Skip to content

Commit

Permalink
[#28] Add agent mapping and example.
Browse files Browse the repository at this point in the history
  • Loading branch information
mernst committed Aug 5, 2024
1 parent e33e81a commit cd626c0
Show file tree
Hide file tree
Showing 2 changed files with 121 additions and 3 deletions.
120 changes: 119 additions & 1 deletion transformations/abcd2bioschemas/abcd2bioschemas-xml.xslt
View file
Original file line number Diff line number Diff line change
Expand Up @@ -34,6 +34,7 @@ exclude-result-prefixes="xsl md panxslt set">
<xsl:variable name="scope_geoecological" select="/abcd:DataSets/abcd:DataSet/abcd:Metadata/abcd:Scope/abcd:GeoecologicalTerms/*[self::abcd:GeoecologicalTerm or self::abcd:GeoEcologicalTerm]"></xsl:variable>

<xsl:variable name="recordbasis" select="/abcd:DataSets/abcd:DataSet/abcd:Units/abcd:Unit/abcd:RecordBasis"></xsl:variable>
<xsl:variable name="gathering_agents" select="/abcd:DataSets/abcd:DataSet/abcd:Units/abcd:Unit/abcd:Gathering/abcd:Agents/abcd:GatheringAgent"></xsl:variable>
<xsl:variable name="coordinates" select="/abcd:DataSets/abcd:DataSet/abcd:Units/abcd:Unit/abcd:Gathering/abcd:SiteCoordinateSets/abcd:SiteCoordinates/abcd:CoordinatesLatLong"></xsl:variable>
<xsl:variable name="country" select="/abcd:DataSets/abcd:DataSet/abcd:Units/abcd:Unit/abcd:Gathering/abcd:Country/abcd:Name"></xsl:variable>
<xsl:variable name="gathering_date" select="/abcd:DataSets/abcd:DataSet/abcd:Units/abcd:Unit/abcd:Gathering/abcd:DateTime"></xsl:variable>
Expand Down Expand Up @@ -411,8 +412,125 @@ exclude-result-prefixes="xsl md panxslt set">
<name><xsl:value-of select="$dataset_contributors"/></name>
</contributor>
</xsl:if>

<!-- After updating to XSLT 2.0, both the code below and the author mapping code can be moved to a separate function -->
<xsl:for-each select="$gathering_agents[not(.=preceding::*)]">
<xsl:choose>
<xsl:when test="./abcd:Person">
<contributor type="Person">
<!-- identifier -->
<xsl:if test="./abcd:URIs/*[self::abcd:URI or self::abcd:URL]">
<xsl:choose>
<xsl:when test="./abcd:URIs/*[self::abcd:URI or self::abcd:URL][@preferred='true']">
<xsl:attribute name="id"><xsl:value-of select="./abcd:URIs/*[self::abcd:URI or self::abcd:URL][@preferred='true'][1]"/></xsl:attribute>
</xsl:when>
<xsl:otherwise>
<xsl:attribute name="id"><xsl:value-of select="./abcd:URIs/*[self::abcd:URI or self::abcd:URL][1]"/></xsl:attribute>
</xsl:otherwise>
</xsl:choose>
<xsl:for-each select="./abcd:URIs/*[self::abcd:URI or self::abcd:URL][not(.=preceding::*)]">
<identifier><xsl:value-of select="."/></identifier>
</xsl:for-each>
</xsl:if>

<!-- name -->
<name><xsl:value-of select="./abcd:Person/abcd:FullName"/></name>
<xsl:if test="./abcd:Person/abcd:AtomisedName/abcd:InheritedName">
<familyName><xsl:value-of select="./abcd:Person/abcd:AtomisedName/abcd:InheritedName"/></familyName>
</xsl:if>
<xsl:if test="./abcd:Person/abcd:AtomisedName/abcd:GivenNames">
<givenName><xsl:value-of select="./abcd:Person/abcd:AtomisedName/abcd:GivenNames"/></givenName>
</xsl:if>

<!-- email -->
<xsl:choose>
<xsl:when test="./abcd:EmailAddresses/abcd:EmailAddress[@preferred='true']">
<email><xsl:value-of select="./abcd:EmailAddresses/abcd:EmailAddress[@preferred='true'][1]"/></email>
</xsl:when>
<xsl:otherwise>
<xsl:for-each select="./abcd:EmailAddresses/abcd:EmailAddress">
<emai1><xsl:value-of select="."/></emai1>
</xsl:for-each>
</xsl:otherwise>
</xsl:choose>

<!-- phone -->
<xsl:choose>
<xsl:when test="./abcd:TelephoneNumbers/abcd:TelephoneNumber[@preferred='true']">
<telephone><xsl:value-of select="./abcd:TelephoneNumbers/abcd:TelephoneNumber[@preferred='true'][1]/abcd:Number"/></telephone>
</xsl:when>
<xsl:otherwise>
<xsl:for-each select="./abcd:TelephoneNumbers/abcd:TelephoneNumber">
<telephone><xsl:value-of select="./abcd:Number"/></telephone>
</xsl:for-each>
</xsl:otherwise>
</xsl:choose>

<!-- affiliation: Organization -->
<xsl:if test="./abcd:Organisation">
<affiliation type="Organization">
<!-- name -->
<name><xsl:value-of select="./abcd:Organisation/abcd:Name/abcd:Representation/abcd:Text"/></name>
<xsl:if test="./abcd:Organisation/abcd:Name/abcd:Representation/abcd:Abbreviation">
<alternateName><xsl:value-of select="./abcd:Organisation/abcd:Name/abcd:Representation/abcd:Abbreviation"/></alternateName>
</xsl:if>
</affiliation>
</xsl:if>
</contributor>
</xsl:when>
<xsl:otherwise>
<!-- organisation as contributor -->
<contributor type="Organization">
<!-- identifier -->
<xsl:if test="./abcd:URIs/*[self::abcd:URI or self::abcd:URL]">
<xsl:choose>
<xsl:when test="./abcd:URIs/*[self::abcd:URI or self::abcd:URL][@preferred='true']">
<xsl:attribute name="id"><xsl:value-of select="./abcd:URIs/*[self::abcd:URI or self::abcd:URL][@preferred='true'][1]"/></xsl:attribute>
</xsl:when>
<xsl:otherwise>
<xsl:attribute name="id"><xsl:value-of select="./abcd:URIs/*[self::abcd:URI or self::abcd:URL][1]"/></xsl:attribute>
</xsl:otherwise>
</xsl:choose>
<xsl:for-each select="./abcd:URIs/*[self::abcd:URI or self::abcd:URL][not(.=preceding::*)]">
<identifier><xsl:value-of select="."/></identifier>
</xsl:for-each>
</xsl:if>

<!-- name -->
<name><xsl:value-of select="./abcd:Organisation/abcd:Name/abcd:Representation/abcd:Text"/></name>
<xsl:if test="./abcd:Organisation/abcd:Name/abcd:Representation/abcd:Abbreviation">
<alternateName><xsl:value-of select="./abcd:Organisation/abcd:Name/abcd:Representation/abcd:Abbreviation"/></alternateName>
</xsl:if>

<!-- email -->
<xsl:choose>
<xsl:when test="./abcd:EmailAddresses/abcd:EmailAddress[@preferred='true']">
<email><xsl:value-of select="./abcd:EmailAddresses/abcd:EmailAddress[@preferred='true'][1]"/></email>
</xsl:when>
<xsl:otherwise>
<xsl:for-each select="./abcd:EmailAddresses/abcd:EmailAddress">
<emai1><xsl:value-of select="."/></emai1>
</xsl:for-each>
</xsl:otherwise>
</xsl:choose>

<!-- phone -->
<xsl:choose>
<xsl:when test="./abcd:TelephoneNumbers/abcd:TelephoneNumber[@preferred='true']">
<telephone><xsl:value-of select="./abcd:TelephoneNumbers/abcd:TelephoneNumber[@preferred='true'][1]/abcd:Number"/></telephone>
</xsl:when>
<xsl:otherwise>
<xsl:for-each select="./abcd:TelephoneNumbers/abcd:TelephoneNumber">
<telephone><xsl:value-of select="./abcd:Number"/></telephone>
</xsl:for-each>
</xsl:otherwise>
</xsl:choose>
</contributor>
</xsl:otherwise>
</xsl:choose>
</xsl:for-each>

<!-- TODO:
- Gathering Agents as contributors?
- variableMeasured
-->
</jsonld>
Expand Down
4 changes: 2 additions & 2 deletions transformations/abcd2bioschemas/example_files/HoffmannPlantsV3.xml
View file
Original file line number Diff line number Diff line change
Expand Up @@ -157,7 +157,7 @@
<Agents>
<GatheringAgent>
<Person>
<FullName>Anke Hoffmann</FullName>
<FullName>Max Mustermann</FullName>
</Person>
</GatheringAgent>
</Agents>
Expand Down Expand Up @@ -215,7 +215,7 @@
<Agents>
<GatheringAgent>
<Person>
<FullName>Anke Hoffmann</FullName>
<FullName>Anna Förster</FullName>
</Person>
</GatheringAgent>
</Agents>
Expand Down

0 comments on commit cd626c0

Please sign in to comment.