Restructuring to use_cases (#74)

Co-authored-by: Rahul Kikkeri Nagaraja <[email protected]>
KratosMultiphysics · Oct 3, 2020 · a3329b2 · a3329b2
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diff --git a/README.md b/README.md
@@ -141,7 +141,7 @@ Unit tests should *not* be uploaded to this repository. Please put them in the `
 ## Shape Optimization
 
 **Use cases**
-- [Multi Constraint Optimization 3D Hook](shape_optimization/10_Multi_Constraint_Optimization_3D_Hook)
-- [Smooth Surface Wrapping - Stanford Bunny](shape_optimization/11_Shape_Update_Optimization_Stanford_Bunny)
-- [Strain Energy Minimization - 3D Shell](shape_optimization/02_Strain_Energy_Minimization_3D_Shell)
-- [Bead Optimization Plate](shape_optimization/06_bead_optimization_plate)
+- [Multi Constraint Optimization 3D Hook](shape_optimization/use_cases/10_Multi_Constraint_Optimization_3D_Hook)
+- [Smooth Surface Wrapping - Stanford Bunny](shape_optimization/use_cases/11_Shape_Update_Optimization_Stanford_Bunny)
+- [Strain Energy Minimization - 3D Shell](shape_optimization/use_cases/02_Strain_Energy_Minimization_3D_Shell)
+- [Bead Optimization Plate](shape_optimization/use_cases/06_bead_optimization_plate)
diff --git a/shape_optimization/README.md b/shape_optimization/README.md
@@ -5,16 +5,16 @@ This folder contains examples related to Shape Optimization in Kratos.
 They are realized using the **ShapeOptimizationApplication**
 
 #### Main Examples
-- [Multi Constraint Optimization 3D Hook](10_Multi_Constraint_Optimization_3D_Hook)
-- [Shape Update Response Optimization - Stanford Bunny](11_Shape_Update_Optimization_Stanford_Bunny)
-- [Strain Energy Minimization - 3D Shell](02_Strain_Energy_Minimization_3D_Shell)
-- [Bead Optimization Plate](06_bead_optimization_plate)
+- [Multi Constraint Optimization 3D Hook](use_cases/10_Multi_Constraint_Optimization_3D_Hook)
+- [Shape Update Response Optimization - Stanford Bunny](use_cases/11_Shape_Update_Optimization_Stanford_Bunny)
+- [Strain Energy Minimization - 3D Shell](use_cases/02_Strain_Energy_Minimization_3D_Shell)
+- [Bead Optimization Plate](use_cases/06_bead_optimization_plate)
 
 #### Other Examples
-- [Strain Energy Minimization - 3D Hook](01_Strain_Energy_Minimization_3D_Hook)
-- [Mesh Independent Optimization - 3D Shell](03_mesh_independent_optimization_3D_Shell)
-- [Eigen Frequency Maximization - 3D Cantilever](04_Eigenfrequency_Maximization_3D_Cantilever)
-- [Constrained Shell Optimization](05_Constrained_Shell_Opt)
-- [Optimization Plate with Step Adaption](07_optimization_plate_with_step_adaption)
-- [Optimization 3D Hook with Plane Constraint](08_Optimization_3D_Hook_plane_constraint)
-- [Packaging - 3D Shell](09_Packaging_3D_Shell)
+- [Strain Energy Minimization - 3D Hook](use_cases/01_Strain_Energy_Minimization_3D_Hook)
+- [Mesh Independent Optimization - 3D Shell](use_cases/03_mesh_independent_optimization_3D_Shell)
+- [Eigen Frequency Maximization - 3D Cantilever](use_cases/04_Eigenfrequency_Maximization_3D_Cantilever)
+- [Constrained Shell Optimization](use_cases/05_Constrained_Shell_Opt)
+- [Optimization Plate with Step Adaption](use_cases/07_optimization_plate_with_step_adaption)
+- [Optimization 3D Hook with Plane Constraint](use_cases/08_Optimization_3D_Hook_plane_constraint)
+- [Packaging - 3D Shell](use_cases/09_Packaging_3D_Shell)
diff --git a/..._Energy_Minimization_3D_Hook/3D_Hook.mdpa → ..._Energy_Minimization_3D_Hook/3D_Hook.mdpa b/..._Energy_Minimization_3D_Hook/3D_Hook.mdpa → ..._Energy_Minimization_3D_Hook/3D_Hook.mdpa
diff --git a/...gy_Minimization_3D_Hook/materials_3D.json → ...gy_Minimization_3D_Hook/materials_3D.json b/...gy_Minimization_3D_Hook/materials_3D.json → ...gy_Minimization_3D_Hook/materials_3D.json
diff --git a/...tion_3D_Hook/optimization_parameters.json → ...tion_3D_Hook/optimization_parameters.json b/...tion_3D_Hook/optimization_parameters.json → ...tion_3D_Hook/optimization_parameters.json
diff --git a/...nimization_3D_Hook/primal_parameters.json → ...nimization_3D_Hook/primal_parameters.json b/...nimization_3D_Hook/primal_parameters.json → ...nimization_3D_Hook/primal_parameters.json
diff --git a/..._Minimization_3D_Hook/run_optimization.py → ..._Minimization_3D_Hook/run_optimization.py b/..._Minimization_3D_Hook/run_optimization.py → ..._Minimization_3D_Hook/run_optimization.py
diff --git a/...nergy_Minimization_3D_Shell/3D_Shell.mdpa → ...nergy_Minimization_3D_Shell/3D_Shell.mdpa b/...nergy_Minimization_3D_Shell/3D_Shell.mdpa → ...nergy_Minimization_3D_Shell/3D_Shell.mdpa
diff --git a/...in_Energy_Minimization_3D_Shell/README.md → ...in_Energy_Minimization_3D_Shell/README.md b/...in_Energy_Minimization_3D_Shell/README.md → ...in_Energy_Minimization_3D_Shell/README.md
diff --git a/...ation_3D_Shell/images/3DshellOpt_plot.svg → ...ation_3D_Shell/images/3DshellOpt_plot.svg b/...ation_3D_Shell/images/3DshellOpt_plot.svg → ...ation_3D_Shell/images/3DshellOpt_plot.svg
diff --git a/...on_3D_Shell/images/3DshellOpt_results.gif → ...on_3D_Shell/images/3DshellOpt_results.gif b/...on_3D_Shell/images/3DshellOpt_results.gif → ...on_3D_Shell/images/3DshellOpt_results.gif
diff --git a/...tion_3D_Shell/images/3DshellOpt_setup.png → ...tion_3D_Shell/images/3DshellOpt_setup.png b/...tion_3D_Shell/images/3DshellOpt_setup.png → ...tion_3D_Shell/images/3DshellOpt_setup.png
diff --git a/...y_Minimization_3D_Shell/materials_2D.json → ...y_Minimization_3D_Shell/materials_2D.json b/...y_Minimization_3D_Shell/materials_2D.json → ...y_Minimization_3D_Shell/materials_2D.json
diff --git a/...ion_3D_Shell/optimization_parameters.json → ...ion_3D_Shell/optimization_parameters.json b/...ion_3D_Shell/optimization_parameters.json → ...ion_3D_Shell/optimization_parameters.json
diff --git a/...rgy_Minimization_3D_Shell/plot_results.py → ...rgy_Minimization_3D_Shell/plot_results.py b/...rgy_Minimization_3D_Shell/plot_results.py → ...rgy_Minimization_3D_Shell/plot_results.py
diff --git a/...imization_3D_Shell/primal_parameters.json → ...imization_3D_Shell/primal_parameters.json b/...imization_3D_Shell/primal_parameters.json → ...imization_3D_Shell/primal_parameters.json
diff --git a/...Minimization_3D_Shell/run_optimization.py → ...Minimization_3D_Shell/run_optimization.py b/...Minimization_3D_Shell/run_optimization.py → ...Minimization_3D_Shell/run_optimization.py
diff --git a/...mization_3D_Shell/3D_Shell_crosswise.mdpa → ...mization_3D_Shell/3D_Shell_crosswise.mdpa b/...mization_3D_Shell/3D_Shell_crosswise.mdpa → ...mization_3D_Shell/3D_Shell_crosswise.mdpa
diff --git a/...imization_3D_Shell/3D_Shell_diagonal.mdpa → ...imization_3D_Shell/3D_Shell_diagonal.mdpa b/...imization_3D_Shell/3D_Shell_diagonal.mdpa → ...imization_3D_Shell/3D_Shell_diagonal.mdpa
diff --git a/...ation_3D_Shell/3D_Shell_longitudinal.mdpa → ...ation_3D_Shell/3D_Shell_longitudinal.mdpa b/...ation_3D_Shell/3D_Shell_longitudinal.mdpa → ...ation_3D_Shell/3D_Shell_longitudinal.mdpa
diff --git a/...t_optimization_3D_Shell/materials_2D.json → ...t_optimization_3D_Shell/materials_2D.json b/...t_optimization_3D_Shell/materials_2D.json → ...t_optimization_3D_Shell/materials_2D.json
diff --git a/...ion_3D_Shell/optimization_parameters.json → ...ion_3D_Shell/optimization_parameters.json b/...ion_3D_Shell/optimization_parameters.json → ...ion_3D_Shell/optimization_parameters.json
diff --git a/...imization_3D_Shell/primal_parameters.json → ...imization_3D_Shell/primal_parameters.json b/...imization_3D_Shell/primal_parameters.json → ...imization_3D_Shell/primal_parameters.json
diff --git a/...ization_3D_Cantilever/run_optimization.py → ...optimization_3D_Shell/run_optimization.py b/...ization_3D_Cantilever/run_optimization.py → ...optimization_3D_Shell/run_optimization.py
diff --git a/...Maximization_3D_Cantilever/materials.json → ...Maximization_3D_Cantilever/materials.json b/...Maximization_3D_Cantilever/materials.json → ...Maximization_3D_Cantilever/materials.json
diff --git a/...D_Cantilever/optimization_parameters.json → ...D_Cantilever/optimization_parameters.json b/...D_Cantilever/optimization_parameters.json → ...D_Cantilever/optimization_parameters.json
diff --git a/...tion_3D_Cantilever/primal_parameters.json → ...tion_3D_Cantilever/primal_parameters.json b/...tion_3D_Cantilever/primal_parameters.json → ...tion_3D_Cantilever/primal_parameters.json
diff --git a/...Hook_plane_constraint/run_optimization.py → ...ization_3D_Cantilever/run_optimization.py b/...Hook_plane_constraint/run_optimization.py → ...ization_3D_Cantilever/run_optimization.py
diff --git a/...ation_3D_Cantilever/solid_cantilever.mdpa → ...ation_3D_Cantilever/solid_cantilever.mdpa b/...ation_3D_Cantilever/solid_cantilever.mdpa → ...ation_3D_Cantilever/solid_cantilever.mdpa
diff --git a/...on/05_Constrained_Shell_Opt/3D_Shell.mdpa → ...es/05_Constrained_Shell_Opt/3D_Shell.mdpa b/...on/05_Constrained_Shell_Opt/3D_Shell.mdpa → ...es/05_Constrained_Shell_Opt/3D_Shell.mdpa
diff --git a/...5_Constrained_Shell_Opt/materials_2D.json → ...5_Constrained_Shell_Opt/materials_2D.json b/...5_Constrained_Shell_Opt/materials_2D.json → ...5_Constrained_Shell_Opt/materials_2D.json
diff --git a/...ed_Shell_Opt/optimization_parameters.json → ...ed_Shell_Opt/optimization_parameters.json b/...ed_Shell_Opt/optimization_parameters.json → ...ed_Shell_Opt/optimization_parameters.json
diff --git a/...strained_Shell_Opt/primal_parameters.json → ...strained_Shell_Opt/primal_parameters.json b/...strained_Shell_Opt/primal_parameters.json → ...strained_Shell_Opt/primal_parameters.json
diff --git a/...Opt/primal_parameters_eigenfrequency.json → ...Opt/primal_parameters_eigenfrequency.json b/...Opt/primal_parameters_eigenfrequency.json → ...Opt/primal_parameters_eigenfrequency.json
diff --git a/...Constrained_Shell_Opt/run_optimization.py → ...Constrained_Shell_Opt/run_optimization.py b/...Constrained_Shell_Opt/run_optimization.py → ...Constrained_Shell_Opt/run_optimization.py
diff --git a/..._bead_optimization_plate/2D_material.json → ..._bead_optimization_plate/2D_material.json b/..._bead_optimization_plate/2D_material.json → ..._bead_optimization_plate/2D_material.json
diff --git a/...tion/06_bead_optimization_plate/README.md → ...ases/06_bead_optimization_plate/README.md b/...tion/06_bead_optimization_plate/README.md → ...ases/06_bead_optimization_plate/README.md
diff --git a/...timization_plate/analysis_parameters.json → ...timization_plate/analysis_parameters.json b/...timization_plate/analysis_parameters.json → ...timization_plate/analysis_parameters.json
diff --git a/...tion_plate/images/beadOpt_Manual_1_2D.png → ...tion_plate/images/beadOpt_Manual_1_2D.png b/...tion_plate/images/beadOpt_Manual_1_2D.png → ...tion_plate/images/beadOpt_Manual_1_2D.png
diff --git a/...tion_plate/images/beadOpt_Manual_1_3D.png → ...tion_plate/images/beadOpt_Manual_1_3D.png b/...tion_plate/images/beadOpt_Manual_1_3D.png → ...tion_plate/images/beadOpt_Manual_1_3D.png
diff --git a/...tion_plate/images/beadOpt_Manual_2_2D.png → ...tion_plate/images/beadOpt_Manual_2_2D.png b/...tion_plate/images/beadOpt_Manual_2_2D.png → ...tion_plate/images/beadOpt_Manual_2_2D.png
diff --git a/...tion_plate/images/beadOpt_Manual_2_3D.png → ...tion_plate/images/beadOpt_Manual_2_3D.png b/...tion_plate/images/beadOpt_Manual_2_3D.png → ...tion_plate/images/beadOpt_Manual_2_3D.png
diff --git a/...tion_plate/images/beadOpt_Manual_3_2D.png → ...tion_plate/images/beadOpt_Manual_3_2D.png b/...tion_plate/images/beadOpt_Manual_3_2D.png → ...tion_plate/images/beadOpt_Manual_3_2D.png
diff --git a/...tion_plate/images/beadOpt_Manual_3_3D.png → ...tion_plate/images/beadOpt_Manual_3_3D.png b/...tion_plate/images/beadOpt_Manual_3_3D.png → ...tion_plate/images/beadOpt_Manual_3_3D.png
diff --git a/...tion_plate/images/beadOpt_Manual_4_2D.png → ...tion_plate/images/beadOpt_Manual_4_2D.png b/...tion_plate/images/beadOpt_Manual_4_2D.png → ...tion_plate/images/beadOpt_Manual_4_2D.png
diff --git a/...tion_plate/images/beadOpt_Manual_4_3D.png → ...tion_plate/images/beadOpt_Manual_4_3D.png b/...tion_plate/images/beadOpt_Manual_4_3D.png → ...tion_plate/images/beadOpt_Manual_4_3D.png
diff --git a/...tion_plate/images/beadOpt_Manual_5_2D.png → ...tion_plate/images/beadOpt_Manual_5_2D.png b/...tion_plate/images/beadOpt_Manual_5_2D.png → ...tion_plate/images/beadOpt_Manual_5_2D.png
diff --git a/...tion_plate/images/beadOpt_Manual_5_3D.png → ...tion_plate/images/beadOpt_Manual_5_3D.png b/...tion_plate/images/beadOpt_Manual_5_3D.png → ...tion_plate/images/beadOpt_Manual_5_3D.png
diff --git a/...imization_plate/images/beadOpt_Opt_2D.png → ...imization_plate/images/beadOpt_Opt_2D.png b/...imization_plate/images/beadOpt_Opt_2D.png → ...imization_plate/images/beadOpt_Opt_2D.png
diff --git a/...imization_plate/images/beadOpt_Opt_3D.png → ...imization_plate/images/beadOpt_Opt_3D.png b/...imization_plate/images/beadOpt_Opt_3D.png → ...imization_plate/images/beadOpt_Opt_3D.png
diff --git a/...tion_plate/images/beadOpt_SetupwithBC.png → ...tion_plate/images/beadOpt_SetupwithBC.png b/...tion_plate/images/beadOpt_SetupwithBC.png → ...tion_plate/images/beadOpt_SetupwithBC.png
diff --git a/...ptimization_plate/images/beadOpt_plot.svg → ...ptimization_plate/images/beadOpt_plot.svg b/...ptimization_plate/images/beadOpt_plot.svg → ...ptimization_plate/images/beadOpt_plot.svg
diff --git a/...imization_plate/images/beadOpt_result.gif → ...imization_plate/images/beadOpt_result.gif b/...imization_plate/images/beadOpt_result.gif → ...imization_plate/images/beadOpt_result.gif
diff --git a/...zation_plate/optimization_parameters.json → ...zation_plate/optimization_parameters.json b/...zation_plate/optimization_parameters.json → ...zation_plate/optimization_parameters.json
diff --git a/...ion/06_bead_optimization_plate/plate.mdpa → ...ses/06_bead_optimization_plate/plate.mdpa b/...ion/06_bead_optimization_plate/plate.mdpa → ...ses/06_bead_optimization_plate/plate.mdpa
diff --git a/...6_bead_optimization_plate/plot_results.py → ...6_bead_optimization_plate/plot_results.py b/...6_bead_optimization_plate/plot_results.py → ...6_bead_optimization_plate/plot_results.py
diff --git a/...ad_optimization_plate/run_optimization.py → ...ad_optimization_plate/run_optimization.py b/...ad_optimization_plate/run_optimization.py → ...ad_optimization_plate/run_optimization.py
diff --git a/...plate_with_step_adaption/2D_material.json → ...plate_with_step_adaption/2D_material.json b/...plate_with_step_adaption/2D_material.json → ...plate_with_step_adaption/2D_material.json
diff --git a/...th_step_adaption/analysis_parameters.json → ...th_step_adaption/analysis_parameters.json b/...th_step_adaption/analysis_parameters.json → ...th_step_adaption/analysis_parameters.json
diff --git a/...tep_adaption/optimization_parameters.json → ...tep_adaption/optimization_parameters.json b/...tep_adaption/optimization_parameters.json → ...tep_adaption/optimization_parameters.json
diff --git a/...ation_plate_with_step_adaption/plate.mdpa → ...ation_plate_with_step_adaption/plate.mdpa b/...ation_plate_with_step_adaption/plate.mdpa → ...ation_plate_with_step_adaption/plate.mdpa
diff --git a/...te_with_step_adaption/run_optimization.py → ...te_with_step_adaption/run_optimization.py b/...te_with_step_adaption/run_optimization.py → ...te_with_step_adaption/run_optimization.py
diff --git a/...ion_3D_Hook_plane_constraint/3D_Hook.mdpa → ...ion_3D_Hook_plane_constraint/3D_Hook.mdpa b/...ion_3D_Hook_plane_constraint/3D_Hook.mdpa → ...ion_3D_Hook_plane_constraint/3D_Hook.mdpa
diff --git a/...D_Hook_plane_constraint/materials_3D.json → ...D_Hook_plane_constraint/materials_3D.json b/...D_Hook_plane_constraint/materials_3D.json → ...D_Hook_plane_constraint/materials_3D.json
diff --git a/...e_constraint/optimization_parameters.json → ...e_constraint/optimization_parameters.json b/...e_constraint/optimization_parameters.json → ...e_constraint/optimization_parameters.json
diff --git a/...k_plane_constraint/primal_parameters.json → ...k_plane_constraint/primal_parameters.json b/...k_plane_constraint/primal_parameters.json → ...k_plane_constraint/primal_parameters.json
diff --git a/...optimization_3D_Shell/run_optimization.py → ...Hook_plane_constraint/run_optimization.py b/...optimization_3D_Shell/run_optimization.py → ...Hook_plane_constraint/run_optimization.py
@@ -1,19 +1,19 @@
-# Making KratosMultiphysics backward compatible with python 2.6 and 2.7
-from __future__ import print_function, absolute_import, division
-
-# Import Kratos core and apps
-import KratosMultiphysics as KM
-
-# Additional imports
-from KratosMultiphysics.ShapeOptimizationApplication import optimizer_factory
-
-# Read parameters
-with open("optimization_parameters.json",'r') as parameter_file:
-    parameters = KM.Parameters(parameter_file.read())
-
-# Defining the model_part
-model = KM.Model()
-
-# Create optimizer and perform optimization
-optimizer = optimizer_factory.CreateOptimizer(parameters["optimization_settings"], model)
+# Making KratosMultiphysics backward compatible with python 2.6 and 2.7
+from __future__ import print_function, absolute_import, division
+
+# Import Kratos core and apps
+import KratosMultiphysics as KM
+
+# Additional imports
+from KratosMultiphysics.ShapeOptimizationApplication import optimizer_factory
+
+# Read parameters
+with open("optimization_parameters.json",'r') as parameter_file:
+    parameters = KM.Parameters(parameter_file.read())
+
+# Defining the model_part
+model = KM.Model()
+
+# Create optimizer and perform optimization
+optimizer = optimizer_factory.CreateOptimizer(parameters["optimization_settings"], model)
 optimizer.Optimize()
diff --git a/...ation/09_Packaging_3D_Shell/3D_Shell.mdpa → ...cases/09_Packaging_3D_Shell/3D_Shell.mdpa b/...ation/09_Packaging_3D_Shell/3D_Shell.mdpa → ...cases/09_Packaging_3D_Shell/3D_Shell.mdpa
diff --git a/...ing_3D_Shell/optimization_parameters.json → ...ing_3D_Shell/optimization_parameters.json b/...ing_3D_Shell/optimization_parameters.json → ...ing_3D_Shell/optimization_parameters.json
diff --git a/...09_Packaging_3D_Shell/run_optimization.py → ...09_Packaging_3D_Shell/run_optimization.py b/...09_Packaging_3D_Shell/run_optimization.py → ...09_Packaging_3D_Shell/run_optimization.py
diff --git a/...mization/09_Packaging_3D_Shell/sphere.wrl → ...se_cases/09_Packaging_3D_Shell/sphere.wrl b/...mization/09_Packaging_3D_Shell/sphere.wrl → ...se_cases/09_Packaging_3D_Shell/sphere.wrl
diff --git a/...Constraint_Optimization_3D_Hook/README.md → ...Constraint_Optimization_3D_Hook/README.md b/...Constraint_Optimization_3D_Hook/README.md → ...Constraint_Optimization_3D_Hook/README.md
diff --git a/...traint_Optimization_3D_Hook/bounding.mdpa → ...traint_Optimization_3D_Hook/bounding.mdpa b/...traint_Optimization_3D_Hook/bounding.mdpa → ...traint_Optimization_3D_Hook/bounding.mdpa
diff --git a/...Constraint_Optimization_3D_Hook/hook.mdpa → ...Constraint_Optimization_3D_Hook/hook.mdpa b/...Constraint_Optimization_3D_Hook/hook.mdpa → ...Constraint_Optimization_3D_Hook/hook.mdpa
diff --git a/...3D_Hook/images/3DHookConvergencePlots.svg → ...3D_Hook/images/3DHookConvergencePlots.svg b/...3D_Hook/images/3DHookConvergencePlots.svg → ...3D_Hook/images/3DHookConvergencePlots.svg
diff --git a/...Hook/images/hook_iso_mesh_color_white.gif → ...Hook/images/hook_iso_mesh_color_white.gif b/...Hook/images/hook_iso_mesh_color_white.gif → ...Hook/images/hook_iso_mesh_color_white.gif
diff --git a/...ization_3D_Hook/images/hook_opt_setup.png → ...ization_3D_Hook/images/hook_opt_setup.png b/...ization_3D_Hook/images/hook_opt_setup.png → ...ization_3D_Hook/images/hook_opt_setup.png
diff --git a/...nt_Optimization_3D_Hook/materials_3D.json → ...nt_Optimization_3D_Hook/materials_3D.json b/...nt_Optimization_3D_Hook/materials_3D.json → ...nt_Optimization_3D_Hook/materials_3D.json
diff --git a/...zation_3D_Hook/materials_3D_external.json → ...zation_3D_Hook/materials_3D_external.json b/...zation_3D_Hook/materials_3D_external.json → ...zation_3D_Hook/materials_3D_external.json
diff --git a/...tion_3D_Hook/optimization_parameters.json → ...tion_3D_Hook/optimization_parameters.json b/...tion_3D_Hook/optimization_parameters.json → ...tion_3D_Hook/optimization_parameters.json
diff --git a/...aint_Optimization_3D_Hook/plot_results.py → ...aint_Optimization_3D_Hook/plot_results.py b/...aint_Optimization_3D_Hook/plot_results.py → ...aint_Optimization_3D_Hook/plot_results.py
diff --git a/...ation_3D_Hook/primal_parameters_main.json → ...ation_3D_Hook/primal_parameters_main.json b/...ation_3D_Hook/primal_parameters_main.json → ...ation_3D_Hook/primal_parameters_main.json
diff --git a/...zation_3D_Hook/primal_parameters_tip.json → ...zation_3D_Hook/primal_parameters_tip.json b/...zation_3D_Hook/primal_parameters_tip.json → ...zation_3D_Hook/primal_parameters_tip.json
diff --git a/..._Optimization_3D_Hook/run_optimization.py → ..._Optimization_3D_Hook/run_optimization.py b/..._Optimization_3D_Hook/run_optimization.py → ..._Optimization_3D_Hook/run_optimization.py
diff --git a/...ate_Optimization_Stanford_Bunny/README.md → ...ate_Optimization_Stanford_Bunny/README.md b/...ate_Optimization_Stanford_Bunny/README.md → ...ate_Optimization_Stanford_Bunny/README.md
diff --git a/...te_Optimization_Stanford_Bunny/bunny.mdpa → ...te_Optimization_Stanford_Bunny/bunny.mdpa b/...te_Optimization_Stanford_Bunny/bunny.mdpa → ...te_Optimization_Stanford_Bunny/bunny.mdpa
diff --git a/...Stanford_Bunny/images/bunny_opt_setup.png → ...Stanford_Bunny/images/bunny_opt_setup.png b/...Stanford_Bunny/images/bunny_opt_setup.png → ...Stanford_Bunny/images/bunny_opt_setup.png
diff --git a/...unny/images/bunny_results_largeSphere.gif → ...unny/images/bunny_results_largeSphere.gif b/...unny/images/bunny_results_largeSphere.gif → ...unny/images/bunny_results_largeSphere.gif
diff --git a/...unny/images/bunny_results_limitations.png → ...unny/images/bunny_results_limitations.png b/...unny/images/bunny_results_limitations.png → ...unny/images/bunny_results_limitations.png
diff --git a/...unny/images/bunny_results_smallSphere.gif → ...unny/images/bunny_results_smallSphere.gif b/...unny/images/bunny_results_smallSphere.gif → ...unny/images/bunny_results_smallSphere.gif
diff --git a/...anford_Bunny/optimization_parameters.json → ...anford_Bunny/optimization_parameters.json b/...anford_Bunny/optimization_parameters.json → ...anford_Bunny/optimization_parameters.json
diff --git a/...zation_Stanford_Bunny/run_optimization.py → ...zation_Stanford_Bunny/run_optimization.py b/...zation_Stanford_Bunny/run_optimization.py → ...zation_Stanford_Bunny/run_optimization.py
diff --git a/...n_Stanford_Bunny/shrink/large_sphere.mdpa → ...n_Stanford_Bunny/shrink/large_sphere.mdpa b/...n_Stanford_Bunny/shrink/large_sphere.mdpa → ...n_Stanford_Bunny/shrink/large_sphere.mdpa
diff --git a/...Bunny/shrink/optimization_parameters.json → ...Bunny/shrink/optimization_parameters.json b/...Bunny/shrink/optimization_parameters.json → ...Bunny/shrink/optimization_parameters.json
diff --git a/...mization_Stanford_Bunny/small_sphere.mdpa → ...mization_Stanford_Bunny/small_sphere.mdpa b/...mization_Stanford_Bunny/small_sphere.mdpa → ...mization_Stanford_Bunny/small_sphere.mdpa