Move /lib/tool/tools/* to tool/*

VTX-Molecular-Visualization · Jul 30, 2024 · 5062d3e · 5062d3e
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diff --git a/lib/renderer/assets/skybox/back.jpg → lib/renderer/asset/skybox/back.jpg b/lib/renderer/assets/skybox/back.jpg → lib/renderer/asset/skybox/back.jpg
diff --git a/lib/renderer/assets/skybox/bottom.jpg → lib/renderer/asset/skybox/bottom.jpg b/lib/renderer/assets/skybox/bottom.jpg → lib/renderer/asset/skybox/bottom.jpg
diff --git a/lib/renderer/assets/skybox/front.jpg → lib/renderer/asset/skybox/front.jpg b/lib/renderer/assets/skybox/front.jpg → lib/renderer/asset/skybox/front.jpg
diff --git a/lib/renderer/assets/skybox/left.jpg → lib/renderer/asset/skybox/left.jpg b/lib/renderer/assets/skybox/left.jpg → lib/renderer/asset/skybox/left.jpg
diff --git a/lib/renderer/assets/skybox/right.jpg → lib/renderer/asset/skybox/right.jpg b/lib/renderer/assets/skybox/right.jpg → lib/renderer/asset/skybox/right.jpg
diff --git a/lib/renderer/assets/skybox/top.jpg → lib/renderer/asset/skybox/top.jpg b/lib/renderer/assets/skybox/top.jpg → lib/renderer/asset/skybox/top.jpg
diff --git a/lib/tool/tools/mdprep/CMakeLists.txt → tool/mdprep/CMakeLists.txt b/lib/tool/tools/mdprep/CMakeLists.txt → tool/mdprep/CMakeLists.txt
diff --git a/lib/tool/tools/mdprep/cmake/library.cmake → tool/mdprep/cmake/library.cmake b/lib/tool/tools/mdprep/cmake/library.cmake → tool/mdprep/cmake/library.cmake
diff --git a/...ep/cmake/vtx_tool_mdprep_copy_files.cmake → ...ep/cmake/vtx_tool_mdprep_copy_files.cmake b/...ep/cmake/vtx_tool_mdprep_copy_files.cmake → ...ep/cmake/vtx_tool_mdprep_copy_files.cmake
diff --git a/lib/tool/tools/mdprep/conanfile.py → tool/mdprep/conanfile.py b/lib/tool/tools/mdprep/conanfile.py → tool/mdprep/conanfile.py
diff --git a/...ool/tools/mdprep/data/icon_mainButton.xcf → tool/mdprep/data/icon_mainButton.xcf b/...ool/tools/mdprep/data/icon_mainButton.xcf → tool/mdprep/data/icon_mainButton.xcf
diff --git a/...tool/tools/mdprep/data/templates/ions.mdp → tool/mdprep/data/templates/ions.mdp b/...tool/tools/mdprep/data/templates/ions.mdp → tool/mdprep/data/templates/ions.mdp
diff --git a/...ool/tools/mdprep/data/templates/minim.mdp → tool/mdprep/data/templates/minim.mdp b/...ool/tools/mdprep/data/templates/minim.mdp → tool/mdprep/data/templates/minim.mdp
diff --git a/lib/tool/tools/mdprep/data/templates/npt.mdp → tool/mdprep/data/templates/npt.mdp b/lib/tool/tools/mdprep/data/templates/npt.mdp → tool/mdprep/data/templates/npt.mdp
diff --git a/lib/tool/tools/mdprep/data/templates/nvt.mdp → tool/mdprep/data/templates/nvt.mdp b/lib/tool/tools/mdprep/data/templates/nvt.mdp → tool/mdprep/data/templates/nvt.mdp
diff --git a/...ol/tools/mdprep/data/templates/posres.mdp → tool/mdprep/data/templates/posres.mdp b/...ol/tools/mdprep/data/templates/posres.mdp → tool/mdprep/data/templates/posres.mdp
diff --git a/...tool/tools/mdprep/data/templates/prod.mdp → tool/mdprep/data/templates/prod.mdp b/...tool/tools/mdprep/data/templates/prod.mdp → tool/mdprep/data/templates/prod.mdp
diff --git a/...tool/tools/mdprep/data/templates/runMD.py → tool/mdprep/data/templates/runMD.py b/...tool/tools/mdprep/data/templates/runMD.py → tool/mdprep/data/templates/runMD.py
diff --git a/.../tools/mdprep/gateway/backend_gromacs.hpp → .../tools/mdprep/gateway/backend_gromacs.hpp b/.../tools/mdprep/gateway/backend_gromacs.hpp → .../tools/mdprep/gateway/backend_gromacs.hpp
diff --git a/...ols/mdprep/gateway/engine_job_manager.hpp → ...ols/mdprep/gateway/engine_job_manager.hpp b/...ols/mdprep/gateway/engine_job_manager.hpp → ...ols/mdprep/gateway/engine_job_manager.hpp
diff --git a/...nclude/tools/mdprep/gateway/form_data.hpp → ...nclude/tools/mdprep/gateway/form_data.hpp b/...nclude/tools/mdprep/gateway/form_data.hpp → ...nclude/tools/mdprep/gateway/form_data.hpp
diff --git a/...p/include/tools/mdprep/gateway/shared.hpp → ...p/include/tools/mdprep/gateway/shared.hpp b/...p/include/tools/mdprep/gateway/shared.hpp → ...p/include/tools/mdprep/gateway/shared.hpp
diff --git a/...include/tools/mdprep/gromacs/editconf.hpp → ...include/tools/mdprep/gromacs/editconf.hpp b/...include/tools/mdprep/gromacs/editconf.hpp → ...include/tools/mdprep/gromacs/editconf.hpp
diff --git a/...p/include/tools/mdprep/gromacs/genion.hpp → ...p/include/tools/mdprep/gromacs/genion.hpp b/...p/include/tools/mdprep/gromacs/genion.hpp → ...p/include/tools/mdprep/gromacs/genion.hpp
diff --git a/.../include/tools/mdprep/gromacs/gromacs.hpp → .../include/tools/mdprep/gromacs/gromacs.hpp b/.../include/tools/mdprep/gromacs/gromacs.hpp → .../include/tools/mdprep/gromacs/gromacs.hpp
diff --git a/...p/include/tools/mdprep/gromacs/grompp.hpp → ...p/include/tools/mdprep/gromacs/grompp.hpp b/...p/include/tools/mdprep/gromacs/grompp.hpp → ...p/include/tools/mdprep/gromacs/grompp.hpp
diff --git a/...p/include/tools/mdprep/gromacs/inputs.hpp → ...p/include/tools/mdprep/gromacs/inputs.hpp b/...p/include/tools/mdprep/gromacs/inputs.hpp → ...p/include/tools/mdprep/gromacs/inputs.hpp
diff --git a/...prep/include/tools/mdprep/gromacs/job.hpp → ...prep/include/tools/mdprep/gromacs/job.hpp b/...prep/include/tools/mdprep/gromacs/job.hpp → ...prep/include/tools/mdprep/gromacs/job.hpp
diff --git a/...rep/include/tools/mdprep/gromacs/pack.hpp → ...rep/include/tools/mdprep/gromacs/pack.hpp b/...rep/include/tools/mdprep/gromacs/pack.hpp → ...rep/include/tools/mdprep/gromacs/pack.hpp
diff --git a/.../include/tools/mdprep/gromacs/pdb2gmx.hpp → .../include/tools/mdprep/gromacs/pdb2gmx.hpp b/.../include/tools/mdprep/gromacs/pdb2gmx.hpp → .../include/tools/mdprep/gromacs/pdb2gmx.hpp
diff --git a/...ude/tools/mdprep/gromacs/pdb2gmx.impl.hpp → ...ude/tools/mdprep/gromacs/pdb2gmx.impl.hpp b/...ude/tools/mdprep/gromacs/pdb2gmx.impl.hpp → ...ude/tools/mdprep/gromacs/pdb2gmx.impl.hpp
diff --git a/.../include/tools/mdprep/gromacs/solvate.hpp → .../include/tools/mdprep/gromacs/solvate.hpp b/.../include/tools/mdprep/gromacs/solvate.hpp → .../include/tools/mdprep/gromacs/solvate.hpp
diff --git a/.../include/tools/mdprep/gromacs/trjconv.hpp → .../include/tools/mdprep/gromacs/trjconv.hpp b/.../include/tools/mdprep/gromacs/trjconv.hpp → .../include/tools/mdprep/gromacs/trjconv.hpp
diff --git a/...rep/include/tools/mdprep/gromacs/util.hpp → ...rep/include/tools/mdprep/gromacs/util.hpp b/...rep/include/tools/mdprep/gromacs/util.hpp → ...rep/include/tools/mdprep/gromacs/util.hpp
diff --git a/...ls/mdprep/include/tools/mdprep/mdprep.hpp → tool/mdprep/include/tools/mdprep/mdprep.hpp b/...ls/mdprep/include/tools/mdprep/mdprep.hpp → tool/mdprep/include/tools/mdprep/mdprep.hpp
diff --git a/...include/tools/mdprep/ui/advanced_form.hpp → ...include/tools/mdprep/ui/advanced_form.hpp b/...include/tools/mdprep/ui/advanced_form.hpp → ...include/tools/mdprep/ui/advanced_form.hpp
diff --git a/...ep/include/tools/mdprep/ui/basic_form.hpp → ...ep/include/tools/mdprep/ui/basic_form.hpp b/...ep/include/tools/mdprep/ui/basic_form.hpp → ...ep/include/tools/mdprep/ui/basic_form.hpp
diff --git a/.../mdprep/ui/basic_form_settings_dialog.hpp → .../mdprep/ui/basic_form_settings_dialog.hpp b/.../mdprep/ui/basic_form_settings_dialog.hpp → .../mdprep/ui/basic_form_settings_dialog.hpp
diff --git a/...dprep/include/tools/mdprep/ui/gromacs.hpp → ...dprep/include/tools/mdprep/ui/gromacs.hpp b/...dprep/include/tools/mdprep/ui/gromacs.hpp → ...dprep/include/tools/mdprep/ui/gromacs.hpp
diff --git a/.../tools/mdprep/ui/gromacs_field_placer.hpp → .../tools/mdprep/ui/gromacs_field_placer.hpp b/.../tools/mdprep/ui/gromacs_field_placer.hpp → .../tools/mdprep/ui/gromacs_field_placer.hpp
diff --git a/...prep/ui/gromacs_specific_field_placer.hpp → ...prep/ui/gromacs_specific_field_placer.hpp b/...prep/ui/gromacs_specific_field_placer.hpp → ...prep/ui/gromacs_specific_field_placer.hpp
diff --git a/...p/include/tools/mdprep/ui/main_window.hpp → ...p/include/tools/mdprep/ui/main_window.hpp b/...p/include/tools/mdprep/ui/main_window.hpp → ...p/include/tools/mdprep/ui/main_window.hpp
diff --git a/...rep/include/tools/mdprep/ui/md_engine.hpp → ...rep/include/tools/mdprep/ui/md_engine.hpp b/...rep/include/tools/mdprep/ui/md_engine.hpp → ...rep/include/tools/mdprep/ui/md_engine.hpp
diff --git a/...ude/tools/mdprep/ui/md_engine_factory.hpp → ...ude/tools/mdprep/ui/md_engine_factory.hpp b/...ude/tools/mdprep/ui/md_engine_factory.hpp → ...ude/tools/mdprep/ui/md_engine_factory.hpp
diff --git a/...ools/mdprep/ui/md_engine_field_placer.hpp → ...ools/mdprep/ui/md_engine_field_placer.hpp b/...ools/mdprep/ui/md_engine_field_placer.hpp → ...ools/mdprep/ui/md_engine_field_placer.hpp
diff --git a/...ep/ui/md_engine_specific_field_placer.hpp → ...ep/ui/md_engine_specific_field_placer.hpp b/...ep/ui/md_engine_specific_field_placer.hpp → ...ep/ui/md_engine_specific_field_placer.hpp
diff --git a/...mdprep/include/tools/mdprep/ui/shared.hpp → ...mdprep/include/tools/mdprep/ui/shared.hpp b/...mdprep/include/tools/mdprep/ui/shared.hpp → ...mdprep/include/tools/mdprep/ui/shared.hpp
diff --git a/...ls/mdprep/src/gateway/backend_gromacs.cpp → tool/mdprep/src/gateway/backend_gromacs.cpp b/...ls/mdprep/src/gateway/backend_gromacs.cpp → tool/mdprep/src/gateway/backend_gromacs.cpp
diff --git a/...mdprep/src/gateway/engine_job_manager.cpp → ...mdprep/src/gateway/engine_job_manager.cpp b/...mdprep/src/gateway/engine_job_manager.cpp → ...mdprep/src/gateway/engine_job_manager.cpp
diff --git a/...ol/tools/mdprep/src/gateway/form_data.cpp → tool/mdprep/src/gateway/form_data.cpp b/...ol/tools/mdprep/src/gateway/form_data.cpp → tool/mdprep/src/gateway/form_data.cpp
diff --git a/...ool/tools/mdprep/src/gromacs/editconf.cpp → tool/mdprep/src/gromacs/editconf.cpp b/...ool/tools/mdprep/src/gromacs/editconf.cpp → tool/mdprep/src/gromacs/editconf.cpp
diff --git a/lib/tool/tools/mdprep/src/gromacs/genion.cpp → tool/mdprep/src/gromacs/genion.cpp b/lib/tool/tools/mdprep/src/gromacs/genion.cpp → tool/mdprep/src/gromacs/genion.cpp
diff --git a/...tool/tools/mdprep/src/gromacs/gromacs.cpp → tool/mdprep/src/gromacs/gromacs.cpp b/...tool/tools/mdprep/src/gromacs/gromacs.cpp → tool/mdprep/src/gromacs/gromacs.cpp
diff --git a/lib/tool/tools/mdprep/src/gromacs/grompp.cpp → tool/mdprep/src/gromacs/grompp.cpp b/lib/tool/tools/mdprep/src/gromacs/grompp.cpp → tool/mdprep/src/gromacs/grompp.cpp
diff --git a/lib/tool/tools/mdprep/src/gromacs/job.cpp → tool/mdprep/src/gromacs/job.cpp b/lib/tool/tools/mdprep/src/gromacs/job.cpp → tool/mdprep/src/gromacs/job.cpp
diff --git a/lib/tool/tools/mdprep/src/gromacs/pack.cpp → tool/mdprep/src/gromacs/pack.cpp b/lib/tool/tools/mdprep/src/gromacs/pack.cpp → tool/mdprep/src/gromacs/pack.cpp
diff --git a/...tool/tools/mdprep/src/gromacs/pdb2gmx.cpp → tool/mdprep/src/gromacs/pdb2gmx.cpp b/...tool/tools/mdprep/src/gromacs/pdb2gmx.cpp → tool/mdprep/src/gromacs/pdb2gmx.cpp
diff --git a/...tools/mdprep/src/gromacs/pdb2gmx.impl.cpp → tool/mdprep/src/gromacs/pdb2gmx.impl.cpp b/...tools/mdprep/src/gromacs/pdb2gmx.impl.cpp → tool/mdprep/src/gromacs/pdb2gmx.impl.cpp
diff --git a/...tool/tools/mdprep/src/gromacs/solvate.cpp → tool/mdprep/src/gromacs/solvate.cpp b/...tool/tools/mdprep/src/gromacs/solvate.cpp → tool/mdprep/src/gromacs/solvate.cpp
diff --git a/...tool/tools/mdprep/src/gromacs/trjconv.cpp → tool/mdprep/src/gromacs/trjconv.cpp b/...tool/tools/mdprep/src/gromacs/trjconv.cpp → tool/mdprep/src/gromacs/trjconv.cpp
diff --git a/lib/tool/tools/mdprep/src/gromacs/util.cpp → tool/mdprep/src/gromacs/util.cpp b/lib/tool/tools/mdprep/src/gromacs/util.cpp → tool/mdprep/src/gromacs/util.cpp
diff --git a/lib/tool/tools/mdprep/src/mdprep.cpp → tool/mdprep/src/mdprep.cpp b/lib/tool/tools/mdprep/src/mdprep.cpp → tool/mdprep/src/mdprep.cpp
diff --git a/...ool/tools/mdprep/src/ui/advanced_form.cpp → tool/mdprep/src/ui/advanced_form.cpp b/...ool/tools/mdprep/src/ui/advanced_form.cpp → tool/mdprep/src/ui/advanced_form.cpp
diff --git a/lib/tool/tools/mdprep/src/ui/basic_form.cpp → tool/mdprep/src/ui/basic_form.cpp b/lib/tool/tools/mdprep/src/ui/basic_form.cpp → tool/mdprep/src/ui/basic_form.cpp
diff --git a/...rep/src/ui/basic_form_settings_dialog.cpp → ...rep/src/ui/basic_form_settings_dialog.cpp b/...rep/src/ui/basic_form_settings_dialog.cpp → ...rep/src/ui/basic_form_settings_dialog.cpp
diff --git a/lib/tool/tools/mdprep/src/ui/gromacs.cpp → tool/mdprep/src/ui/gromacs.cpp b/lib/tool/tools/mdprep/src/ui/gromacs.cpp → tool/mdprep/src/ui/gromacs.cpp
diff --git a/...ls/mdprep/src/ui/gromacs_field_placer.cpp → tool/mdprep/src/ui/gromacs_field_placer.cpp b/...ls/mdprep/src/ui/gromacs_field_placer.cpp → tool/mdprep/src/ui/gromacs_field_placer.cpp
diff --git a/.../src/ui/gromacs_specific_field_placer.cpp → .../src/ui/gromacs_specific_field_placer.cpp b/.../src/ui/gromacs_specific_field_placer.cpp → .../src/ui/gromacs_specific_field_placer.cpp
diff --git a/lib/tool/tools/mdprep/src/ui/main_window.cpp → tool/mdprep/src/ui/main_window.cpp b/lib/tool/tools/mdprep/src/ui/main_window.cpp → tool/mdprep/src/ui/main_window.cpp
diff --git a/lib/tool/tools/mdprep/src/ui/md_engine.cpp → tool/mdprep/src/ui/md_engine.cpp b/lib/tool/tools/mdprep/src/ui/md_engine.cpp → tool/mdprep/src/ui/md_engine.cpp
diff --git a/...tools/mdprep/src/ui/md_engine_factory.cpp → tool/mdprep/src/ui/md_engine_factory.cpp b/...tools/mdprep/src/ui/md_engine_factory.cpp → tool/mdprep/src/ui/md_engine_factory.cpp
diff --git a/lib/tool/tools/mdprep/test/CMakeLists.txt → tool/mdprep/test/CMakeLists.txt b/lib/tool/tools/mdprep/test/CMakeLists.txt → tool/mdprep/test/CMakeLists.txt
diff --git a/...ool/tools/mdprep/test/cmake/library.cmake → tool/mdprep/test/cmake/library.cmake b/...ool/tools/mdprep/test/cmake/library.cmake → tool/mdprep/test/cmake/library.cmake
diff --git a/lib/tool/tools/mdprep/test/conanfile.py → tool/mdprep/test/conanfile.py b/lib/tool/tools/mdprep/test/conanfile.py → tool/mdprep/test/conanfile.py
diff --git a/lib/tool/tools/mdprep/test/data/1k22.pdb → tool/mdprep/test/data/1k22.pdb b/lib/tool/tools/mdprep/test/data/1k22.pdb → tool/mdprep/test/data/1k22.pdb
diff --git a/lib/tool/tools/mdprep/test/data/1ubq.pdb → tool/mdprep/test/data/1ubq.pdb b/lib/tool/tools/mdprep/test/data/1ubq.pdb → tool/mdprep/test/data/1ubq.pdb
diff --git a/...prep/test/data/1ubq_out_editconf/1ubq.gro → ...prep/test/data/1ubq_out_editconf/1ubq.gro b/...prep/test/data/1ubq_out_editconf/1ubq.gro → ...prep/test/data/1ubq_out_editconf/1ubq.gro
diff --git a/...ep/test/data/1ubq_out_genion/#1ubq.top.1# → ...ep/test/data/1ubq_out_genion/#1ubq.top.1# b/...ep/test/data/1ubq_out_genion/#1ubq.top.1# → ...ep/test/data/1ubq_out_genion/#1ubq.top.1#
diff --git a/...mdprep/test/data/1ubq_out_genion/1ubq.gro → ...mdprep/test/data/1ubq_out_genion/1ubq.gro b/...mdprep/test/data/1ubq_out_genion/1ubq.gro → ...mdprep/test/data/1ubq_out_genion/1ubq.gro
diff --git a/...mdprep/test/data/1ubq_out_genion/1ubq.top → ...mdprep/test/data/1ubq_out_genion/1ubq.top b/...mdprep/test/data/1ubq_out_genion/1ubq.top → ...mdprep/test/data/1ubq_out_genion/1ubq.top
diff --git a/...mdprep/test/data/1ubq_out_grompp/1ubq.mdp → ...mdprep/test/data/1ubq_out_grompp/1ubq.mdp b/...mdprep/test/data/1ubq_out_grompp/1ubq.mdp → ...mdprep/test/data/1ubq_out_grompp/1ubq.mdp
diff --git a/...mdprep/test/data/1ubq_out_grompp/1ubq.top → ...mdprep/test/data/1ubq_out_grompp/1ubq.top b/...mdprep/test/data/1ubq_out_grompp/1ubq.top → ...mdprep/test/data/1ubq_out_grompp/1ubq.top
diff --git a/...mdprep/test/data/1ubq_out_grompp/1ubq.tpr → ...mdprep/test/data/1ubq_out_grompp/1ubq.tpr b/...mdprep/test/data/1ubq_out_grompp/1ubq.tpr → ...mdprep/test/data/1ubq_out_grompp/1ubq.tpr
diff --git a/...rep/test/data/1ubq_out_grompp/1ubq_in.mdp → ...rep/test/data/1ubq_out_grompp/1ubq_in.mdp b/...rep/test/data/1ubq_out_grompp/1ubq_in.mdp → ...rep/test/data/1ubq_out_grompp/1ubq_in.mdp
diff --git a/...dprep/test/data/1ubq_out_grompp2/1ubq.mdp → ...dprep/test/data/1ubq_out_grompp2/1ubq.mdp b/...dprep/test/data/1ubq_out_grompp2/1ubq.mdp → ...dprep/test/data/1ubq_out_grompp2/1ubq.mdp
diff --git a/...dprep/test/data/1ubq_out_grompp2/1ubq.top → ...dprep/test/data/1ubq_out_grompp2/1ubq.top b/...dprep/test/data/1ubq_out_grompp2/1ubq.top → ...dprep/test/data/1ubq_out_grompp2/1ubq.top
diff --git a/...dprep/test/data/1ubq_out_grompp2/1ubq.tpr → ...dprep/test/data/1ubq_out_grompp2/1ubq.tpr b/...dprep/test/data/1ubq_out_grompp2/1ubq.tpr → ...dprep/test/data/1ubq_out_grompp2/1ubq.tpr
diff --git a/.../data/1ubq_out_pdb2gmx/#1ubq.index.ndx.1# → .../data/1ubq_out_pdb2gmx/#1ubq.index.ndx.1# b/.../data/1ubq_out_pdb2gmx/#1ubq.index.ndx.1# → .../data/1ubq_out_pdb2gmx/#1ubq.index.ndx.1#
diff --git a/...dprep/test/data/1ubq_out_pdb2gmx/1ubq.gro → ...dprep/test/data/1ubq_out_pdb2gmx/1ubq.gro b/...dprep/test/data/1ubq_out_pdb2gmx/1ubq.gro → ...dprep/test/data/1ubq_out_pdb2gmx/1ubq.gro
diff --git a/...dprep/test/data/1ubq_out_pdb2gmx/1ubq.itp → ...dprep/test/data/1ubq_out_pdb2gmx/1ubq.itp b/...dprep/test/data/1ubq_out_pdb2gmx/1ubq.itp → ...dprep/test/data/1ubq_out_pdb2gmx/1ubq.itp
diff --git a/...dprep/test/data/1ubq_out_pdb2gmx/1ubq.ndx → ...dprep/test/data/1ubq_out_pdb2gmx/1ubq.ndx b/...dprep/test/data/1ubq_out_pdb2gmx/1ubq.ndx → ...dprep/test/data/1ubq_out_pdb2gmx/1ubq.ndx
diff --git a/...dprep/test/data/1ubq_out_pdb2gmx/1ubq.pdb → ...dprep/test/data/1ubq_out_pdb2gmx/1ubq.pdb b/...dprep/test/data/1ubq_out_pdb2gmx/1ubq.pdb → ...dprep/test/data/1ubq_out_pdb2gmx/1ubq.pdb
diff --git a/...dprep/test/data/1ubq_out_pdb2gmx/1ubq.top → ...dprep/test/data/1ubq_out_pdb2gmx/1ubq.top b/...dprep/test/data/1ubq_out_pdb2gmx/1ubq.top → ...dprep/test/data/1ubq_out_pdb2gmx/1ubq.top
diff --git a/...p/test/data/1ubq_out_solvate/#1ubq.top.1# → ...p/test/data/1ubq_out_solvate/#1ubq.top.1# b/...p/test/data/1ubq_out_solvate/#1ubq.top.1# → ...p/test/data/1ubq_out_solvate/#1ubq.top.1#
diff --git a/...dprep/test/data/1ubq_out_solvate/1ubq.gro → ...dprep/test/data/1ubq_out_solvate/1ubq.gro b/...dprep/test/data/1ubq_out_solvate/1ubq.gro → ...dprep/test/data/1ubq_out_solvate/1ubq.gro
diff --git a/...dprep/test/data/1ubq_out_solvate/1ubq.itp → ...dprep/test/data/1ubq_out_solvate/1ubq.itp b/...dprep/test/data/1ubq_out_solvate/1ubq.itp → ...dprep/test/data/1ubq_out_solvate/1ubq.itp
diff --git a/...dprep/test/data/1ubq_out_solvate/1ubq.top → ...dprep/test/data/1ubq_out_solvate/1ubq.top b/...dprep/test/data/1ubq_out_solvate/1ubq.top → ...dprep/test/data/1ubq_out_solvate/1ubq.top
diff --git a/...dprep/test/data/1ubq_out_trjconv/1ubq.gro → ...dprep/test/data/1ubq_out_trjconv/1ubq.gro b/...dprep/test/data/1ubq_out_trjconv/1ubq.gro → ...dprep/test/data/1ubq_out_trjconv/1ubq.gro
diff --git a/...ool/tools/mdprep/test/data/2qwo.nolig.pdb → tool/mdprep/test/data/2qwo.nolig.pdb b/...ool/tools/mdprep/test/data/2qwo.nolig.pdb → tool/mdprep/test/data/2qwo.nolig.pdb
diff --git a/lib/tool/tools/mdprep/test/data/2qwo.pdb → tool/mdprep/test/data/2qwo.pdb b/lib/tool/tools/mdprep/test/data/2qwo.pdb → tool/mdprep/test/data/2qwo.pdb
diff --git a/lib/tool/tools/mdprep/test/data/2wfv.pdb → tool/mdprep/test/data/2wfv.pdb b/lib/tool/tools/mdprep/test/data/2wfv.pdb → tool/mdprep/test/data/2wfv.pdb
diff --git a/lib/tool/tools/mdprep/test/data/4j6s.pdb → tool/mdprep/test/data/4j6s.pdb b/lib/tool/tools/mdprep/test/data/4j6s.pdb → tool/mdprep/test/data/4j6s.pdb
diff --git a/lib/tool/tools/mdprep/test/data/4nxo.pdb → tool/mdprep/test/data/4nxo.pdb b/lib/tool/tools/mdprep/test/data/4nxo.pdb → tool/mdprep/test/data/4nxo.pdb
diff --git a/lib/tool/tools/mdprep/test/data/5j6s.pdb → tool/mdprep/test/data/5j6s.pdb b/lib/tool/tools/mdprep/test/data/5j6s.pdb → tool/mdprep/test/data/5j6s.pdb
diff --git a/lib/tool/tools/mdprep/test/data/5vo4.pdb → tool/mdprep/test/data/5vo4.pdb b/lib/tool/tools/mdprep/test/data/5vo4.pdb → tool/mdprep/test/data/5vo4.pdb
diff --git a/lib/tool/tools/mdprep/test/data/8hn1.pdb → tool/mdprep/test/data/8hn1.pdb b/lib/tool/tools/mdprep/test/data/8hn1.pdb → tool/mdprep/test/data/8hn1.pdb
diff --git a/...ool/tools/mdprep/test/data/8hu4.nolig.pdb → tool/mdprep/test/data/8hu4.nolig.pdb b/...ool/tools/mdprep/test/data/8hu4.nolig.pdb → tool/mdprep/test/data/8hu4.nolig.pdb
diff --git a/lib/tool/tools/mdprep/test/data/8hu4.pdb → tool/mdprep/test/data/8hu4.pdb b/lib/tool/tools/mdprep/test/data/8hu4.pdb → tool/mdprep/test/data/8hu4.pdb
diff --git a/...prep/test/include/mdprep/test/fixture.hpp → ...prep/test/include/mdprep/test/fixture.hpp b/...prep/test/include/mdprep/test/fixture.hpp → ...prep/test/include/mdprep/test/fixture.hpp
diff --git a/lib/tool/tools/mdprep/test/src/editconf.cpp → tool/mdprep/test/src/editconf.cpp b/lib/tool/tools/mdprep/test/src/editconf.cpp → tool/mdprep/test/src/editconf.cpp
diff --git a/lib/tool/tools/mdprep/test/src/fixture.cpp → tool/mdprep/test/src/fixture.cpp b/lib/tool/tools/mdprep/test/src/fixture.cpp → tool/mdprep/test/src/fixture.cpp
diff --git a/lib/tool/tools/mdprep/test/src/genion.cpp → tool/mdprep/test/src/genion.cpp b/lib/tool/tools/mdprep/test/src/genion.cpp → tool/mdprep/test/src/genion.cpp
diff --git a/lib/tool/tools/mdprep/test/src/gromacs.cpp → tool/mdprep/test/src/gromacs.cpp b/lib/tool/tools/mdprep/test/src/gromacs.cpp → tool/mdprep/test/src/gromacs.cpp
diff --git a/lib/tool/tools/mdprep/test/src/grompp.cpp → tool/mdprep/test/src/grompp.cpp b/lib/tool/tools/mdprep/test/src/grompp.cpp → tool/mdprep/test/src/grompp.cpp
diff --git a/lib/tool/tools/mdprep/test/src/job.cpp → tool/mdprep/test/src/job.cpp b/lib/tool/tools/mdprep/test/src/job.cpp → tool/mdprep/test/src/job.cpp
diff --git a/lib/tool/tools/mdprep/test/src/pack.cpp → tool/mdprep/test/src/pack.cpp b/lib/tool/tools/mdprep/test/src/pack.cpp → tool/mdprep/test/src/pack.cpp
diff --git a/lib/tool/tools/mdprep/test/src/pdb2gmx.cpp → tool/mdprep/test/src/pdb2gmx.cpp b/lib/tool/tools/mdprep/test/src/pdb2gmx.cpp → tool/mdprep/test/src/pdb2gmx.cpp
diff --git a/...ol/tools/mdprep/test/src/pdb2gmx.impl.cpp → tool/mdprep/test/src/pdb2gmx.impl.cpp b/...ol/tools/mdprep/test/src/pdb2gmx.impl.cpp → tool/mdprep/test/src/pdb2gmx.impl.cpp
diff --git a/lib/tool/tools/mdprep/test/src/solvate.cpp → tool/mdprep/test/src/solvate.cpp b/lib/tool/tools/mdprep/test/src/solvate.cpp → tool/mdprep/test/src/solvate.cpp
diff --git a/lib/tool/tools/mdprep/test/src/trjconv.cpp → tool/mdprep/test/src/trjconv.cpp b/lib/tool/tools/mdprep/test/src/trjconv.cpp → tool/mdprep/test/src/trjconv.cpp
diff --git a/lib/tool/tools/mdprep/test/src/util.cpp → tool/mdprep/test/src/util.cpp b/lib/tool/tools/mdprep/test/src/util.cpp → tool/mdprep/test/src/util.cpp
diff --git a/...talign/asset/sprite/compute_rmsd_icon.png → ...talign/asset/sprite/compute_rmsd_icon.png b/...talign/asset/sprite/compute_rmsd_icon.png → ...talign/asset/sprite/compute_rmsd_icon.png
diff --git a/...sset/sprite/structural_alignment_icon.png → ...sset/sprite/structural_alignment_icon.png b/...sset/sprite/structural_alignment_icon.png → ...sset/sprite/structural_alignment_icon.png
diff --git a/...te/structural_alignment_settings_icon.png → ...te/structural_alignment_settings_icon.png b/...te/structural_alignment_settings_icon.png → ...te/structural_alignment_settings_icon.png