├── .github ├── CODEOWNERS └── workflows │ └── python-app.yml ├── .gitignore ├── .gitmodules ├── .readthedocs.yaml ├── .vscode └── settings.json ├── LICENSE ├── README.md ├── configuration.txt ├── docs ├── CODEOWNERS ├── Makefile ├── README.md ├── make.bat ├── requirements.yaml └── source │ ├── _static │ ├── README.md │ ├── logo │ │ ├── placeholder_favicon.svg │ │ ├── placeholder_logo.png │ │ └── polyconstruct_logo.png │ ├── monomer.png │ └── polymer.png │ ├── _templates │ ├── README.md │ └── class.rst │ ├── conf.py │ ├── getting_started.rst │ ├── index.rst │ ├── polybuild.rst │ ├── polyconf.Monomer.rst │ ├── polyconf.PDB.rst │ ├── polyconf.Polymer.rst │ ├── polyconf.rst │ ├── polyconstruct-sphinx-theme │ ├── AUTHORS.md │ ├── CHANGELOG.md │ ├── LICENSE │ ├── MANIFEST.in │ ├── README.md │ ├── docs │ │ ├── .gitignore │ │ ├── Makefile │ │ ├── _static │ │ │ ├── copy-overrides.css │ │ │ ├── images │ │ │ │ └── apple-icon-152x152.png │ │ │ └── versions.json │ │ ├── change-log.rst │ │ ├── conf.py │ │ ├── environment.yml │ │ ├── index.rst │ │ ├── license.rst │ │ └── make.bat │ ├── polyconstruct_sphinx_theme │ │ ├── __init__.py │ │ ├── authors.py │ │ ├── footer.html │ │ ├── layout.html │ │ ├── navigation.html │ │ ├── sass │ │ │ ├── admonitions.sass │ │ │ ├── bulma │ │ │ │ ├── bulma.sass │ │ │ │ └── sass │ │ │ │ │ ├── .DS_Store │ │ │ │ │ ├── base │ │ │ │ │ ├── .DS_Store │ │ │ │ │ ├── _all.sass │ │ │ │ │ ├── animations.sass │ │ │ │ │ ├── generic.sass │ │ │ │ │ ├── helpers.sass │ │ │ │ │ └── minireset.sass │ │ │ │ │ ├── components │ │ │ │ │ ├── _all.sass │ │ │ │ │ ├── breadcrumb.sass │ │ │ │ │ ├── card.sass │ │ │ │ │ ├── dropdown.sass │ │ │ │ │ ├── level.sass │ │ │ │ │ ├── media.sass │ │ │ │ │ ├── menu.sass │ │ │ │ │ ├── message.sass │ │ │ │ │ ├── modal.sass │ │ │ │ │ ├── navbar.sass │ │ │ │ │ ├── pagination.sass │ │ │ │ │ ├── panel.sass │ │ │ │ │ └── tabs.sass │ │ │ │ │ ├── elements │ │ │ │ │ ├── _all.sass │ │ │ │ │ ├── box.sass │ │ │ │ │ ├── button.sass │ │ │ │ │ ├── container.sass │ │ │ │ │ ├── content.sass │ │ │ │ │ ├── form.sass │ │ │ │ │ ├── icon.sass │ │ │ │ │ ├── image.sass │ │ │ │ │ ├── notification.sass │ │ │ │ │ ├── other.sass │ │ │ │ │ ├── progress.sass │ │ │ │ │ ├── table.sass │ │ │ │ │ ├── tag.sass │ │ │ │ │ └── title.sass │ │ │ │ │ ├── form │ │ │ │ │ ├── _all.sass │ │ │ │ │ ├── checkbox-radio.sass │ │ │ │ │ ├── file.sass │ │ │ │ │ ├── input-textarea.sass │ │ │ │ │ ├── select.sass │ │ │ │ │ ├── shared.sass │ │ │ │ │ └── tools.sass │ │ │ │ │ ├── grid │ │ │ │ │ ├── _all.sass │ │ │ │ │ ├── columns.sass │ │ │ │ │ └── tiles.sass │ │ │ │ │ ├── helpers │ │ │ │ │ ├── _all.sass │ │ │ │ │ ├── color.sass │ │ │ │ │ ├── flexbox.sass │ │ │ │ │ ├── float.sass │ │ │ │ │ ├── other.sass │ │ │ │ │ ├── overflow.sass │ │ │ │ │ ├── position.sass │ │ │ │ │ ├── spacing.sass │ │ │ │ │ ├── typography.sass │ │ │ │ │ └── visibility.sass │ │ │ │ │ ├── layout │ │ │ │ │ ├── _all.sass │ │ │ │ │ ├── footer.sass │ │ │ │ │ ├── hero.sass │ │ │ │ │ └── section.sass │ │ │ │ │ └── utilities │ │ │ │ │ ├── .DS_Store │ │ │ │ │ ├── _all.sass │ │ │ │ │ ├── animations.sass │ │ │ │ │ ├── controls.sass │ │ │ │ │ ├── derived-variables.sass │ │ │ │ │ ├── extends.sass │ │ │ │ │ ├── functions.sass │ │ │ │ │ ├── initial-variables.sass │ │ │ │ │ └── mixins.sass │ │ │ ├── material-content.scss │ │ │ ├── mdanalysis-sphinx.scss │ │ │ ├── site.sass │ │ │ ├── sphinx-api.scss │ │ │ ├── sphinx-content.scss │ │ │ └── utilities │ │ │ │ ├── _convert.scss │ │ │ │ └── _z-depth.scss │ │ ├── static │ │ │ ├── js │ │ │ │ └── versions.js │ │ │ └── logo │ │ │ │ ├── mda_favicon.ico │ │ │ │ ├── mda_logo.png │ │ │ │ ├── placeholder_favicon.svg │ │ │ │ ├── placeholder_logo.png │ │ │ │ └── polyconstruct_logo.png │ │ ├── theme.conf │ │ └── versions.html │ ├── pyproject.toml │ └── setup.py │ ├── polytop.Angles.rst │ ├── polytop.Atoms.rst │ ├── polytop.Bonds.rst │ ├── polytop.Dihedrals.rst │ ├── polytop.Exclusions.rst │ ├── polytop.Gromacs.rst │ ├── polytop.Junction.rst │ ├── polytop.Molecule_type.rst │ ├── polytop.Monomer.rst │ ├── polytop.Pairs.rst │ ├── polytop.Polymer.rst │ ├── polytop.Topology.rst │ ├── polytop.Visualize.rst │ └── polytop.rst ├── polybuild ├── polybuild │ ├── ITP2RTP.py │ ├── RTPcharge.py │ └── __init__.py └── pyproject.toml ├── polybuild_examples ├── RTP_entries │ ├── EBPB.rtp │ ├── ELNR.rtp │ ├── ELPR.rtp │ ├── ELPS.rtp │ ├── EPBP.rtp │ ├── PEAD.rtp │ ├── PEMD.rtp │ ├── PNIPAM_OPLS_monomer.itp │ └── PNIPAM_OPLS_monomer.rtp └── readme.MD ├── polyconf ├── polyconf │ ├── Monomer.py │ ├── PDB.py │ ├── Polymer.py │ └── __init__.py └── pyproject.toml ├── polyconf_examples ├── 01a_build_PEI_with_extend.py ├── 01b_build_PEI_with_linear_extend.py ├── 01c_build_PEI_then_solve.py ├── 01d_build_PEI_conformation.py ├── 01e_build_PEI_conformation_ensemble.py ├── 02a_build_PMMA_isotactic.py ├── 02b_build_PMMA_syndiotactic.py ├── 02c_build_PMMA_atactic.py ├── 02d_build_PMMA_atactic_with_linear_extend.py ├── 03_build_branched_PEI.py ├── 04_build_randomly_branched_PEI.py ├── MMAD_bonds.pdb ├── MMAL_bonds.pdb ├── PEI_end.pdb ├── PEI_monomer.pdb ├── PEI_start.pdb └── README.md ├── polytop ├── polytop │ ├── Angles.py │ ├── Atoms.py │ ├── Bonds.py │ ├── Dihedrals.py │ ├── Exclusions.py │ ├── Gromacs.py │ ├── ITP.py │ ├── Junction.py │ ├── Molecule.py │ ├── Molecule_type.py │ ├── Monomer.py │ ├── Pairs.py │ ├── Polymer.py │ ├── Polymerization_type.py │ ├── Topology.py │ ├── Visualize.py │ └── __init__.py └── pyproject.toml ├── polytop_examples ├── README.md ├── data │ ├── dendrimer_bifurcating.itp │ ├── dendrimer_core.itp │ ├── dendrimer_terminal.itp │ ├── extended_ethanol.itp │ ├── extended_methane.itp │ ├── extended_neopentane.itp │ └── pei.itp ├── dendrimer_ethylamine.py ├── linear_PEI.py └── star_PEG.py ├── pyproject.toml ├── requirements.txt ├── tests ├── __init__.py ├── conftest.py ├── data │ ├── AMBER_PNIPAM_extend.itp │ ├── AMBER_pnipam_GMX.itp │ ├── CHARMM_PNIPAM_extend.itp │ ├── CHARMM_pnipam_gmx.itp │ ├── CODI_bonds.pdb │ ├── OPLS_UNK_460A12.itp │ ├── PEI_end.pdb │ ├── PEI_monomer.pdb │ ├── PEI_start.pdb │ ├── PH1.itp │ ├── arginine.itp │ ├── ethylene_terephthalate.itp │ ├── glucose.itp │ ├── glucose_badname.itp │ ├── glucose_badtype.itp │ ├── glucose_faulty.itp │ ├── glucose_numeric_oxygens.itp │ ├── glutamine.itp │ └── invalid_section.itp ├── polyconf │ ├── __init__.py │ ├── test_PDB.py │ ├── test_data.py │ ├── test_import.py │ ├── test_monomer.py │ └── test_polymer.py └── polytop │ ├── __init__.py │ ├── test_angles.py │ ├── test_atoms.py │ ├── test_bonds.py │ ├── test_data.py │ ├── test_dihedrals.py │ ├── test_gromacs.py │ ├── test_junctions.py │ ├── test_moleculetype.py │ ├── test_monomer.py │ ├── test_polymer.py │ ├── test_polymerization_type.py │ ├── test_topology.py │ └── test_visualize.py └── validation_simulations ├── 4_arm_PEG_PolyConf.pdb ├── 4_arm_PEG_PolyTop.itp ├── 4_arm_PEG_PolyTop.top ├── Hyperbranched_PEI.pdb ├── MD_production_run.mdp ├── PEI_hyperbranched_PolyBuild.top └── readme.MD /.github/CODEOWNERS: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/.github/CODEOWNERS -------------------------------------------------------------------------------- /.github/workflows/python-app.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/.github/workflows/python-app.yml -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/.gitignore -------------------------------------------------------------------------------- /.gitmodules: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /.readthedocs.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/.readthedocs.yaml -------------------------------------------------------------------------------- /.vscode/settings.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/.vscode/settings.json -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/LICENSE -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/README.md -------------------------------------------------------------------------------- /configuration.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/configuration.txt -------------------------------------------------------------------------------- /docs/CODEOWNERS: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/CODEOWNERS -------------------------------------------------------------------------------- /docs/Makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/Makefile -------------------------------------------------------------------------------- /docs/README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/README.md -------------------------------------------------------------------------------- /docs/make.bat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/make.bat -------------------------------------------------------------------------------- /docs/requirements.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/requirements.yaml -------------------------------------------------------------------------------- /docs/source/_static/README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/_static/README.md -------------------------------------------------------------------------------- /docs/source/_static/logo/placeholder_favicon.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/_static/logo/placeholder_favicon.svg -------------------------------------------------------------------------------- /docs/source/_static/logo/placeholder_logo.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/_static/logo/placeholder_logo.png -------------------------------------------------------------------------------- /docs/source/_static/logo/polyconstruct_logo.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/_static/logo/polyconstruct_logo.png -------------------------------------------------------------------------------- /docs/source/_static/monomer.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/_static/monomer.png -------------------------------------------------------------------------------- /docs/source/_static/polymer.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/_static/polymer.png -------------------------------------------------------------------------------- /docs/source/_templates/README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/_templates/README.md -------------------------------------------------------------------------------- /docs/source/_templates/class.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/_templates/class.rst -------------------------------------------------------------------------------- /docs/source/conf.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/conf.py -------------------------------------------------------------------------------- /docs/source/getting_started.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/getting_started.rst -------------------------------------------------------------------------------- /docs/source/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/index.rst -------------------------------------------------------------------------------- /docs/source/polybuild.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polybuild.rst -------------------------------------------------------------------------------- /docs/source/polyconf.Monomer.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconf.Monomer.rst -------------------------------------------------------------------------------- /docs/source/polyconf.PDB.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconf.PDB.rst -------------------------------------------------------------------------------- /docs/source/polyconf.Polymer.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconf.Polymer.rst -------------------------------------------------------------------------------- /docs/source/polyconf.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconf.rst -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/AUTHORS.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/AUTHORS.md -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/CHANGELOG.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/CHANGELOG.md -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/LICENSE -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/MANIFEST.in: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/MANIFEST.in -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/README.md -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/docs/.gitignore: -------------------------------------------------------------------------------- 1 | _build -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/docs/Makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/docs/Makefile -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/docs/_static/copy-overrides.css: -------------------------------------------------------------------------------- 1 | .o-tooltip--left:after{ 2 | font-size: 0.8rem; 3 | } 4 | -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/docs/_static/images/apple-icon-152x152.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/docs/_static/images/apple-icon-152x152.png -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/docs/_static/versions.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/docs/_static/versions.json -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/docs/change-log.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/docs/change-log.rst -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/docs/conf.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/docs/conf.py -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/docs/environment.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/docs/environment.yml -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/docs/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/docs/index.rst -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/docs/license.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/docs/license.rst -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/docs/make.bat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/docs/make.bat -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/__init__.py -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/authors.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/authors.py -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/footer.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/footer.html -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/layout.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/layout.html -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/navigation.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/navigation.html -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/admonitions.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/admonitions.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/bulma.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/bulma.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/.DS_Store: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/.DS_Store -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/.DS_Store: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/.DS_Store -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/_all.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/_all.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/animations.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/animations.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/generic.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/generic.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/helpers.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/helpers.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/minireset.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/base/minireset.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/_all.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/_all.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/breadcrumb.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/breadcrumb.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/card.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/card.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/dropdown.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/dropdown.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/level.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/level.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/media.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/media.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/menu.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/menu.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/message.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/message.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/modal.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/modal.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/navbar.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/navbar.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/pagination.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/pagination.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/panel.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/panel.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/tabs.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/components/tabs.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/_all.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/_all.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/box.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/box.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/button.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/button.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/container.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/container.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/content.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/content.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/form.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/form.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/icon.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/icon.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/image.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/image.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/notification.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/notification.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/other.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/other.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/progress.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/progress.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/table.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/table.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/tag.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/tag.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/title.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/elements/title.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/_all.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/_all.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/checkbox-radio.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/checkbox-radio.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/file.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/file.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/input-textarea.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/input-textarea.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/select.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/select.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/shared.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/shared.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/tools.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/form/tools.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/grid/_all.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/grid/_all.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/grid/columns.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/grid/columns.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/grid/tiles.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/grid/tiles.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/_all.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/_all.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/color.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/color.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/flexbox.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/flexbox.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/float.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/float.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/other.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/other.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/overflow.sass: -------------------------------------------------------------------------------- 1 | .is-clipped 2 | overflow: hidden !important 3 | -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/position.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/position.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/spacing.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/spacing.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/typography.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/typography.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/visibility.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/helpers/visibility.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/layout/_all.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/layout/_all.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/layout/footer.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/layout/footer.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/layout/hero.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/layout/hero.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/layout/section.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/layout/section.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/.DS_Store: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/.DS_Store -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/_all.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/_all.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/animations.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/animations.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/controls.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/controls.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/derived-variables.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/derived-variables.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/extends.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/extends.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/functions.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/functions.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/initial-variables.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/initial-variables.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/mixins.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/bulma/sass/utilities/mixins.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/material-content.scss: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/material-content.scss -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/mdanalysis-sphinx.scss: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/mdanalysis-sphinx.scss -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/site.sass: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/site.sass -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/sphinx-api.scss: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/sphinx-api.scss -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/sphinx-content.scss: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/sphinx-content.scss -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/utilities/_convert.scss: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/utilities/_convert.scss -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/utilities/_z-depth.scss: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/sass/utilities/_z-depth.scss -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/js/versions.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/js/versions.js -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/logo/mda_favicon.ico: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/logo/mda_favicon.ico -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/logo/mda_logo.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/logo/mda_logo.png -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/logo/placeholder_favicon.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/logo/placeholder_favicon.svg -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/logo/placeholder_logo.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/logo/placeholder_logo.png -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/logo/polyconstruct_logo.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/static/logo/polyconstruct_logo.png -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/theme.conf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/theme.conf -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/versions.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/polyconstruct_sphinx_theme/versions.html -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/pyproject.toml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/pyproject.toml -------------------------------------------------------------------------------- /docs/source/polyconstruct-sphinx-theme/setup.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polyconstruct-sphinx-theme/setup.py -------------------------------------------------------------------------------- /docs/source/polytop.Angles.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Angles.rst -------------------------------------------------------------------------------- /docs/source/polytop.Atoms.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Atoms.rst -------------------------------------------------------------------------------- /docs/source/polytop.Bonds.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Bonds.rst -------------------------------------------------------------------------------- /docs/source/polytop.Dihedrals.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Dihedrals.rst -------------------------------------------------------------------------------- /docs/source/polytop.Exclusions.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Exclusions.rst -------------------------------------------------------------------------------- /docs/source/polytop.Gromacs.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Gromacs.rst -------------------------------------------------------------------------------- /docs/source/polytop.Junction.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Junction.rst -------------------------------------------------------------------------------- /docs/source/polytop.Molecule_type.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Molecule_type.rst -------------------------------------------------------------------------------- /docs/source/polytop.Monomer.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Monomer.rst -------------------------------------------------------------------------------- /docs/source/polytop.Pairs.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Pairs.rst -------------------------------------------------------------------------------- /docs/source/polytop.Polymer.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Polymer.rst -------------------------------------------------------------------------------- /docs/source/polytop.Topology.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Topology.rst -------------------------------------------------------------------------------- /docs/source/polytop.Visualize.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.Visualize.rst -------------------------------------------------------------------------------- /docs/source/polytop.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/docs/source/polytop.rst -------------------------------------------------------------------------------- /polybuild/polybuild/ITP2RTP.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild/polybuild/ITP2RTP.py -------------------------------------------------------------------------------- /polybuild/polybuild/RTPcharge.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild/polybuild/RTPcharge.py -------------------------------------------------------------------------------- /polybuild/polybuild/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild/polybuild/__init__.py -------------------------------------------------------------------------------- /polybuild/pyproject.toml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild/pyproject.toml -------------------------------------------------------------------------------- /polybuild_examples/RTP_entries/EBPB.rtp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild_examples/RTP_entries/EBPB.rtp -------------------------------------------------------------------------------- /polybuild_examples/RTP_entries/ELNR.rtp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild_examples/RTP_entries/ELNR.rtp -------------------------------------------------------------------------------- /polybuild_examples/RTP_entries/ELPR.rtp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild_examples/RTP_entries/ELPR.rtp -------------------------------------------------------------------------------- /polybuild_examples/RTP_entries/ELPS.rtp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild_examples/RTP_entries/ELPS.rtp -------------------------------------------------------------------------------- /polybuild_examples/RTP_entries/EPBP.rtp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild_examples/RTP_entries/EPBP.rtp -------------------------------------------------------------------------------- /polybuild_examples/RTP_entries/PEAD.rtp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild_examples/RTP_entries/PEAD.rtp -------------------------------------------------------------------------------- /polybuild_examples/RTP_entries/PEMD.rtp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild_examples/RTP_entries/PEMD.rtp -------------------------------------------------------------------------------- /polybuild_examples/RTP_entries/PNIPAM_OPLS_monomer.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild_examples/RTP_entries/PNIPAM_OPLS_monomer.itp -------------------------------------------------------------------------------- /polybuild_examples/RTP_entries/PNIPAM_OPLS_monomer.rtp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild_examples/RTP_entries/PNIPAM_OPLS_monomer.rtp -------------------------------------------------------------------------------- /polybuild_examples/readme.MD: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polybuild_examples/readme.MD -------------------------------------------------------------------------------- /polyconf/polyconf/Monomer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf/polyconf/Monomer.py -------------------------------------------------------------------------------- /polyconf/polyconf/PDB.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf/polyconf/PDB.py -------------------------------------------------------------------------------- /polyconf/polyconf/Polymer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf/polyconf/Polymer.py -------------------------------------------------------------------------------- /polyconf/polyconf/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf/polyconf/__init__.py -------------------------------------------------------------------------------- /polyconf/pyproject.toml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf/pyproject.toml -------------------------------------------------------------------------------- /polyconf_examples/01a_build_PEI_with_extend.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/01a_build_PEI_with_extend.py -------------------------------------------------------------------------------- /polyconf_examples/01b_build_PEI_with_linear_extend.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/01b_build_PEI_with_linear_extend.py -------------------------------------------------------------------------------- /polyconf_examples/01c_build_PEI_then_solve.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/01c_build_PEI_then_solve.py -------------------------------------------------------------------------------- /polyconf_examples/01d_build_PEI_conformation.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/01d_build_PEI_conformation.py -------------------------------------------------------------------------------- /polyconf_examples/01e_build_PEI_conformation_ensemble.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/01e_build_PEI_conformation_ensemble.py -------------------------------------------------------------------------------- /polyconf_examples/02a_build_PMMA_isotactic.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/02a_build_PMMA_isotactic.py -------------------------------------------------------------------------------- /polyconf_examples/02b_build_PMMA_syndiotactic.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/02b_build_PMMA_syndiotactic.py -------------------------------------------------------------------------------- /polyconf_examples/02c_build_PMMA_atactic.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/02c_build_PMMA_atactic.py -------------------------------------------------------------------------------- /polyconf_examples/02d_build_PMMA_atactic_with_linear_extend.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/02d_build_PMMA_atactic_with_linear_extend.py -------------------------------------------------------------------------------- /polyconf_examples/03_build_branched_PEI.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/03_build_branched_PEI.py -------------------------------------------------------------------------------- /polyconf_examples/04_build_randomly_branched_PEI.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/04_build_randomly_branched_PEI.py -------------------------------------------------------------------------------- /polyconf_examples/MMAD_bonds.pdb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/MMAD_bonds.pdb -------------------------------------------------------------------------------- /polyconf_examples/MMAL_bonds.pdb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/MMAL_bonds.pdb -------------------------------------------------------------------------------- /polyconf_examples/PEI_end.pdb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/PEI_end.pdb -------------------------------------------------------------------------------- /polyconf_examples/PEI_monomer.pdb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/PEI_monomer.pdb -------------------------------------------------------------------------------- /polyconf_examples/PEI_start.pdb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/PEI_start.pdb -------------------------------------------------------------------------------- /polyconf_examples/README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polyconf_examples/README.md -------------------------------------------------------------------------------- /polytop/polytop/Angles.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Angles.py -------------------------------------------------------------------------------- /polytop/polytop/Atoms.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Atoms.py -------------------------------------------------------------------------------- /polytop/polytop/Bonds.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Bonds.py -------------------------------------------------------------------------------- /polytop/polytop/Dihedrals.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Dihedrals.py -------------------------------------------------------------------------------- /polytop/polytop/Exclusions.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Exclusions.py -------------------------------------------------------------------------------- /polytop/polytop/Gromacs.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Gromacs.py -------------------------------------------------------------------------------- /polytop/polytop/ITP.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/ITP.py -------------------------------------------------------------------------------- /polytop/polytop/Junction.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Junction.py -------------------------------------------------------------------------------- /polytop/polytop/Molecule.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Molecule.py -------------------------------------------------------------------------------- /polytop/polytop/Molecule_type.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Molecule_type.py -------------------------------------------------------------------------------- /polytop/polytop/Monomer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Monomer.py -------------------------------------------------------------------------------- /polytop/polytop/Pairs.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Pairs.py -------------------------------------------------------------------------------- /polytop/polytop/Polymer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Polymer.py -------------------------------------------------------------------------------- /polytop/polytop/Polymerization_type.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Polymerization_type.py -------------------------------------------------------------------------------- /polytop/polytop/Topology.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Topology.py -------------------------------------------------------------------------------- /polytop/polytop/Visualize.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/Visualize.py -------------------------------------------------------------------------------- /polytop/polytop/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/polytop/__init__.py -------------------------------------------------------------------------------- /polytop/pyproject.toml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop/pyproject.toml -------------------------------------------------------------------------------- /polytop_examples/README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop_examples/README.md -------------------------------------------------------------------------------- /polytop_examples/data/dendrimer_bifurcating.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop_examples/data/dendrimer_bifurcating.itp -------------------------------------------------------------------------------- /polytop_examples/data/dendrimer_core.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop_examples/data/dendrimer_core.itp -------------------------------------------------------------------------------- /polytop_examples/data/dendrimer_terminal.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop_examples/data/dendrimer_terminal.itp -------------------------------------------------------------------------------- /polytop_examples/data/extended_ethanol.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop_examples/data/extended_ethanol.itp -------------------------------------------------------------------------------- /polytop_examples/data/extended_methane.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop_examples/data/extended_methane.itp -------------------------------------------------------------------------------- /polytop_examples/data/extended_neopentane.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop_examples/data/extended_neopentane.itp -------------------------------------------------------------------------------- /polytop_examples/data/pei.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop_examples/data/pei.itp -------------------------------------------------------------------------------- /polytop_examples/dendrimer_ethylamine.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop_examples/dendrimer_ethylamine.py -------------------------------------------------------------------------------- /polytop_examples/linear_PEI.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop_examples/linear_PEI.py -------------------------------------------------------------------------------- /polytop_examples/star_PEG.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/polytop_examples/star_PEG.py -------------------------------------------------------------------------------- /pyproject.toml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/pyproject.toml -------------------------------------------------------------------------------- /requirements.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/requirements.txt -------------------------------------------------------------------------------- /tests/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /tests/conftest.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/conftest.py -------------------------------------------------------------------------------- /tests/data/AMBER_PNIPAM_extend.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/AMBER_PNIPAM_extend.itp -------------------------------------------------------------------------------- /tests/data/AMBER_pnipam_GMX.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/AMBER_pnipam_GMX.itp -------------------------------------------------------------------------------- /tests/data/CHARMM_PNIPAM_extend.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/CHARMM_PNIPAM_extend.itp -------------------------------------------------------------------------------- /tests/data/CHARMM_pnipam_gmx.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/CHARMM_pnipam_gmx.itp -------------------------------------------------------------------------------- /tests/data/CODI_bonds.pdb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/CODI_bonds.pdb -------------------------------------------------------------------------------- /tests/data/OPLS_UNK_460A12.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/OPLS_UNK_460A12.itp -------------------------------------------------------------------------------- /tests/data/PEI_end.pdb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/PEI_end.pdb -------------------------------------------------------------------------------- /tests/data/PEI_monomer.pdb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/PEI_monomer.pdb -------------------------------------------------------------------------------- /tests/data/PEI_start.pdb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/PEI_start.pdb -------------------------------------------------------------------------------- /tests/data/PH1.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/PH1.itp -------------------------------------------------------------------------------- /tests/data/arginine.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/arginine.itp -------------------------------------------------------------------------------- /tests/data/ethylene_terephthalate.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/ethylene_terephthalate.itp -------------------------------------------------------------------------------- /tests/data/glucose.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/glucose.itp -------------------------------------------------------------------------------- /tests/data/glucose_badname.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/glucose_badname.itp -------------------------------------------------------------------------------- /tests/data/glucose_badtype.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/glucose_badtype.itp -------------------------------------------------------------------------------- /tests/data/glucose_faulty.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/glucose_faulty.itp -------------------------------------------------------------------------------- /tests/data/glucose_numeric_oxygens.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/glucose_numeric_oxygens.itp -------------------------------------------------------------------------------- /tests/data/glutamine.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/glutamine.itp -------------------------------------------------------------------------------- /tests/data/invalid_section.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/data/invalid_section.itp -------------------------------------------------------------------------------- /tests/polyconf/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /tests/polyconf/test_PDB.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polyconf/test_PDB.py -------------------------------------------------------------------------------- /tests/polyconf/test_data.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polyconf/test_data.py -------------------------------------------------------------------------------- /tests/polyconf/test_import.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polyconf/test_import.py -------------------------------------------------------------------------------- /tests/polyconf/test_monomer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polyconf/test_monomer.py -------------------------------------------------------------------------------- /tests/polyconf/test_polymer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polyconf/test_polymer.py -------------------------------------------------------------------------------- /tests/polytop/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /tests/polytop/test_angles.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_angles.py -------------------------------------------------------------------------------- /tests/polytop/test_atoms.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_atoms.py -------------------------------------------------------------------------------- /tests/polytop/test_bonds.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_bonds.py -------------------------------------------------------------------------------- /tests/polytop/test_data.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_data.py -------------------------------------------------------------------------------- /tests/polytop/test_dihedrals.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_dihedrals.py -------------------------------------------------------------------------------- /tests/polytop/test_gromacs.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_gromacs.py -------------------------------------------------------------------------------- /tests/polytop/test_junctions.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_junctions.py -------------------------------------------------------------------------------- /tests/polytop/test_moleculetype.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_moleculetype.py -------------------------------------------------------------------------------- /tests/polytop/test_monomer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_monomer.py -------------------------------------------------------------------------------- /tests/polytop/test_polymer.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_polymer.py -------------------------------------------------------------------------------- /tests/polytop/test_polymerization_type.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_polymerization_type.py -------------------------------------------------------------------------------- /tests/polytop/test_topology.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_topology.py -------------------------------------------------------------------------------- /tests/polytop/test_visualize.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/tests/polytop/test_visualize.py -------------------------------------------------------------------------------- /validation_simulations/4_arm_PEG_PolyConf.pdb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/validation_simulations/4_arm_PEG_PolyConf.pdb -------------------------------------------------------------------------------- /validation_simulations/4_arm_PEG_PolyTop.itp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/validation_simulations/4_arm_PEG_PolyTop.itp -------------------------------------------------------------------------------- /validation_simulations/4_arm_PEG_PolyTop.top: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/validation_simulations/4_arm_PEG_PolyTop.top -------------------------------------------------------------------------------- /validation_simulations/Hyperbranched_PEI.pdb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/validation_simulations/Hyperbranched_PEI.pdb -------------------------------------------------------------------------------- /validation_simulations/MD_production_run.mdp: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/validation_simulations/MD_production_run.mdp -------------------------------------------------------------------------------- /validation_simulations/PEI_hyperbranched_PolyBuild.top: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/validation_simulations/PEI_hyperbranched_PolyBuild.top -------------------------------------------------------------------------------- /validation_simulations/readme.MD: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/OMaraLab/polyconstruct/HEAD/validation_simulations/readme.MD --------------------------------------------------------------------------------