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📝🎨⬆️🔥 update build files and respective docs #234

Merged
merged 15 commits into from
Feb 10, 2022
Merged

📝🎨⬆️🔥 update build files and respective docs #234

merged 15 commits into from
Feb 10, 2022

Commits on Feb 9, 2022

  1. 📝🎨⬆️🔥 update build files and respective docs 

    🔥 remove requirements.txt
🔥 Remove bioconda recipe meta.yaml
📝 Update docs for nextflow-env.yml
⬆️ Rename environment.yml to nextflow-env.yml
⬆️ Add autometa-env.yml (conda env) to replace requirements.txt (pip requirements file)
🎨 Change Makefile create_environment command to use autometa-env.yml
📝 Change installation directions to correspond to autometa-env.yml rather than requirements.txt
    @evanroyrees
    evanroyrees committed Feb 9, 2022
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  2. 🐛🎨💚🐳 Fix installation method for autometa-env.yml

    @evanroyrees
    evanroyrees committed Feb 9, 2022
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Commits on Feb 10, 2022

  1. 🎨💚 Use only one runner for unit testing and coverage report 

    🔥 Reduced build matrix to one os and one python version
📝💚 Added names for downloading test data and running pytest
🐛💚 update conda env explicitly to base (without specifying -n base an 'autometa' env is created
    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  2. 🔥🐛🎨 Remove incorrectly added names 

    🎨💚 Add tests/environment.yml for pytest/codecov github action
    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  3. 🐛 fix env being updated

    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  4. 🐛🔥 Remove conda env update target env

    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  5. 🎨🍏 Re-add names

    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  6. 🐛🔥 Remove name where uses was not specified

    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  7. 🐛 Add indentation from syntax error

    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  8. 🐛🎨 Reformat run commands

    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  9. 🐛 incorrect path to tests/environment.yml

    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  10. 🐛 Add target env: -n base

    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  11. ⬆️💚 Change trimap install from pip to bioconda

    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  12. 🐛💚 activate base env b/c installed pkgs are not currently available 

    📝 Add full command for building docker image in installation docs
    @evanroyrees
    evanroyrees committed Feb 10, 2022
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  13. 🐛 Attempt to fix env update with environ variable -n bioconda-recipes

    @evanroyrees
    evanroyrees committed Feb 10, 2022
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