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Update the docs #236

Merged
merged 47 commits into from
Oct 11, 2024
Merged

Update the docs #236

merged 47 commits into from
Oct 11, 2024

Commits on Aug 27, 2024

  1. Update docstrings

    @robomics
    robomics committed Aug 27, 2024
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  2. Update the README

    @robomics
    robomics committed Aug 27, 2024
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  3. Update CLI reference

    @robomics
    robomics committed Aug 27, 2024
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  4. Update requirements.txt for the docs

    @robomics
    robomics committed Aug 27, 2024
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  5. Update test dataset download instructions

    @robomics
    robomics committed Aug 27, 2024
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  6. Fix typo

    @robomics
    robomics committed Aug 27, 2024
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  7. Add docs for hictk metadata

    @robomics
    robomics committed Aug 27, 2024
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Commits on Sep 19, 2024

  1. Update CLI reference [no ci]

    @robomics
    robomics committed Sep 19, 2024
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Commits on Sep 24, 2024

  1. Add missing SPDX header [no ci]

    @robomics
    robomics committed Sep 24, 2024
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Commits on Sep 26, 2024

  1. Merge branch 'main' into docs/update

    @robomics
    robomics committed Sep 26, 2024
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  2. Update docs for C++ API

    @robomics
    robomics committed Sep 26, 2024
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Commits on Sep 27, 2024

  1. Update docs and tutorials for hictk 

    [no ci]
    @robomics
    robomics committed Sep 27, 2024
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  2. hictk load: document supported compression algorithms 

    [no ci]
    @robomics
    robomics committed Sep 27, 2024
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Commits on Sep 28, 2024

  1. Update docs for To*Matrix transformers 

    [no ci]
    @robomics
    robomics committed Sep 28, 2024
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Commits on Sep 30, 2024

  1. Merge branch 'main' into docs/update

    @robomics
    robomics committed Sep 30, 2024
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  2. Update CITATION.cff and add workflow to lint CITATION.cff

    @robomics
    robomics committed Sep 30, 2024
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  3. Add pre-commit hook to lint the docs

    @robomics
    robomics committed Sep 30, 2024
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  4. Update CLI reference

    @robomics
    robomics committed Sep 30, 2024
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  5. Revert "Add pre-commit hook to lint the docs" 

    This reverts commit dd27ca7.
    @robomics
    robomics committed Sep 30, 2024
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  6. Merge branch 'main' into docs/update

    @robomics
    robomics committed Sep 30, 2024
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  7. [no ci]

    @robomics
    robomics committed Sep 30, 2024
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  8. [no ci]

    @robomics
    robomics committed Sep 30, 2024
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  9. Fix PDF docs

    @robomics
    robomics committed Sep 30, 2024
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  10. Rewrite generate_cli_reference script in python

    @robomics
    robomics committed Sep 30, 2024
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  11. Fix incorrect display of std::uint8_t default values in the CLI help … 

    …message
    @robomics
    robomics committed Sep 30, 2024
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  12. Remove unnecessary extension from docs/conf.py

    @robomics
    robomics committed Sep 30, 2024
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  13. Switch to using build.commands in .readthedocs.yaml in preparation fo… 

    …r RTD Addons

https://about.readthedocs.com/blog/2024/07/addons-by-default/
    @robomics
    robomics committed Sep 30, 2024
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  14. [no ci]

    @robomics
    robomics committed Sep 30, 2024
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  15. Bugfix [no ci]

    @robomics
    robomics committed Sep 30, 2024
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  16. Check for broken links when building the docs

    @robomics
    robomics committed Sep 30, 2024
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  17. Fix broken link [no ci]

    @robomics
    robomics committed Sep 30, 2024
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  18. Fix PDF docs [no ci]

    @robomics
    robomics committed Sep 30, 2024
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  19. Update doc URLS

    @robomics
    robomics committed Sep 30, 2024
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  20. Add script to automate updating doc links in index.rst 

    [no ci]
    @robomics
    robomics committed Sep 30, 2024
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  21. Bugfix [no ci]

    @robomics
    robomics committed Sep 30, 2024
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  22. Improve formatting [no ci]

    @robomics
    robomics committed Sep 30, 2024
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  23. Run linkcheck after patching index.rst [no ci]

    @robomics
    robomics committed Sep 30, 2024
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Commits on Oct 1, 2024

  1. Update links to the doc in the readme [no ci]

    @robomics
    robomics committed Oct 1, 2024
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Commits on Oct 9, 2024

  1. Merge branch 'main' into docs/update

    @robomics
    robomics committed Oct 9, 2024
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  2. Update CLI reference [no ci]

    @robomics
    robomics committed Oct 9, 2024
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Commits on Oct 10, 2024

  1. Merge branch 'main' into docs/update

    @robomics
    robomics committed Oct 10, 2024
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  2. Fix permissions

    @robomics
    robomics committed Oct 10, 2024
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  3. Update API docs [no ci]

    @robomics
    robomics committed Oct 10, 2024
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  4. Bugfix [no ci]

    @robomics
    robomics committed Oct 10, 2024
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  5. Fix hictk * --help messages [no ci]

    @robomics
    robomics committed Oct 10, 2024
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  6. Merge branch 'main' into docs/update

    @robomics
    robomics committed Oct 10, 2024
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  7. Address clang-tidy warnings

    @robomics
    robomics committed Oct 10, 2024
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