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task #7976

closed

[PESI][ERMS] Erms taxon import

Added by Andreas Müller over 5 years ago. Updated over 4 years ago.

Status:
Closed
Priority:
Highest
Category:
cdmadapter
Target version:
Start date:
Due date:
% Done:

100%

Estimated time:
Severity:
normal
Tags:

Description

Subticket for #1444:

The taxon import in ERMS is the most complex one therefore we open a new ticket for it.

Kingdoms:

1: - (Super)domain
2: Animalia
3: Plantae
4: Fungi
5: Protozoa
6: Bacteria
7: Chromista ??

8-14 are not relevant in ERMS (yet) - they do not appear in any tu.tu_sp tree as root

The Taxon table tu:

id: the id
tsn: ? (currently exported as extension)
tu_name: the epithet or uninomial
tu_displayname: full name without author (html?)
tu_authority: author and year (without et. al.?)
tu_parent: links to the parent, BUT for synonyms the parent is considered the name giving parent, e.g. for a species it is usually the genus given in the name and not the parent of the accepted name, for subgenus it is usually the genus; however, it is NOT always the case that the parent is name giving, there are also parent with no obvious relationship and therefore it is not clear what the parent relationship really means; tu_parent is always the last id in tu.tu_sp and therefore it is essential for creating the tree
tu_sp: the higher classification as tree index, BUT it is not the correct taxonomic classification as synonyms link to their nomenclatural parent and not to their accepted taxon

Most important issue:

  • Decide on taxon relationships (parent-child, synonym-relationships
    • tu_parent is primarily nomenclatural and should only be used where a taxon is considered to be THE accepted taxon

Related issues

Precedes EDIT - task #8792: Issues to have in mind for ERMS importNewAndreas Müller

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