44 Improve `WhittakerSmooth`, `AirPls`, and `ArPls` performance#120

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MothNik wants to merge 120 commits into

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44-improve-airpls-and-arpls-performance-sparse-matrix-operations

Commits on Dec 17, 2023

wip: [44] test push: untracked VSCode settings; added requirements and dev-requirements
IruNikZe
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Commits on Dec 23, 2023

wip: [44] attempt to remove `settings.json` from project
IruNikZe
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feat: [44] added `settings.json`-template for also including `ruff` (linting)
IruNikZe
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wip: [44] git-ignored `.vscode`-folder again to decouple user settings from repo
IruNikZe
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fix: [44] fixed wrong type hint; isort; black formatting; trim trailing whitespaces
IruNikZe
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feat: [44] added ruff linting checks; added requirements for development
IruNikZe
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feat: [44] added finite difference computation for Whittaker smoothers
IruNikZe
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feat: [44] added more banded linear algebra functions with `scipy`s LAPACK wrappers for Whittaker smoothers
IruNikZe
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feat: [44] added centralized Whittaker smoother class
IruNikZe
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feat: [44] unified whittaker-smoother-like methods with performance enhancement; extended tests; fixed type hints; black formatted; started lint fixes
IruNikZe
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style: [44] made docstrings of whittaker smoothers black-compatible; added references
IruNikZe
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Merge branch 'main' into 44-improve-airpls-and-arpls-performance-sparse-matrix-operations
IruNikZe
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Commits on Dec 25, 2023

wip: [44] figured out pentapy problems and saved working status for figuring out 100% fix
IruNikZe
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Commits on Dec 27, 2023

Commits on Apr 18, 2024

test push
MothNik
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Commits on Apr 21, 2024

refactor: implemented fast computation of both squared forward finite differences matrix version that does not rely on `scipy.sparse` anymore to avoid overhead and redundant computations
MothNik
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Commits on Apr 22, 2024

Commits on May 10, 2024

Commits on May 11, 2024

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Commits on May 19, 2024

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Commits on May 21, 2024

Commits on May 23, 2024

refactor: renamed `window_size` to `window_length`
MothNik
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Commits on Jun 24, 2024