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Populate new trees created in Specify 7 with default data #4976

Open
Tracked by #4833
grantfitzsimmons opened this issue Jun 3, 2024 · 2 comments · Fixed by #5032
Open
Tracked by #4833

Populate new trees created in Specify 7 with default data #4976

grantfitzsimmons opened this issue Jun 3, 2024 · 2 comments · Fixed by #5032
Labels
1 - Enhancement Improvements or extensions to existing behavior 2 - Trees Issues that are related to the tree system and related functionalities.
Milestone
7.9.12

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@grantfitzsimmons
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grantfitzsimmons commented Jun 3, 2024 •
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TBD in more depth

Component of #4833

We must be able to use a set of defaults for the ranks and configuration of a new tree.
Our default trees are available in xlsx files on our site:
https://files.specifysoftware.org/taxonfiles/

These should be used as a basis if desired when adding a new tree

<vector>
    <file discipline="fish"         title="Ichthyology" coverage="" file="col2008_fishes.xls" src="Catalog of Life 2008" size="11228672">
        <description>FishBase: 533 families; 4883 genera; 8759 species.</description>
    </file>
    <file discipline="herpetology"  title="Herpetology" coverage="" file="col2008_herps.xls" src="Catalog of Life 2008" size="6911488">
        <description>Amphibs: 48 families; 449 genera; 5752 species.  Reptiles: 62 families; 1072 genera; 8759 species.</description>
    </file>
    <file discipline="bird"         title="Ornithology" coverage="" file="col2008_aves.xls" src="Catalog of Life 2008" size="7839232">
        <description>178 families; 2123 genera; 9913 species.</description>
    </file>
    <file discipline="mammal"       title="Mammalogy"   coverage="" file="col2008_mammalia.xls" src="Catalog of Life 2008" size="2727424">
        <description>146 families; 1151 genera; 4832 species.</description>
    </file>
    <file discipline="insect"       title="Entomology"  coverage="" file="col2008_orthoptera.xls" src="Catalog of Life 2008" size="9502720">
        <description>Order Orthoptera only: 40 families; 4320 genera; 23042 species.</description>
    </file>
    <file discipline="botany"       title="Botany"      coverage="" file="col2008_poales.xls" src="Catalog of Life 2008" size="4817408">
        <description>Order Poales only: 16 families; 558 genera; 13246 species.</description>
    </file>
    <file discipline="invertebrate" title="Invertebrate Zoology" coverage="" file="col2008_inverts.xls" src="Catalog of Life 2008" size="8188416">
        <description>Phyla Mollusca, Cnidaria and Echinodermata only: 826 families; 4092 genera; 22584 species.</description>
    </file>
</vector>
@grantfitzsimmons grantfitzsimmons added 1 - Request A request made by a member of the community 2 - Trees Issues that are related to the tree system and related functionalities. labels Jun 3, 2024
@grantfitzsimmons grantfitzsimmons mentioned this issue Jun 3, 2024
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@CarolineDenis CarolineDenis added this to the 7.9.7 milestone Jun 17, 2024
@grantfitzsimmons
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Our default trees are available in xlsx files on our site:
https://files.specifysoftware.org/taxonfiles/

These should be used as a basis if desired when adding a new tree

@grantfitzsimmons
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<vector>
    <file discipline="fish"         title="Ichthyology" coverage="" file="col2008_fishes.xls" src="Catalog of Life 2008" size="11228672">
        <description>FishBase: 533 families; 4883 genera; 8759 species.</description>
    </file>
    <file discipline="herpetology"  title="Herpetology" coverage="" file="col2008_herps.xls" src="Catalog of Life 2008" size="6911488">
        <description>Amphibs: 48 families; 449 genera; 5752 species.  Reptiles: 62 families; 1072 genera; 8759 species.</description>
    </file>
    <file discipline="bird"         title="Ornithology" coverage="" file="col2008_aves.xls" src="Catalog of Life 2008" size="7839232">
        <description>178 families; 2123 genera; 9913 species.</description>
    </file>
    <file discipline="mammal"       title="Mammalogy"   coverage="" file="col2008_mammalia.xls" src="Catalog of Life 2008" size="2727424">
        <description>146 families; 1151 genera; 4832 species.</description>
    </file>
    <file discipline="insect"       title="Entomology"  coverage="" file="col2008_orthoptera.xls" src="Catalog of Life 2008" size="9502720">
        <description>Order Orthoptera only: 40 families; 4320 genera; 23042 species.</description>
    </file>
    <file discipline="botany"       title="Botany"      coverage="" file="col2008_poales.xls" src="Catalog of Life 2008" size="4817408">
        <description>Order Poales only: 16 families; 558 genera; 13246 species.</description>
    </file>
    <file discipline="invertebrate" title="Invertebrate Zoology" coverage="" file="col2008_inverts.xls" src="Catalog of Life 2008" size="8188416">
        <description>Phyla Mollusca, Cnidaria and Echinodermata only: 826 families; 4092 genera; 22584 species.</description>
    </file>
</vector>

@acwhite211 acwhite211 mentioned this issue Jul 3, 2024
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@grantfitzsimmons grantfitzsimmons mentioned this issue Dec 18, 2024
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@grantfitzsimmons grantfitzsimmons modified the milestones: 7.9.7, 7.9.12 Dec 18, 2024
@grantfitzsimmons grantfitzsimmons changed the title Add defaults for new trees created in Specify 7 Populate new trees created in Specify 7 with default taxonomy Dec 18, 2024
@grantfitzsimmons grantfitzsimmons changed the title Populate new trees created in Specify 7 with default taxonomy Populate new trees created in Specify 7 with default data Dec 18, 2024
@grantfitzsimmons grantfitzsimmons added 1 - Enhancement Improvements or extensions to existing behavior and removed 1 - Request A request made by a member of the community labels Dec 20, 2024
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1 - Enhancement Improvements or extensions to existing behavior 2 - Trees Issues that are related to the tree system and related functionalities.
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initial schema creation for geospecify specify/specify7
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