├── .gitignore ├── .vscode └── launch.json ├── Examples ├── Gravity │ └── Greenstone_gravity.py ├── SeriesStack │ ├── model-Kevitsa.py │ ├── model2-Anticline copy.py │ ├── model2-Anticline.py │ ├── model5-Faults.py │ ├── model6-Unconformity.py │ └── model7-multilayer.py ├── model1-Horizontalstratigraphic.py ├── model2-Anticline.py ├── model3-Recumbent Fold.py ├── model4-Pinchout.py ├── model5-Faults.py ├── model6-Unconformity.py └── model7-combination.py ├── GP_old ├── .travis.yml ├── .vscode │ ├── launch.json │ └── settings.json ├── CONTRIBUTING.md ├── DevelopersGuide.txt ├── Dockerfile ├── LICENSE ├── MANIFEST.in ├── README.md ├── docs │ ├── .buildinfo │ ├── .nojekyll │ ├── CNAME │ ├── Makefile │ ├── index.html │ ├── main_docstrings │ ├── objects.inv │ └── source │ │ ├── _static │ │ ├── logos │ │ │ ├── favicon.ico │ │ │ ├── gempy.png │ │ │ ├── gempy1.pdf │ │ │ ├── gempy1.png │ │ │ ├── gempy2.pdf │ │ │ ├── gempy3.pdf │ │ │ ├── gempy3.png │ │ │ ├── legacy │ │ │ │ ├── gempy1.pdf │ │ │ │ ├── gempy1.png │ │ │ │ ├── gempy1.svg │ │ │ │ ├── gempy2.pdf │ │ │ │ ├── gempy2.svg │ │ │ │ ├── gempy3.pdf │ │ │ │ ├── gempy3.svg │ │ │ │ ├── gempy_squared.ico │ │ │ │ └── gempy_squared2.ico │ │ │ └── logo_CGRE.png │ │ └── nothing.txt │ │ ├── about.rst │ │ ├── code.rst │ │ ├── conf.py │ │ ├── images │ │ ├── ge.png │ │ ├── gempy_zunc.png │ │ ├── google_Earth.svg │ │ ├── input_example.png │ │ ├── institute.JPG │ │ ├── model_example.png │ │ ├── model_examples.png │ │ ├── modeling_principle.png │ │ ├── sandbox.jpg │ │ ├── sandstone_example.png │ │ ├── uncertainty.png │ │ └── vtkFault.png │ │ └── index.rst ├── gempy │ ├── __init__.py │ ├── addons │ │ ├── __init__.py │ │ ├── gempy_to_rexfile.py │ │ ├── petrel_integration.py │ │ └── rex_api.py │ ├── assets │ │ ├── __init__.py │ │ ├── coKriging.py │ │ ├── decision_making.py │ │ ├── geophysics.py │ │ ├── kriging.py │ │ ├── model_compare.py │ │ ├── opt_grid.py │ │ ├── spill_analysis.py │ │ └── topology.py │ ├── bayesian │ │ ├── __init__.py │ │ ├── axes_utils.py │ │ ├── joyplot.py │ │ ├── plot_posterior.py │ │ ├── posterior_analysis_DEP.py │ │ └── posterior_analysis_elisa.py │ ├── core │ │ ├── __init__.py │ │ ├── api_modules │ │ │ ├── __init__.py │ │ │ ├── aux_func.py │ │ │ ├── data_mutation.py │ │ │ └── loading_data.py │ │ ├── checkers.py │ │ ├── data.py │ │ ├── gempy_api.py │ │ ├── grid_modules │ │ │ ├── __init__.py │ │ │ └── grid_types.py │ │ ├── interpolator.py │ │ ├── interpolator_pro.py │ │ ├── model.py │ │ ├── qgrid_integration.py │ │ ├── solution.py │ │ ├── tensor │ │ │ ├── modeltf.py │ │ │ ├── modeltf_var.py │ │ │ ├── modeltf_working.py │ │ │ ├── notused │ │ │ │ ├── tensorflow_graph_uncon1 copy.py │ │ │ │ ├── tensorflow_graph_uncon1.py │ │ │ │ └── tensorflow_graph_uncon1_copy_Jan13.py │ │ │ ├── tensorflow_graph_test.py │ │ │ ├── tensorflow_graph_uncon.py │ │ │ ├── tensorflow_graph_uncon0.py │ │ │ ├── tensorflow_graph_uncon_old.py │ │ │ ├── tensorflow_graph_uncon_sig.py │ │ │ ├── tensorflow_graph_uncon_sig_fault.py │ │ │ └── tensorflow_graph_uncon_sig_fault_var.py │ │ └── theano │ │ │ ├── __init__.py │ │ │ ├── theano_export.py │ │ │ ├── theano_graph.py │ │ │ ├── theano_graph_pro.py │ │ │ └── theano_kriging.py │ ├── plot │ │ ├── __init__.py │ │ ├── decorators.py │ │ ├── helpers.py │ │ ├── my_plot.py │ │ ├── plot.py │ │ ├── plot_api.py │ │ ├── plot_utils.py │ │ ├── sequential_pile.py │ │ ├── vista.py │ │ ├── vista_aux.py │ │ ├── vista_qt.py │ │ ├── visualization_2d.py │ │ ├── visualization_2d_pro.py │ │ └── visualization_3d.py │ └── utils │ │ ├── __init__.py │ │ ├── analysis.py │ │ ├── create_topography.py │ │ ├── decimation.py │ │ ├── docstring.py │ │ ├── export.py │ │ ├── extract_geomodeller_data.py │ │ ├── fishdist.py │ │ ├── geogrid.py │ │ ├── geomodeller_integration.py │ │ ├── gradient.py │ │ ├── input_manipulation.py │ │ ├── meta.py │ │ ├── qgrid_api.py │ │ ├── section_utils.py │ │ └── theano_gpu.py ├── notebooks │ ├── Mytest │ │ ├── .ipynb_checkpoints │ │ │ ├── Tensorflow_interpolator-Copy1-checkpoint.ipynb │ │ │ ├── Tensorflow_interpolator-checkpoint.ipynb │ │ │ └── Tensorflow_interpolator-test-checkpoint.ipynb │ │ ├── Tensorflow_interpolator-Copy1.ipynb │ │ ├── Tensorflow_interpolator-test.ipynb │ │ ├── Tensorflow_interpolator.ipynb │ │ ├── logs │ │ │ └── func │ │ │ │ ├── 20200509-185416 │ │ │ │ ├── events.out.tfevents.1589043256.Zhoujis-MacBook-Pro.local.79213.11357.v2 │ │ │ │ ├── events.out.tfevents.1589043258.Zhoujis-MacBook-Pro.local.profile-empty │ │ │ │ └── plugins │ │ │ │ │ └── profile │ │ │ │ │ └── 2020-05-09_18-54-18 │ │ │ │ │ └── local.trace │ │ │ │ ├── 20200509-185423 │ │ │ │ ├── events.out.tfevents.1589043263.Zhoujis-MacBook-Pro.local.79213.11375.v2 │ │ │ │ ├── events.out.tfevents.1589043265.Zhoujis-MacBook-Pro.local.profile-empty │ │ │ │ └── plugins │ │ │ │ │ └── profile │ │ │ │ │ └── 2020-05-09_18-54-25 │ │ │ │ │ └── local.trace │ │ │ │ └── 20200509-185508 │ │ │ │ ├── events.out.tfevents.1589043308.Zhoujis-MacBook-Pro.local.79213.11393.v2 │ │ │ │ ├── events.out.tfevents.1589043312.Zhoujis-MacBook-Pro.local.profile-empty │ │ │ │ └── plugins │ │ │ │ └── profile │ │ │ │ └── 2020-05-09_18-55-12 │ │ │ │ └── local.trace │ │ └── timeGPUtest.py │ ├── data │ │ ├── figures │ │ │ ├── ipv.png │ │ │ └── ipyvolume.png │ │ ├── gempy_models │ │ │ ├── Greenstone │ │ │ │ ├── Greenstone_extent.npy │ │ │ │ ├── Greenstone_faults.csv │ │ │ │ ├── Greenstone_faults_relations.csv │ │ │ │ ├── Greenstone_kriging_data.csv │ │ │ │ ├── Greenstone_options.csv │ │ │ │ ├── Greenstone_orientations.csv │ │ │ │ ├── Greenstone_rescaling_data.csv │ │ │ │ ├── Greenstone_resolution.npy │ │ │ │ ├── Greenstone_series.csv │ │ │ │ ├── Greenstone_surface_points.csv │ │ │ │ └── Greenstone_surfaces.csv │ │ │ ├── Tutorial_ch1-1_Basics │ │ │ │ ├── Tutorial_ch1-1_Basics_extent.npy │ │ │ │ ├── Tutorial_ch1-1_Basics_faults.csv │ │ │ │ ├── Tutorial_ch1-1_Basics_faults_relations.csv │ │ │ │ ├── Tutorial_ch1-1_Basics_kriging_data.csv │ │ │ │ ├── Tutorial_ch1-1_Basics_options.csv │ │ │ │ ├── Tutorial_ch1-1_Basics_orientations.csv │ │ │ │ ├── Tutorial_ch1-1_Basics_rescaling_data.csv │ │ │ │ ├── Tutorial_ch1-1_Basics_resolution.npy │ │ │ │ ├── Tutorial_ch1-1_Basics_series.csv │ │ │ │ ├── Tutorial_ch1-1_Basics_surface_points.csv │ │ │ │ └── Tutorial_ch1-1_Basics_surfaces.csv │ │ │ ├── Tutorial_ch1-8_Onlap_relations │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_extent.npy │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_fault_blocks.npy │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_faults.csv │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_faults_relations.csv │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_gradient.npy │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_kriging_data.csv │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_lith_block.npy │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_options.csv │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_orientations.csv │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_rescaling_data.csv │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_resolution.npy │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_scalar_field_faults.npy │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_scalar_field_lith.npy │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_series.csv │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_surface_points.csv │ │ │ │ ├── Tutorial_ch1-8_Onlap_relations_surfaces.csv │ │ │ │ └── Tutorial_ch1-8_Onlap_relations_values_block.npy │ │ │ ├── Tutorial_ch1-9a_Fault_relations │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_extent.npy │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_fault_blocks.npy │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_faults.csv │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_faults_relations.csv │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_gradient.npy │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_kriging_data.csv │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_lith_block.npy │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_options.csv │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_orientations.csv │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_rescaling_data.csv │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_resolution.npy │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_scalar_field_faults.npy │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_scalar_field_lith.npy │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_series.csv │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_surface_points.csv │ │ │ │ ├── Tutorial_ch1-9a_Fault_relations_surfaces.csv │ │ │ │ └── Tutorial_ch1-9a_Fault_relations_values_block.npy │ │ │ └── Tutorial_ch1-9b_Fault_relations │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_extent.npy │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_fault_blocks.npy │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_faults.csv │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_faults_relations.csv │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_gradient.npy │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_kriging_data.csv │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_lith_block.npy │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_options.csv │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_orientations.csv │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_rescaling_data.csv │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_resolution.npy │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_scalar_field_faults.npy │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_scalar_field_lith.npy │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_series.csv │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_surface_points.csv │ │ │ │ ├── Tutorial_ch1-9b_Fault_relations_surfaces.csv │ │ │ │ └── Tutorial_ch1-9b_Fault_relations_values_block.npy │ │ └── input_data │ │ │ ├── AlesModel │ │ │ ├── 2018_interf.csv │ │ │ ├── 2018_orient_clust_n_init5_0.csv │ │ │ └── _cropped_DEM_coarse.tif │ │ │ ├── Claudius │ │ │ └── Fault.csv │ │ │ ├── George_models │ │ │ ├── 180surface_points.csv │ │ │ ├── 60surface_points.csv │ │ │ ├── Simple_surface_points.csv │ │ │ ├── computation_time.csv │ │ │ ├── computation_time_surface_points.csv │ │ │ ├── irregu_orientations.csv │ │ │ ├── irregu_surface_points.csv │ │ │ ├── irregu_surface_points_9_2.csv │ │ │ ├── irregu_surface_points_9_3.csv │ │ │ ├── irregu_surface_points_9_4.csv │ │ │ ├── model1_surface_points.csv │ │ │ ├── model2_1_orientations.csv │ │ │ ├── model2_1_surface_points.csv │ │ │ ├── model2_60data_orientations.csv │ │ │ ├── model2_60data_surface_points copy.csv │ │ │ ├── model2_orientations.csv │ │ │ ├── model2_surface_points.csv │ │ │ ├── model3_reduce_surface_points.csv │ │ │ ├── model3_surface_points.csv │ │ │ ├── model3x_surface_points.csv │ │ │ ├── model4_1_orientations.csv │ │ │ ├── model4_2_orientations.csv │ │ │ ├── model5_modified_orientations.csv │ │ │ ├── model5_modified_surface_points.csv │ │ │ ├── model7_multilayer_orientation.csv │ │ │ ├── model7_multilayer_surface_points.csv │ │ │ ├── model_twolayer_orientations.csv │ │ │ ├── model_twolayer_surface_points.csv │ │ │ ├── modelx1_orientations.csv │ │ │ ├── modelx1_surface_points.csv │ │ │ ├── modelx2_surface_points.csv │ │ │ ├── modelx_orientations.csv │ │ │ ├── modelx_surface_points.csv │ │ │ ├── modely_orientations.csv │ │ │ ├── modely_surface_points.csv │ │ │ ├── random_surface_points.csv │ │ │ └── test_surface_points.csv │ │ │ ├── Moureze │ │ │ ├── Moureze_Points.csv │ │ │ ├── Sections_EW.csv │ │ │ └── Sections_NS.csv │ │ │ ├── jan_models │ │ │ ├── fixture_model_orientations.csv │ │ │ ├── fixture_model_surfaces.csv │ │ │ ├── model1_orientations.csv │ │ │ ├── model1_surface_points.csv │ │ │ ├── model2_orientations.csv │ │ │ ├── model2_surface_points.csv │ │ │ ├── model3_orientations.csv │ │ │ ├── model3_surface_points.csv │ │ │ ├── model4_orientations.csv │ │ │ ├── model4_surface_points.csv │ │ │ ├── model5_orientations.csv │ │ │ ├── model5_surface_points.csv │ │ │ ├── model6_orientations.csv │ │ │ ├── model6_surface_points.csv │ │ │ ├── model7_orientations.csv │ │ │ └── model7_surface_points.csv │ │ │ ├── lisa_models │ │ │ ├── foliations1.csv │ │ │ ├── foliations2.csv │ │ │ ├── foliations3.csv │ │ │ ├── foliations5.csv │ │ │ ├── foliations6.csv │ │ │ ├── foliations7.csv │ │ │ ├── foliations8.csv │ │ │ ├── foliations9.csv │ │ │ ├── interfaces1.csv │ │ │ ├── interfaces2.csv │ │ │ ├── interfaces3.csv │ │ │ ├── interfaces5.csv │ │ │ ├── interfaces6.csv │ │ │ ├── interfaces7.csv │ │ │ ├── interfaces8.csv │ │ │ └── interfaces9.csv │ │ │ ├── perth_basin │ │ │ ├── Paper_GU2F_sc_faults_topo_Foliations.csv │ │ │ └── Paper_GU2F_sc_faults_topo_Points.csv │ │ │ ├── striplog_integration │ │ │ ├── alpha_strip.tops │ │ │ ├── beta_strip.tops │ │ │ ├── epsilon_strip.tops │ │ │ └── gamma_strip.tops │ │ │ ├── tut-ch1-7 │ │ │ ├── bogota.tif │ │ │ ├── onelayer_interfaces.csv │ │ │ └── onelayer_orient.csv │ │ │ ├── tut_SandStone │ │ │ ├── SandStone_Foliations.csv │ │ │ ├── SandStone_Points.csv │ │ │ ├── Sst_grav_1000.xyz │ │ │ ├── Sst_grav_2000.xyz │ │ │ ├── Sst_grav_500.xyz │ │ │ ├── Uncertainties.xlsx │ │ │ ├── parameters.xlsx │ │ │ └── real_grav.npy │ │ │ ├── tut_chapter1 │ │ │ ├── .~lock.fault_unconformity_model_orientations.csv# │ │ │ ├── .~lock.fault_unconformity_model_points.csv# │ │ │ ├── fault_unconformity_model_orientations.csv │ │ │ ├── fault_unconformity_model_points.csv │ │ │ ├── simple_fault_model_orientations.csv │ │ │ ├── simple_fault_model_orientations_geophy.csv │ │ │ ├── simple_fault_model_points.csv │ │ │ └── simple_fault_model_points_geophy.csv │ │ │ └── tut_chapter6 │ │ │ ├── ch6_data_fol.csv │ │ │ └── ch6_data_interf.csv │ ├── examples │ │ ├── .ipynb_checkpoints │ │ │ ├── Greenstone-checkpoint.ipynb │ │ │ ├── Model 1 - Horizontal stratigraphic-checkpoint.ipynb │ │ │ ├── Model 2 - Fold-Copy1-checkpoint.ipynb │ │ │ └── Model 2 - Fold-checkpoint.ipynb │ │ ├── Alesmodel - Plotting sections and maps.ipynb │ │ ├── Greenstone.ipynb │ │ ├── ImplicitBenchmark │ │ │ ├── .ipynb_checkpoints │ │ │ │ └── Claudius-checkpoint.ipynb │ │ │ ├── Claudius.ipynb │ │ │ ├── Claudius.png │ │ │ ├── Hecho.ipynb │ │ │ ├── Moureze.ipynb │ │ │ └── Moureze.png │ │ ├── Model 1 - Horizontal stratigraphic.ipynb │ │ ├── Model 2 - Fold-Copy1.ipynb │ │ ├── Model 2 - Fold.ipynb │ │ ├── Model 3 - Recumbent Fold.ipynb │ │ ├── Model 4 - Pinchout.ipynb │ │ ├── Model 5 - Fault.ipynb │ │ ├── Model 6 - Unconformity.ipynb │ │ ├── Models_Lisa │ │ │ ├── GemPy Models_Examples.ipynb │ │ │ └── Plots │ │ │ │ ├── Model1.JPG │ │ │ │ ├── Model2.JPG │ │ │ │ ├── Model3.JPG │ │ │ │ ├── Model5.JPG │ │ │ │ ├── Model6.JPG │ │ │ │ ├── Model7.JPG │ │ │ │ ├── Model8.JPG │ │ │ │ └── Model9.JPG │ │ ├── Picture 1.png │ │ ├── STC-Course.ipynb │ │ ├── model2.png │ │ └── perth_basin.ipynb │ ├── experimental │ │ ├── 1D Reservoir Model.ipynb │ │ ├── GemFe.ipynb │ │ ├── GemPy Features Presentation.ipynb │ │ ├── Loss Function.ipynb │ │ ├── Topography - Dealing with raster formats.ipynb │ │ ├── addons │ │ │ ├── AR_sandbox │ │ │ │ └── Sandbox.ipynb │ │ │ ├── pynoody │ │ │ │ └── pynoddy.ipynb │ │ │ └── rgeomod_google_earth │ │ │ │ ├── 01_test_installation.ipynb │ │ │ │ ├── 02_data_processing.ipynb │ │ │ │ ├── 03_geological_modeling.ipynb │ │ │ │ ├── Namibia_Okarapehoui.ipynb │ │ │ │ ├── data │ │ │ │ ├── dome_sub_sub_utm.tif │ │ │ │ ├── ge_placemark_template_fol.xml │ │ │ │ ├── ge_placemark_template_interf.xml │ │ │ │ ├── ge_template_raw_fol.xml │ │ │ │ ├── ge_template_raw_interf.xml │ │ │ │ ├── gempy_foliations.csv │ │ │ │ └── gempy_interfaces.csv │ │ │ │ └── workflow.ipynb │ │ ├── ch1-a-Modify Kriging parameters.ipynb │ │ ├── gempy-paper │ │ │ ├── GemPy paper-Likelihoods.ipynb │ │ │ ├── GemPy paper-UQ.ipynb │ │ │ ├── GemPy paper-gravity.ipynb │ │ │ ├── GemPy_paper-model_topology.ipynb │ │ │ └── input_data │ │ │ │ ├── paper_Orientations.csv │ │ │ │ ├── paper_Points.csv │ │ │ │ └── real_grav.npy │ │ ├── gradient │ │ │ ├── .ipynb_checkpoints │ │ │ │ └── ch1-gradient-checkpoint.ipynb │ │ │ └── ch1-gradient.ipynb │ │ ├── gradient_field │ │ │ └── ch1-IntGradients.ipynb │ │ ├── input_data │ │ │ ├── Elisa_model-interfaces.csv │ │ │ ├── Elisa_model-orientations.csv │ │ │ ├── FAULTS.csv │ │ │ ├── FORMATIONS.csv │ │ │ ├── Paper_GU2F_sc_faults_topo_Foliations.csv │ │ │ ├── Paper_GU2F_sc_faults_topo_Points.csv │ │ │ ├── foldmodel_interf.csv │ │ │ ├── foldmodel_interf10.csv │ │ │ ├── foldmodel_orient.csv │ │ │ └── foldmodel_orient10.csv │ │ ├── kriging_examples │ │ │ ├── 3D Plotting exampe .ipynb │ │ │ ├── Comparison GSTools.ipynb │ │ │ ├── Distances tests.ipynb │ │ │ ├── Fixture Model Example.ipynb │ │ │ ├── General kriging comparison.ipynb │ │ │ ├── Simple example of kriging - test.ipynb │ │ │ ├── The Nugget effect.ipynb │ │ │ └── Variogram testing.ipynb │ │ ├── prob │ │ │ ├── .ipynb_checkpoints │ │ │ │ ├── 2-Gradient-Proof-checkpoint.ipynb │ │ │ │ ├── 3-HMC-Posterior-Analysis-checkpoint.ipynb │ │ │ │ └── 3-HMC-checkpoint.ipynb │ │ │ ├── .pymc_1.trace │ │ │ │ └── 0 │ │ │ │ │ ├── metadata.json │ │ │ │ │ └── samples.npz │ │ │ ├── 1-Metropolis.ipynb │ │ │ ├── 2-Gradient-Proof.ipynb │ │ │ ├── 2.2-Gradient-VanishingGradient.ipynb │ │ │ ├── 2.3-Gradient-ReLu.ipynb │ │ │ ├── 2.4-Gradient-the_problem_of_large_values.ipynb │ │ │ ├── 3-HMC-Posterior-Analysis.ipynb │ │ │ ├── 3-HMC-Prototype.ipynb │ │ │ ├── 3-HMC.ipynb │ │ │ ├── 4-Profiling-GPU-Copy1.ipynb │ │ │ └── 4-Profiling-GPU.ipynb │ │ ├── pyivsta_dev_alex.ipynb │ │ ├── pynoddy-gempy │ │ │ ├── ch4_model.his │ │ │ ├── ch4_noddy_model_creation.ipynb │ │ │ └── pynoddy-gempy.ipynb │ │ ├── pyvista_dev.ipynb │ │ ├── pyvista_gempy-dev2.ipynb │ │ ├── pyvista_gempy-dev3-Topography.ipynb │ │ ├── smooth_animations │ │ │ ├── Smooth_animation_setup.ipynb │ │ │ └── ch1-Florian.ipynb │ │ ├── stochasticsurface │ │ │ ├── agile_equinor_geocomp_example.ipynb │ │ │ ├── orientpts.csv │ │ │ ├── simple_fault_model_orientations.csv │ │ │ ├── simple_fault_model_points.csv │ │ │ ├── stochastic_surface_class.ipynb │ │ │ ├── stochasticsurf.py │ │ │ └── surfpts.csv │ │ └── topology │ │ │ ├── topology_numpy.py │ │ │ └── topology_prototype.ipynb │ ├── integrations │ │ ├── GemPy-Striplog.ipynb │ │ ├── GemPy-discretize-emg3d.ipynb │ │ └── GemPy-export-MOOSE.ipynb │ └── tutorials │ │ ├── advanced │ │ └── Modifying smoothing.ipynb │ │ ├── ch1-Fundamentals │ │ ├── Ch1-10a_2D_Visualization.ipynb │ │ ├── ch1-1_Basics.ipynb │ │ ├── ch1-2_Data_Manipulation.ipynb │ │ ├── ch1-2b-ModelClass.ipynb │ │ ├── ch1-3-Grids.ipynb │ │ ├── ch1-4_Qgrid.ipynb │ │ ├── ch1-6_CreatingModels.ipynb │ │ ├── ch1-7a-CrossSections.ipynb │ │ ├── ch1-7b-Topography.ipynb │ │ ├── ch1-7c-Adding_Topography-vtk.ipynb │ │ ├── ch1-8_Onlap_relations.ipynb │ │ ├── ch1-8b-MaskedMarchinCube_Onlap_relations.ipynb │ │ ├── ch1-9a_Fault_relations.ipynb │ │ └── ch1-9b_Fault_relations.ipynb │ │ ├── ch2-Geophysics │ │ ├── .ipynb_checkpoints │ │ │ ├── ch2-1-Gravity-checkpoint.ipynb │ │ │ └── ch2-2-Cell_selection-checkpoint.ipynb │ │ ├── ch2-1-Gravity.ipynb │ │ └── ch2-2-Cell_selection.ipynb │ │ ├── ch3-Interpolations │ │ └── ch3-1-Kriging_interpolation_and_simulation.ipynb │ │ └── ch4-Topology │ │ └── ch4-1-Topology.ipynb ├── optional-requirements.txt ├── requirements.txt ├── setup.cfg ├── setup.py ├── test │ ├── __init__.py │ ├── conftest.py │ ├── context.py │ ├── figs │ │ └── __init__.py │ ├── input_data │ │ ├── 05_toy_fold_unconformity_interfaces.csv │ │ ├── 05_toy_fold_unconformity_orientations.csv │ │ ├── FabLessPoints_Foliations.csv │ │ ├── FabLessPoints_Points.csv │ │ ├── GeoModeller │ │ │ ├── test_a │ │ │ │ ├── .project │ │ │ │ ├── Middle._1.s3d │ │ │ │ ├── Middle.sec │ │ │ │ ├── Settings │ │ │ │ │ ├── 3dview_3D View.cfg │ │ │ │ │ └── viewers.cfg │ │ │ │ ├── SurfaceTopography._1.s3d │ │ │ │ ├── SurfaceTopography.sec │ │ │ │ ├── Viewer2dState │ │ │ │ │ ├── Middle.dat │ │ │ │ │ └── SurfaceTopography.dat │ │ │ │ ├── test_a.md5 │ │ │ │ ├── test_a.wsp │ │ │ │ ├── test_a.xml │ │ │ │ ├── test_a.xml.bu │ │ │ │ ├── test_a_Foliations.csv │ │ │ │ └── test_a_Points.csv │ │ │ ├── test_b │ │ │ │ ├── .project │ │ │ │ ├── Middle._1.s3d │ │ │ │ ├── Middle.sec │ │ │ │ ├── Settings │ │ │ │ │ ├── 3dview_3D View.cfg │ │ │ │ │ └── viewers.cfg │ │ │ │ ├── SurfaceTopography._1.s3d │ │ │ │ ├── SurfaceTopography.sec │ │ │ │ ├── Viewer2dState │ │ │ │ │ ├── Middle.dat │ │ │ │ │ └── SurfaceTopography.dat │ │ │ │ ├── test_b.md5 │ │ │ │ ├── test_b.xml │ │ │ │ ├── test_b.xml.bu │ │ │ │ ├── test_b_Foliations.csv │ │ │ │ └── test_b_Points.csv │ │ │ ├── test_b2 │ │ │ │ ├── .project │ │ │ │ ├── Middle._1.s3d │ │ │ │ ├── Middle.sec │ │ │ │ ├── Settings │ │ │ │ │ ├── 3dview_3D View.cfg │ │ │ │ │ └── viewers.cfg │ │ │ │ ├── SurfaceTopography._1.s3d │ │ │ │ ├── SurfaceTopography.sec │ │ │ │ ├── Viewer2dState │ │ │ │ │ ├── Middle.dat │ │ │ │ │ └── SurfaceTopography.dat │ │ │ │ ├── test_b2.md5 │ │ │ │ ├── test_b2.xml │ │ │ │ └── test_b2.xml.bu │ │ │ ├── test_b3 │ │ │ │ ├── .project │ │ │ │ ├── Middle._1.s3d │ │ │ │ ├── Middle.sec │ │ │ │ ├── Settings │ │ │ │ │ └── viewers.cfg │ │ │ │ ├── SurfaceTopography._1.s3d │ │ │ │ ├── SurfaceTopography.sec │ │ │ │ ├── Viewer2dState │ │ │ │ │ ├── Middle.dat │ │ │ │ │ └── SurfaceTopography.dat │ │ │ │ ├── test_b3.md5 │ │ │ │ ├── test_b3.xml │ │ │ │ └── test_b3.xml.bu │ │ │ ├── test_b4 │ │ │ │ ├── .project │ │ │ │ ├── Middle._1.s3d │ │ │ │ ├── Middle.sec │ │ │ │ ├── Settings │ │ │ │ │ └── viewers.cfg │ │ │ │ ├── SurfaceTopography._1.s3d │ │ │ │ ├── SurfaceTopography.sec │ │ │ │ ├── Viewer2dState │ │ │ │ │ ├── Middle.dat │ │ │ │ │ └── SurfaceTopography.dat │ │ │ │ ├── test_b4.md5 │ │ │ │ ├── test_b4.xml │ │ │ │ └── test_b4.xml.bu │ │ │ ├── test_c │ │ │ │ ├── .project │ │ │ │ ├── Middle._1.s3d │ │ │ │ ├── Middle.sec │ │ │ │ ├── Settings │ │ │ │ │ ├── 3dview_3D View.cfg │ │ │ │ │ └── viewers.cfg │ │ │ │ ├── SurfaceTopography._1.s3d │ │ │ │ ├── SurfaceTopography.sec │ │ │ │ ├── Viewer2dState │ │ │ │ │ ├── Middle.dat │ │ │ │ │ └── SurfaceTopography.dat │ │ │ │ ├── test_c.md5 │ │ │ │ ├── test_c.xml │ │ │ │ ├── test_c.xml.bu │ │ │ │ ├── test_c_Foliations.csv │ │ │ │ └── test_c_Points.csv │ │ │ ├── test_d │ │ │ │ ├── .project │ │ │ │ ├── Middle._1.s3d │ │ │ │ ├── Middle.sec │ │ │ │ ├── Settings │ │ │ │ │ ├── 3dview_3D View.cfg │ │ │ │ │ └── viewers.cfg │ │ │ │ ├── SurfaceTopography._1.s3d │ │ │ │ ├── SurfaceTopography.sec │ │ │ │ ├── Viewer2dState │ │ │ │ │ ├── Middle.dat │ │ │ │ │ └── SurfaceTopography.dat │ │ │ │ ├── test_d.md5 │ │ │ │ ├── test_d.xml │ │ │ │ ├── test_d.xml.bu │ │ │ │ ├── test_d_Foliations.csv │ │ │ │ └── test_d_Points.csv │ │ │ ├── test_e │ │ │ │ ├── .project │ │ │ │ ├── Middle._1.s3d │ │ │ │ ├── Middle.sec │ │ │ │ ├── Settings │ │ │ │ │ ├── 3dview_3D View.cfg │ │ │ │ │ └── viewers.cfg │ │ │ │ ├── SurfaceTopography._1.s3d │ │ │ │ ├── SurfaceTopography.sec │ │ │ │ ├── Viewer2dState │ │ │ │ │ ├── Middle.dat │ │ │ │ │ └── SurfaceTopography.dat │ │ │ │ ├── test_e.md5 │ │ │ │ ├── test_e.xml │ │ │ │ ├── test_e.xml.bu │ │ │ │ ├── test_e_Foliations.csv │ │ │ │ └── test_e_Points.csv │ │ │ ├── test_f │ │ │ │ ├── .project │ │ │ │ ├── FootwallSection_-_parallel_fault._1.s3d │ │ │ │ ├── FootwallSection_-_parallel_fault.sec │ │ │ │ ├── MiddleSection_-_across_fault._1.s3d │ │ │ │ ├── MiddleSection_-_across_fault.sec │ │ │ │ ├── MiddleSection_-_along_fault._1.s3d │ │ │ │ ├── MiddleSection_-_along_fault.sec │ │ │ │ ├── Settings │ │ │ │ │ ├── 3dview_3D View.cfg │ │ │ │ │ └── viewers.cfg │ │ │ │ ├── SideSection1_-_across_fault.sec │ │ │ │ ├── SurfaceTopography._1.s3d │ │ │ │ ├── SurfaceTopography.sec │ │ │ │ ├── Viewer2dState │ │ │ │ │ ├── FootwallSection - parallel fault.dat │ │ │ │ │ ├── MiddleSection - across fault.dat │ │ │ │ │ ├── MiddleSection - along fault.dat │ │ │ │ │ ├── SideSection1 - across fault.dat │ │ │ │ │ └── SurfaceTopography.dat │ │ │ │ ├── test_f.md5 │ │ │ │ ├── test_f.xml │ │ │ │ ├── test_f.xml.bu │ │ │ │ ├── test_f_Foliations.csv │ │ │ │ ├── test_f_Points.csv │ │ │ │ ├── test_f_dfa_Model_NonReservoirDeep.shp │ │ │ │ ├── test_f_dfa_Model_Reservoir.shp │ │ │ │ ├── test_f_dfa_Model_Seal.shp │ │ │ │ ├── test_f_dfa_Model_SecondaryReservoir.shp │ │ │ │ ├── test_f_dfa_Model_SecondarySeal.shp │ │ │ │ └── test_f_dfa_Surface_MainFault.shp │ │ │ ├── test_g │ │ │ │ ├── .project │ │ │ │ ├── Atley._1.s3d │ │ │ │ ├── Atley.sec │ │ │ │ ├── NorthSandstone._1.s3d │ │ │ │ ├── NorthSandstone.sec │ │ │ │ ├── Seismic._1.s3d │ │ │ │ ├── Seismic.sec │ │ │ │ ├── Settings │ │ │ │ │ └── viewers.cfg │ │ │ │ ├── SurfaceTopography._1.s3d │ │ │ │ ├── Viewer2dState │ │ │ │ │ ├── Atley.dat │ │ │ │ │ ├── NorthSandstone.dat │ │ │ │ │ ├── Seismic.dat │ │ │ │ │ └── SurfaceTopography.dat │ │ │ │ ├── test_g.md5 │ │ │ │ ├── test_g.xml │ │ │ │ ├── test_g.xml.bu │ │ │ │ ├── test_g_Foliations.csv │ │ │ │ ├── test_g_Points.csv │ │ │ │ ├── test_g_dfa_Model_EarlyGranite.shp │ │ │ │ ├── test_g_dfa_Model_Murchison.shp │ │ │ │ ├── test_g_dfa_Model_SimpleBIF.shp │ │ │ │ ├── test_g_dfa_Model_SimpleMafic.shp │ │ │ │ └── test_g_dfa_Model_SimpleMafic2.shp │ │ │ └── test_h │ │ │ │ ├── .project │ │ │ │ ├── Atley._1.s3d │ │ │ │ ├── Atley.sec │ │ │ │ ├── NorthSandstone._1.s3d │ │ │ │ ├── NorthSandstone.sec │ │ │ │ ├── Seismic._1.s3d │ │ │ │ ├── Seismic.sec │ │ │ │ ├── Settings │ │ │ │ ├── 3dview_3D View.cfg │ │ │ │ └── viewers.cfg │ │ │ │ ├── SurfaceTopography._1.s3d │ │ │ │ ├── Viewer2dState │ │ │ │ ├── Atley.dat │ │ │ │ ├── NorthSandstone.dat │ │ │ │ ├── Seismic.dat │ │ │ │ └── SurfaceTopography.dat │ │ │ │ ├── cave │ │ │ │ ├── sandstone.grd_interfaces_EarlyGranite.txt │ │ │ │ ├── sandstone.grd_interfaces_SimpleBIF.txt │ │ │ │ ├── sandstone.grd_interfaces_SimpleMafic.txt │ │ │ │ ├── sandstone.grd_interfaces_SimpleMafic2.txt │ │ │ │ ├── sandstone.grd_isopachs_EarlyGranite.txt │ │ │ │ ├── sandstone.grd_isopachs_Murchison.txt │ │ │ │ ├── sandstone.grd_isopachs_SimpleBIF.txt │ │ │ │ ├── sandstone.grd_isopachs_SimpleMafic.txt │ │ │ │ └── sandstone.grd_isopachs_SimpleMafic2.txt │ │ │ │ ├── test_h.md5 │ │ │ │ ├── test_h.vox │ │ │ │ ├── test_h.xml │ │ │ │ ├── test_h.xml.bu │ │ │ │ ├── test_h_Foliations.csv │ │ │ │ ├── test_h_Points.csv │ │ │ │ ├── test_h_dfa_Surface_EarlyGranite.shp │ │ │ │ ├── test_h_dfa_Surface_SimpleBIF.shp │ │ │ │ ├── test_h_dfa_Surface_SimpleMafic.shp │ │ │ │ └── test_h_dfa_Surface_SimpleMafic2.shp │ │ ├── __init__.py │ │ ├── ch6_data_fol.csv │ │ ├── ch6_data_interf.csv │ │ ├── dome_sub_sub_utm.tif │ │ ├── filtered_orientations.csv │ │ ├── filtered_surface_points.csv │ │ ├── gempy_foliations.csv │ │ ├── gempy_interfaces.csv │ │ ├── geo_data.pickle │ │ ├── simple_fault_model_orientations.csv │ │ ├── simple_fault_model_points.csv │ │ ├── templates │ │ │ ├── dip.png │ │ │ ├── ge_placemark_template_fol.xml │ │ │ ├── ge_placemark_template_interf.xml │ │ │ ├── ge_template_raw_fol.xml │ │ │ └── ge_template_raw_interf.xml │ │ ├── test_a_sol.npy │ │ ├── test_b_sol.npy │ │ ├── test_c_sol.npy │ │ ├── test_d_sol.npy │ │ ├── test_e_sol.npy │ │ ├── test_f_sol.npy │ │ ├── test_integration_lith_block.npy │ │ └── test_solution.pickle.pickle │ ├── pytest.in │ ├── test_addons │ │ ├── TOUPDATE_addons │ │ │ ├── pynoddy │ │ │ │ ├── TOUPDATE_pynoddy_gempy.py │ │ │ │ ├── noddy_block.npy │ │ │ │ └── te_pynoddy.py │ │ │ └── test_google_earth.py │ │ └── test_gempy_to_rexfile.py │ ├── test_assets │ │ ├── TOUPDATE_spill.py │ │ ├── __init__.py │ │ ├── test_gravity.py │ │ ├── test_grid_tz.py │ │ ├── test_magnetics.py │ │ ├── test_topology_np.py │ │ └── test_vista.py │ ├── test_core │ │ ├── UPDATE_data.py │ │ ├── UPDATE_model.py │ │ ├── __init__.py │ │ ├── test_data_manipulation.py │ │ ├── test_data_manipulation2.py │ │ ├── test_data_manipulation3.py │ │ ├── test_grids │ │ │ └── test_grid.py │ │ ├── test_integration.py │ │ ├── test_masking │ │ │ ├── all_ero.npy │ │ │ ├── one_onlap.npy │ │ │ ├── test_unconformities.py │ │ │ └── two_onlap.npy │ │ ├── test_performance.py │ │ ├── test_pile_manipulation.py │ │ └── test_solution.py │ ├── test_gradient │ │ └── test_gradient.py │ ├── test_model_types │ │ ├── __init__.py │ │ ├── test_example1.py │ │ └── test_simple_models.py │ └── test_utilities │ │ ├── __init__.py │ │ └── test_utilities.py └── update_doc_elements.sh ├── GemPyTF_demo.ipynb ├── Geophysics ├── Data │ ├── HMC_model4.json │ ├── HMC_model4_01.json │ ├── HMC_model_Kevitsa_firstreview.json │ ├── HMC_model_Kevitsadensity.json │ ├── MAP_density_02.json │ ├── Model0b │ │ ├── Model0b_extent.npy │ │ ├── Model0b_faults.csv │ │ ├── Model0b_faults_relations.csv │ │ ├── Model0b_kriging_data.csv │ │ ├── Model0b_options.csv │ │ ├── Model0b_orientations.csv │ │ ├── Model0b_orientations_Nil.csv │ │ ├── Model0b_rescaling_data.csv │ │ ├── Model0b_resolution.npy │ │ ├── Model0b_series.csv │ │ ├── Model0b_surface_points.csv │ │ ├── Model0b_surface_points_Nil.csv │ │ └── Model0b_surfaces.csv │ ├── RMH_model4.json │ ├── RMH_model4_01.json │ ├── RMH_model4flatprior.json │ ├── RMH_model_Kevitsa_firstreview.json │ ├── RMH_model_Kevitsadensity.json │ ├── gpCN_model4.json │ ├── gpCN_model4_01.json │ ├── gpCN_model_Kevitsa_firstreview.json │ ├── gpCN_model_Kevitsadensity.json │ ├── orientations_KevitsaA.csv │ ├── orientations_KevitsaB.csv │ ├── orientations_KevitsaE.csv │ ├── orientations_Kevitsa_OVB_A.csv │ ├── orientations_Kevitsa_OVB_B.csv │ ├── orientations_Kevitsa_OVB_E.csv │ ├── surface_points_KevitsaA.csv │ ├── surface_points_KevitsaB.csv │ ├── surface_points_KevitsaE.csv │ ├── surface_points_Kevitsa_OVB_A.csv │ ├── surface_points_Kevitsa_OVB_B.csv │ └── surface_points_Kevitsa_OVB_E.csv ├── Experiment │ ├── GreenStone.py │ ├── Greenstone copy.py │ ├── exp.py │ ├── gravity_conv.py │ ├── greenstone3D.png │ ├── model5-Faults.py │ ├── sphere1st_3000.pdf │ └── sphere1st_3000_.pdf ├── gravity.CSV ├── inPaper │ └── run_4_den_fl_pri_fr.py ├── models │ ├── DATA │ │ ├── MAP.json │ │ ├── MAP_KV.json │ │ ├── MAP_KV_density.json │ │ ├── MAP_KV_density_change_prior.json │ │ ├── MAP_KV_test1.json │ │ ├── MAP_density.json │ │ ├── MAP_density_02.json │ │ ├── MAP_reduce.json │ │ └── samples.json │ ├── Figures │ │ ├── Model_area.png │ │ ├── m4_den_01_auto.pdf │ │ ├── m4_den_01_gpcn_trace.pdf │ │ ├── m4_den_01_hmc_trace.pdf │ │ ├── m4_den_01_post_entropy.pdf │ │ ├── m4_den_01_post_samples.pdf │ │ ├── m4_den_01_prior_entropy.pdf │ │ ├── m4_den_01_rmh_trace.pdf │ │ ├── m4_den_gpcn_trace.pdf │ │ ├── m4_den_hmc_trace.pdf │ │ ├── m4_den_rmh_trace.pdf │ │ ├── mK_den_auto.pdf │ │ ├── mK_den_post_entropy.pdf │ │ └── mK_den_prior_entropy.pdf │ ├── MCMC.py │ ├── Model_KV.py │ ├── Model_new.py │ ├── Prob.py │ ├── Prob_KV.py │ ├── Prob_KV_density.py │ ├── Prob_density.py │ ├── Prob_m3.py │ ├── Prob_m4.py │ └── gpCN.py ├── notused │ ├── run_4_den_fl_pri_gradientcheck.py │ └── run_KV_den_multi.py ├── run_4_den_fl_pri_fr.py ├── run_KV_den.py ├── run_KV_minima_check.py ├── test_KV_den.py ├── test_m4_den.py └── utils │ ├── ILT.py │ ├── PosteriorVisualization.py │ ├── derivative.py │ ├── funcs.py │ └── util.py ├── LICENSE ├── README.md ├── RealcaseModels ├── Greenstone.py └── Moureze.py ├── requirements.txt └── test └── test.py /.gitignore: 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