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Changes for v5 austraits.build #78

Merged
merged 30 commits into from
Nov 21, 2023
Merged

Changes for v5 austraits.build #78

merged 30 commits into from
Nov 21, 2023

Commits on Oct 12, 2023

  1. changes required for v5 austraits.build 

    changes to austraits functions that will be required once v5 is released
    @ehwenk
    ehwenk committed Oct 12, 2023
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Commits on Oct 13, 2023

  1. Removed original_name for trait_pivot_wider3 for v5.0.0

    @fontikar
    fontikar committed Oct 13, 2023
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  2. Added trait_pivot_wider for v4.x.x and code for what_version

    @fontikar
    fontikar committed Oct 13, 2023
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  3. Making new switches for join and as_wide_table based on new versioning

    @fontikar
    fontikar committed Oct 13, 2023
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  4. Sub switch for extract_ and recreated internal data

    @fontikar
    fontikar committed Oct 13, 2023
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  5. Sub switch for extract_ and recreated internal data

    @fontikar
    fontikar committed Oct 13, 2023
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  6. Sub switches for trait_pivot_longer

    @fontikar
    fontikar committed Oct 13, 2023
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  7. Minor fix in join_methods

    @fontikar
    fontikar committed Oct 13, 2023
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  8. All tests passing

    @fontikar
    fontikar committed Oct 13, 2023
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  9. All tests passing

    @fontikar
    fontikar committed Oct 13, 2023
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  10. Getting rid of notes

    @fontikar
    fontikar committed Oct 13, 2023
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  11. Added vars a global vars

    @fontikar
    fontikar committed Oct 13, 2023
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  12. Removed .data for GHA to pass

    @fontikar
    fontikar committed Oct 13, 2023
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  13. Removed .data calls when not needed

    @fontikar
    fontikar committed Oct 13, 2023
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  14. Added .data in as_wide_table only in select calls

    @fontikar
    fontikar committed Oct 13, 2023
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Commits on Oct 16, 2023

  1. Added some .data$ to as_wide_table

    @fontikar
    fontikar committed Oct 16, 2023
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  2. Rm .data from select and added quotes

    @fontikar
    fontikar committed Oct 16, 2023
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  3. Rm .data from select and added quotes

    @fontikar
    fontikar committed Oct 16, 2023
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  4. Rm .data from select and added quotes for summarise trait vals

    @fontikar
    fontikar committed Oct 16, 2023
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  5. Rm .data from select and added quotes

    @fontikar
    fontikar committed Oct 16, 2023
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  6. Rm .data from select and added quotes

    @fontikar
    fontikar committed Oct 16, 2023
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  7. Update to work with latest zenodo API (#81) 

    - As documented in #79 , the Zenodo API has changed, breaking our download feature. 
- This commit updates the internals to work with the latest changes. 

Specifically: 

- the way to access json for all versions has changed (changed url structure, and for id we now use one of the record ids, rather than the conceptid)
- the call to download file has changed
- format of the API json has changed

Also

- added record id to the table of versions
- put a check in to remove "v" from any version entered by user
    @dfalster
    dfalster committed Oct 16, 2023
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Commits on Oct 19, 2023

  1. Merge branch 'develop' into changes-for-v5-austraits.build

    @fontikar
    fontikar committed Oct 19, 2023
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  2. Recreated data so extract is passing

    @fontikar
    fontikar committed Oct 19, 2023
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Commits on Oct 27, 2023

  1. Update treatment_id with treatment_context_id

    @yangsophieee
    yangsophieee committed Oct 27, 2023
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  2. Revert "Update treatment_id with treatment_context_id" 

    This reverts commit 3fc6717.
    @yangsophieee
    yangsophieee committed Oct 27, 2023
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Commits on Nov 9, 2023

  1. minor column name changes 

    Changes column names, reflecting recent changes to traits.build output.

One thing I haven't yet changed, under taxa, the only "required" columns going forward as `taxon_name`, `taxon_rank` and `aligned_name`, so maybe use an `any_of`? AusTraits will have all columns indicated, but other traits.build databases won't.
    @ehwenk
    ehwenk committed Nov 9, 2023
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  2. Update as_wide_table.R 

    add `any_of` to column selection within `as_wide_table` to accommodate other traits.build databases that don't have the same columns in taxon_list.csv
    @ehwenk
    ehwenk committed Nov 9, 2023
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Commits on Nov 10, 2023

  1. Fixed getting versions and load austraits with zenodo updates and min… 

    …or update with as_wide_table with removal of variable
    @fontikar
    fontikar committed Nov 10, 2023
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Commits on Nov 20, 2023

  1. Fixed minor bug in get_version_latest

    @fontikar
    fontikar committed Nov 20, 2023
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