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Feat (setup tool): Create default files for the new setup tool - #7444

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CarolineDenis merged 89 commits into
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issue-7438
Oct 2, 2025
Merged

Feat (setup tool): Create default files for the new setup tool#7444
CarolineDenis merged 89 commits into
mainfrom
issue-7438

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@CarolineDenis

@CarolineDenis CarolineDenis commented Sep 23, 2025

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Fixes #7438

Checklist

  • Self-review the PR after opening it to make sure the changes look good and
    self-explanatory (or properly documented)
  • Add relevant issue to release milestone

Testing instructions

@CarolineDenis CarolineDenis added this to the 7.12.0 milestone Sep 23, 2025
@github-project-automation github-project-automation Bot moved this to 📋Back Log in General Tester Board Sep 23, 2025
@CarolineDenis CarolineDenis changed the title Issue 7438 Feat (setup tool): Create default files for the new setup tool Sep 23, 2025
CarolineDenis
CarolineDenis commented Sep 24, 2025
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Comment thread config/common/picklists.json Outdated
CarolineDenis
CarolineDenis commented Sep 24, 2025
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Comment thread config/common/storage_tree.json Outdated
CarolineDenis
CarolineDenis commented Sep 24, 2025
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Comment thread config/common/geography_tree.json Outdated
CarolineDenis
CarolineDenis commented Sep 24, 2025
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Comment thread config/common/global_picklists.json Outdated
CarolineDenis
CarolineDenis commented Sep 24, 2025
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Comment thread config/common/global_picklists.json Outdated
CarolineDenis
CarolineDenis commented Sep 24, 2025
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Comment thread config/common/global_picklists.json Outdated
CarolineDenis
CarolineDenis commented Sep 24, 2025
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Comment thread config/common/global_picklists.json
CarolineDenis
CarolineDenis commented Sep 24, 2025
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Comment thread config/common/global_picklists.json Outdated
CarolineDenis
CarolineDenis commented Sep 24, 2025
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Comment thread config/bird/taxon_bird_tree.json Outdated
CarolineDenis
CarolineDenis commented Sep 24, 2025
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Comment thread config/botany/taxon_botany_tree.json Outdated
@CarolineDenis
feat(taxon_fish_tree): add default taxon tree JSON file for fish disc…
9f2690b 
… in config/fish
@CarolineDenis
feat(taxon_herpetology_tree): add default taxon tree JSON file for he…
8e58f49 
…rpetology disc in config/herpetology
@CarolineDenis
feat(taxon_insect_tree): add default taxon tree JSON file for insect …
1e7a87c 
…disc in config/insect
@CarolineDenis
feat(taxon_invertebrate_tree): add default taxon tree JSON file for i…
df3e532 
…nvertebrate disc in config/invertebrate
@CarolineDenis
feat(taxon_inverpaleo_tree): add default taxon tree JSON file for inv…
b78a7c7 
…erpaleo disc in config/inverpaleo
@CarolineDenis
feat(taxon_mammal_tree): add default taxon tree JSON file for mammal …
bb2316a 
…disc in config/mammal
@CarolineDenis
feat(taxon_reptile_tree): add default taxon tree JSON file for reptil…
38ddc93 
…e disc in config/reptile
@CarolineDenis
feat(taxon_vascplant_tree): add default taxon tree JSON file for vasc…
0939d27 
…plant disc in config/vascplant
CarolineDenis
CarolineDenis commented Sep 24, 2025
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Comment thread config/vascplant/taxon_vascplant_tree.json Outdated
@grantfitzsimmons
feat(invertpaleo): integrate suggestions
db78d53
@grantfitzsimmons
feat(invertebrate): integrate suggestions
8da551f
@grantfitzsimmons
feat(dwc): use GBIF LifeStage vocabulary
e9df92a 
See https://registry.gbif.org/vocabulary/LifeStage/concepts
@grantfitzsimmons
feat(picklists): make all picklists proper case
b59d676
@grantfitzsimmons
feat(dwc): remove name usages
a113f8d
@grantfitzsimmons
feat(insect): add new collecting methods
fee44e1
@grantfitzsimmons
feat(dwc): add reasonable defaults to method
c021c39
@grantfitzsimmons
feat(dwc): standardize picklists
1141278 
Adds items to Bird collecting method based on GBIF samplingMethod
@grantfitzsimmons
feat(mammal): extend age picklist
aeb2d43
@grantfitzsimmons
feat(dwc): standardize typestatus
62b8a0e
@grantfitzsimmons
feat(schema): add AgentIdentifierType to defaults
3d1d9bb
@grantfitzsimmons
feat(forms): add conditional logic to agentidentifier
be2f21a
@grantfitzsimmons
fix: descriptions
a77a95e
@grantfitzsimmons
feat(datamodel): create SystemCOGTypes automatically
56e1018 
Replaces the need to create them in the `default_cots.py` logic
@grantfitzsimmons
feat(datamodel): create AgeType automatically
9d1e4b2 
Replaces the need to create in `0004_stratigraphy_age`
@grantfitzsimmons
feat(picklists): standardize prep types
249c17a
@grantfitzsimmons
feat(schema): hide invisible fields
b4dc875
CarolineDenis
CarolineDenis commented Oct 2, 2025
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Comment thread config/common/picklists.json Outdated
CarolineDenis
CarolineDenis commented Oct 2, 2025
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Comment thread config/common/picklists.json Outdated
CarolineDenis
CarolineDenis commented Oct 2, 2025
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Comment thread config/common/prep_types.json Outdated
@CarolineDenis
CarolineDenis merged commit 9b14f6f into main Oct 2, 2025
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@CarolineDenis
CarolineDenis deleted the issue-7438 branch October 2, 2025 14:26
@github-project-automation github-project-automation Bot moved this from 📋Back Log to ✅Done in General Tester Board Oct 2, 2025
@alesan99 alesan99 mentioned this pull request Oct 2, 2025
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@alesan99 alesan99 mentioned this pull request Jan 6, 2026
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Status: ✅Done

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[Guided Setup] - Create default files needed for new disciplines and collections

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@CarolineDenis @grantfitzsimmons