Upgrades to austraits for v.5.0.0 #85
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fontikar
commented
Nov 21, 2023
fontikar
commented
- Bumped version number
- Updated NEWS
- Minor import fix in get_version_latest
…king for new version, waiting for austraits.build update
…rough the internal data subsets for version 3.0.2 and version 4.0.0. Pivot_ needs austraits.build fixes to implenment. Some minor fix to pivot_wider for dependencies #60
Some packages needed to make plots are included in suggests. This means that core functions of package may not work.
- reuse outputs from previous function calls to reduce runtime - reduce dataset sizes for slow functions (summarise_trait_means, trait_pivot_wider, plot_locations) - silence some outputs closes #62
- 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
* changes required for v5 austraits.build * Removed original_name for trait_pivot_wider3 for v5.0.0 * Added trait_pivot_wider for v4.x.x and code for what_version * Making new switches for join and as_wide_table based on new versioning * Sub switch for extract_ and recreated internal data * Sub switches for trait_pivot_longer * Minor fix in join_methods * Added vars a global vars * Removed .data calls when not needed * 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 * Recreated data so extract is passing * Update `treatment_id` with `treatment_context_id` * Revert "Update `treatment_id` with `treatment_context_id`" This reverts commit 3fc6717. * minor column name changes Changes column names, reflecting recent changes to traits.build output. * 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 * Fixed getting versions and load austraits with zenodo updates and minor update with as_wide_table with removal of variable * Fixed minor bug in get_version_latest --------- Co-authored-by: Elizabeth Wenk <ehwenk@gmail.com> Co-authored-by: Daniel Falster <daniel.falster@unsw.edu.au> Co-authored-by: yangsophieee <sophie.yang917@gmail.com>
fontikar
requested review from
dfalster and
ehwenk
and removed request for
dfalster
Codecov ReportAttention:
Additional details and impacted files@@ Coverage Diff @@
## master #85 +/- ##
==========================================
+ Coverage 77.37% 81.26% +3.88%
==========================================
Files 20 19 -1
Lines 800 902 +102
==========================================
+ Hits 619 733 +114
+ Misses 181 169 -12 ☔ View full report in Codecov by Sentry. |
ehwenk
reviewed
Nov 21, 2023
ehwenk
reviewed
Nov 21, 2023
ehwenk
reviewed
Nov 21, 2023
ehwenk
reviewed
Nov 21, 2023
ehwenk
reviewed
Nov 21, 2023
ehwenk
approved these changes
Nov 21, 2023
* Created lites for all main versions of AusTraits * Passing for as_wide_table * Passing for as_wide_table and for extract_ * expanding test suite to all 3 majors, switches for method id adjusted * expanding test suite to all 3 majors for summarise_D * Expanding these for all 3 versions * Added PR trigger for dev branch
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