...pter1/fault_unconformity_model_points.csv
diff --git a/...pter1/simple_fault_model_orientations.csv → ...pter1/simple_fault_model_orientations.csv b/...pter1/simple_fault_model_orientations.csv → ...pter1/simple_fault_model_orientations.csv
diff --git a/...imple_fault_model_orientations_geophy.csv → ...imple_fault_model_orientations_geophy.csv b/...imple_fault_model_orientations_geophy.csv → ...imple_fault_model_orientations_geophy.csv
diff --git a/...ut_chapter1/simple_fault_model_points.csv → ...ut_chapter1/simple_fault_model_points.csv b/...ut_chapter1/simple_fault_model_points.csv → ...ut_chapter1/simple_fault_model_points.csv
diff --git a/...ter1/simple_fault_model_points_geophy.csv → ...ter1/simple_fault_model_points_geophy.csv b/...ter1/simple_fault_model_points_geophy.csv → ...ter1/simple_fault_model_points_geophy.csv
diff --git a/.../input_data/tut_chapter6/ch6_data_fol.csv → .../input_data/tut_chapter6/ch6_data_fol.csv b/.../input_data/tut_chapter6/ch6_data_fol.csv → .../input_data/tut_chapter6/ch6_data_fol.csv
diff --git a/...put_data/tut_chapter6/ch6_data_interf.csv → ...put_data/tut_chapter6/ch6_data_interf.csv b/...put_data/tut_chapter6/ch6_data_interf.csv → ...put_data/tut_chapter6/ch6_data_interf.csv
diff --git a/examples/examples/Alesmodel - Plotting sections and maps.py b/examples/examples/Alesmodel - Plotting sections and maps.py
@@ -0,0 +1,121 @@
+# ---
+# jupyter:
+#   jupytext:
+#     text_representation:
+#       extension: .py
+#       format_name: sphinx
+#       format_version: '1.1'
+#       jupytext_version: 1.4.2
+#   kernelspec:
+#     display_name: Python 3
+#     language: python
+#     name: python3
+# ---
+
+#import warnings
+import sys
+sys.path.append("../..")
+
+import gempy as gp
+import numpy as np
+import matplotlib.pyplot as plt
+import os
+
+""
+path_interf = os.pardir+"/data/input_data/AlesModel/2018_interf.csv"
+path_orient = os.pardir+"/data/input_data/AlesModel/2018_orient_clust_n_init5_0.csv"
+path_dem = os.pardir+"/data/input_data/AlesModel/_cropped_DEM_coarse.tif"
+
+""
+resolution = [100, 100, 100]
+extent = np.array([729550.0, 751500.0, 1913500.0, 1923650.0, -1800.0, 800.0])
+geo_model = gp.create_model('Alesmodel')
+gp.init_data(geo_model, extent = extent, resolution = resolution,
+                        path_i = path_interf,
+                        path_o = path_orient)
+
+""
+sdict = {'section1':([732000, 1916000],[745000,1916000],[200,150])}
+geo_model.grid.create_section_grid(sdict)
+
+""
+print(len(geo_model.orientations.df))
+print(len(geo_model.surface_points.df))
+print(len(geo_model.surfaces.df))
+
+""
+#sorting of lithologies
+gp.map_series_to_surfaces(geo_model,{'fault_left':('fault_left'),
+                        'fault_right':('fault_right'),
+                        'fault_lr':('fault_lr'),
+                        'Trias_Series':('TRIAS','LIAS'), 
+                        'Carbon_Series':('CARBO'), 
+                        'Basement_Series':('basement')},remove_unused_series=True)
+
+""
+colordict = {'LIAS':'#015482', 'TRIAS': '#9f0052', 'CARBO':'#ffbe00','basement':'#728f02',
+            'fault_left':'#2a2a2a','fault_right':'#545454', 'fault_lr': '#a5a391'}
+geo_model.surfaces.colors.change_colors(colordict)
+
+""
+a = gp.plot.plot_data(geo_model,direction='y')
+
+""
+geo_model.rescaling
+
+""
+gp.plot.plot_section_traces(geo_model, contour_lines=True, show_all_data=False)
+
+"""
+##### Faults
+"""
+
+geo_model.set_is_fault(['fault_right', 'fault_left', 'fault_lr'], change_color=True)
+
+""
+gp.set_interpolation_data(geo_model,
+                          output=['geology'], compile_theano=True,
+                          theano_optimizer='fast_run', dtype='float64',
+                          verbose=[])
+
+###############################################################################
+# ### Topography
+
+geo_model.set_topography(source='gdal', filepath=path_dem)
+
+""
+from scipy.spatial import Delaunay
+tri=Delaunay(geo_model.grid.topography.values[:,:2])
+f = tri.simplices
+f
+
+""
+geo_model.grid.topography.values_3D.shape, geo_model.grid.topography.values_3D_res.shape, geo_model.grid.topography.values.shape
+
+""
+geo_model.surfaces
+
+""
+_=gp.compute_model(geo_model, compute_mesh=True, compute_mesh_options={'rescale': True})
+
+""
+geo_model.interpolator.theano_graph.n_surfaces_per_series.get_value()
+
+""
+geo_model.interpolator.print_theano_shared()
+
+""
+gp.plot.plot_section(geo_model, 4, direction='y',show_topo=True, show_data=True, show_faults=True, show_all_data=True)
+
+""
+gp.plot.plot_map(geo_model, show_data=False, contour_lines=False)
+
+""
+#np.save('Ales_vert3', geo_model.solutions.vertices)
+#np.save('Ales_edges3', geo_model.solutions.edges)
+
+""
+gp.plot.plot_ar(geo_model)
+
+""
+