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Update species probes #177

Merged
merged 29 commits into from
Sep 27, 2023
Merged

Update species probes #177

merged 29 commits into from
Sep 27, 2023

Commits on Jul 7, 2023

  1. Add option --ncbi_names; handle new tb probes/hierarchy

    @martinghunt
    martinghunt committed Jul 7, 2023
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Commits on Jul 18, 2023

  1. Remove hard-coded panel fix (crashes mykrobe predict)

    @martinghunt
    martinghunt committed Jul 18, 2023
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Commits on Sep 22, 2023

  1. Merge branch 'master' into update_species_probes

    @martinghunt
    martinghunt committed Sep 22, 2023
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Commits on Sep 25, 2023

  1. Add option --dump_species_covgs

    @martinghunt
    martinghunt committed Sep 25, 2023
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  2. Remove commented out code

    @martinghunt
    martinghunt committed Sep 25, 2023
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  3. Run black

    @martinghunt
    martinghunt committed Sep 25, 2023
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  4. Update changelog

    @martinghunt
    martinghunt committed Sep 25, 2023
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  5. Try numpy from pip install on windows

    @martinghunt
    martinghunt committed Sep 25, 2023
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  6. Uninstall numpy to force install again

    @martinghunt
    martinghunt committed Sep 25, 2023
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  7. Uninstall numpy to force install again

    @martinghunt
    martinghunt committed Sep 25, 2023
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  8. Try pip install numpy --upgrade

    @martinghunt
    martinghunt committed Sep 25, 2023
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  9. Revert to pacman install numpy; echo PATH to see wassup

    @martinghunt
    martinghunt committed Sep 25, 2023
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  10. Fix typo in echo

    @martinghunt
    martinghunt committed Sep 25, 2023
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  11. windows build debugging

    @martinghunt
    martinghunt committed Sep 25, 2023
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Commits on Sep 26, 2023

  1. Remove numpy dependency

    @martinghunt
    martinghunt committed Sep 26, 2023
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Commits on Sep 27, 2023

  1. Revert "Remove numpy dependency" 

    This reverts commit 72e0b74.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  2. Pin windows numpy to 1.25.0

    @martinghunt
    martinghunt committed Sep 27, 2023
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  3. Revert "Pin windows numpy to 1.25.0" 

    This reverts commit 8ecab6f.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  4. Revert "Revert "Pin windows numpy to 1.25.0"" 

    This reverts commit 00c3a22.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  5. Revert "Pin windows numpy to 1.25.0" 

    This reverts commit 8ecab6f.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  6. Revert "Revert "Remove numpy dependency"" 

    This reverts commit 701d599.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  7. Revert "Remove numpy dependency" 

    This reverts commit 72e0b74.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  8. Revert "windows build debugging" 

    This reverts commit 676a656.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  9. Revert "Fix typo in echo" 

    This reverts commit 8783c75.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  10. Revert "Revert to pacman install numpy; echo PATH to see wassup" 

    This reverts commit 3cc4f9b.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  11. Revert "Try pip install numpy --upgrade" 

    This reverts commit db54fc4.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  12. Revert "Uninstall numpy to force install again" 

    This reverts commit fe0572b.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  13. Revert "Uninstall numpy to force install again" 

    This reverts commit 587290f.
    @martinghunt
    martinghunt committed Sep 27, 2023
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  14. Revert "Try numpy from pip install on windows" 

    This reverts commit 583dd46.
    @martinghunt
    martinghunt committed Sep 27, 2023
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