duello 0.1.4__tar.gz → 0.1.6__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (61) hide show
  1. duello-0.1.6/.cargo/config.toml +2 -0
  2. {duello-0.1.4 → duello-0.1.6}/.gitignore +4 -0
  3. {duello-0.1.4 → duello-0.1.6}/.vscode/settings.json +10 -5
  4. duello-0.1.6/.zenodo.json +30 -0
  5. {duello-0.1.4 → duello-0.1.6}/Cargo.lock +456 -332
  6. {duello-0.1.4 → duello-0.1.6}/Cargo.toml +26 -17
  7. {duello-0.1.4 → duello-0.1.6}/PKG-INFO +34 -18
  8. {duello-0.1.4 → duello-0.1.6}/README.md +31 -17
  9. duello-0.1.4/assets/calvados3.ipynb → duello-0.1.6/assets/convert-calvados3.ipynb +20 -16
  10. duello-0.1.6/examples/cppm/virial-integration.ipynb +484 -0
  11. duello-0.1.6/examples/lazy_static.rs +25 -0
  12. duello-0.1.6/examples/lookup.rs +72 -0
  13. duello-0.1.6/pdb2xyz/.python-version +1 -0
  14. duello-0.1.6/pdb2xyz/README.md +0 -0
  15. duello-0.1.6/pdb2xyz/main.py +222 -0
  16. duello-0.1.6/pdb2xyz/pyproject.toml +7 -0
  17. {duello-0.1.4 → duello-0.1.6}/pyproject.toml +6 -0
  18. {duello-0.1.4 → duello-0.1.6}/scripts/calvados3.sh +3 -4
  19. duello-0.1.6/scripts/colab.ipynb +1 -0
  20. {duello-0.1.4 → duello-0.1.6}/scripts/cppm.sh +6 -5
  21. duello-0.1.6/src/energy.rs +112 -0
  22. duello-0.1.6/src/fibonacci.rs +49 -0
  23. duello-0.1.6/src/icoscan.rs +205 -0
  24. duello-0.1.6/src/icosphere.rs +210 -0
  25. duello-0.1.6/src/icotable.rs +619 -0
  26. duello-0.1.6/src/lib.rs +64 -0
  27. {duello-0.1.4 → duello-0.1.6}/src/main.rs +95 -104
  28. duello-0.1.6/src/report.rs +104 -0
  29. duello-0.1.6/src/sample.rs +132 -0
  30. duello-0.1.6/src/spherical.rs +126 -0
  31. {duello-0.1.4 → duello-0.1.6}/src/structure.rs +159 -135
  32. {duello-0.1.4 → duello-0.1.6}/src/table.rs +30 -6
  33. duello-0.1.6/src/vertex.rs +61 -0
  34. duello-0.1.6/src/virial.rs +172 -0
  35. duello-0.1.6/uv.lock +256 -0
  36. duello-0.1.4/examples/icosphere.rs +0 -23
  37. duello-0.1.4/scripts/colab.ipynb +0 -1
  38. duello-0.1.4/scripts/pdb2xyz.py +0 -32
  39. duello-0.1.4/src/anglescan.rs +0 -357
  40. duello-0.1.4/src/energy.rs +0 -65
  41. duello-0.1.4/src/icoscan.rs +0 -107
  42. duello-0.1.4/src/icotable.rs +0 -515
  43. duello-0.1.4/src/lib.rs +0 -148
  44. duello-0.1.4/src/report.rs +0 -97
  45. {duello-0.1.4 → duello-0.1.6}/.github/dependabot.yml +0 -0
  46. {duello-0.1.4 → duello-0.1.6}/.github/workflows/rust.yml +0 -0
  47. {duello-0.1.4 → duello-0.1.6}/.vscode/extensions.json +0 -0
  48. {duello-0.1.4 → duello-0.1.6}/.vscode/launch.json +0 -0
  49. {duello-0.1.4 → duello-0.1.6}/.zed/settings.json +0 -0
  50. {duello-0.1.4 → duello-0.1.6}/LICENSE +0 -0
  51. {duello-0.1.4 → duello-0.1.6}/assets/atoms.yml +0 -0
  52. {duello-0.1.4 → duello-0.1.6}/assets/duello-logo.png +0 -0
  53. {duello-0.1.4 → duello-0.1.6}/assets/illustration.png +0 -0
  54. {duello-0.1.4 → duello-0.1.6}/examples/calvados3/4lzt.xyz +0 -0
  55. {duello-0.1.4 → duello-0.1.6}/examples/calvados3/calvados3.yaml +0 -0
  56. {duello-0.1.4 → duello-0.1.6}/examples/calvados3/topology.yaml +0 -0
  57. {duello-0.1.4 → duello-0.1.6}/examples/cppm/cppm-p00.xyz +0 -0
  58. {duello-0.1.4 → duello-0.1.6}/examples/cppm/cppm-p18.xyz +0 -0
  59. {duello-0.1.4 → duello-0.1.6}/examples/cppm/topology.yaml +0 -0
  60. {duello-0.1.4 → duello-0.1.6}/examples/notebook/interpolation-error.ipynb +0 -0
  61. {duello-0.1.4 → duello-0.1.6}/examples/notebook/plot_potential.py +0 -0
@@ -0,0 +1,2 @@
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+ [env]
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+ CMAKE_POLICY_VERSION_MINIMUM="3.16"
@@ -2,6 +2,10 @@
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  # will have compiled files and executables
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  debug/
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  target/
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+ *.vmd
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+ *.json
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+ log
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+ *.tga
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  # Remove Cargo.lock from gitignore if creating an executable, leave it for libraries
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  # More information here https://doc.rust-lang.org/cargo/guide/cargo-toml-vs-cargo-lock.html
@@ -87,9 +87,14 @@
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  "utility": "cpp"
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  },
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  "rust-analyzer.showUnlinkedFileNotification": false,
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- "rust-analyzer.cargo.features": [
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-
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- "serde"
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- ],
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- "rust-analyzer.cargo.noDefaultFeatures": false
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+ "rust-analyzer.cargo.noDefaultFeatures": false,
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+ "rust-analyzer.checkOnSave": true,
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+ "editor.tabCompletion": "on",
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+ "python.languageServer": "Pylance", // or "Default"
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+ "python.autoComplete.addBrackets": true,
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+ "editor.quickSuggestions": {
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+ "other": true,
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+ "comments": false,
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+ "strings": true
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+ }
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  }
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+ {
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+ "title": "Duello - Virial Coefficient and Dissociation Constant Estimation for Rigid Macromolecules",
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+ "description": "Duello is a tool to evaluate the two-body partition function between rigid bodies, performing a statistical mechanical average over inter-molecular orientations using subdivided icosahedrons. The osmotic second virial coefficient; binary dissociation constant; and the potential of mean force is calculated.",
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+ "creators": [
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+ {
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+ "name": "Mikael Lund",
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+ "affiliation": "Division of Theoretical Chemistry, Department of Chemistry, Lund University, Sweden",
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+ "orcid": "0000-0001-8178-8175"
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+ }
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+ ],
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+ "contributors": [
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+ {"type": "Researcher", "name": "Isabel Vinterbladh", "orcid": "0009-0007-0801-2611"}
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+ ],
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+ "keywords": [
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+ "statistical thermodynamics",
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+ "virial coefficient",
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+ "intermolecular interactions",
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+ "molecular simulation",
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+ "docking"
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+ ],
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+ "related_identifiers": [
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+ {
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+ "scheme": "url",
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+ "identifier": "https://github.com/mlund/duello",
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+ "relation": "isSupplementTo"
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+ }
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+ ],
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+ "access_right": "open",
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+ "upload_type": "software"
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+ }