Schema module documentation

| | Wed Aug 20 22:40:50 2008 —

Description

This module constitutes in effect the 'main' class of the nexml schema. It defines the complex type for the root <nex:nexml> element and a simple type for the schema "version" attribute of the root element. In addition, this module includes the main schema modules for OTUs, characters, trees and metadata. The data type definitions in these included schema modules are then used to define element instances in the child substructures of the <nex:nexml> root element.

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Complex types

Nexml

Description

The root element for nexml.

Inheritance

Nexml extends Annotated.

Attributes

Substructures

• an element called "otus", instance of Taxa (1..unbounded).
• a sequence of items (0..unbounded):
  • a choice between items:
    • an element called "characters", instance of AbstractBlock (0..unbounded).
    • an element called "trees", instance of Trees (0..unbounded).

Definition source

  <xs:complexType name="Nexml">
    <xs:complexContent>
      <xs:extension base="Annotated">
        <xs:sequence maxOccurs="unbounded" minOccurs="0">
          <xs:element maxOccurs="unbounded" minOccurs="1" name="otus" type="Taxa"/>
          <xs:sequence maxOccurs="unbounded" minOccurs="0">
            <xs:choice>
              <xs:element maxOccurs="unbounded" minOccurs="0" name="characters" type="AbstractBlock"/>
              <xs:element maxOccurs="unbounded" minOccurs="0" name="trees" type="Trees">
                <xs:key name="tree">
                  <xs:selector xpath="./tree"/>
                  <xs:field xpath="@id"/>
                </xs:key>
              </xs:element>
            </xs:choice>
          </xs:sequence>
        </xs:sequence>
        <xs:attribute name="version" type="Nexml1_0" use="required"/>
        <xs:attribute name="generator" type="xs:string" use="optional"/>
      </xs:extension>
    </xs:complexContent>
  </xs:complexType>

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Simple types

Nexml1_0

Description

This simple type is the fixed version value, which in this iteration must be constrained to 1.0 (and will be incremented in future versions).

Inheritance

Nexml1_0 restricts xs:decimal.

Facets

Definition source

  <xs:simpleType name="Nexml1_0">
    <xs:restriction base="xs:decimal">
      <xs:pattern value="1\.0"/>
    </xs:restriction>
  </xs:simpleType>

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See also

~/nexml/xsd/nexml.xsd includes the following other files:

• ~/nexml/xsd/taxa/taxa.xsd
• ~/nexml/xsd/characters/characters.xsd
• ~/nexml/xsd/trees/trees.xsd
• ~/nexml/xsd/meta/meta.xsd

Quick links:

Bindings:

Goings on:

External links

- CIPRES
- SourceForge project page
- EvoInfo wiki
- NESCent
- Mesquite