Uses of Class
uk.ac.ebi.intenz.domain.enzyme.EnzymeLink

Packages that use EnzymeLink

uk.ac.ebi.intenz.domain.enzyme	The core enzyme information is held in these classes.
uk.ac.ebi.intenz.mapper	O/R mapping layer classes.
uk.ac.ebi.intenz.tools.importer

Uses of EnzymeLink in uk.ac.ebi.intenz.domain.enzyme

Fields in uk.ac.ebi.intenz.domain.enzyme declared as EnzymeLink

static EnzymeLink	EnzymeLink.BRENDA Static link to the BRENDA database.
static EnzymeLink	EnzymeLink.CSA Static link to the CSA database.
static EnzymeLink	EnzymeLink.ERGO Static link to the ERGO database.
static EnzymeLink	EnzymeLink.EXPASY Static link to the ENZYME database at expasy.org.
static EnzymeLink	EnzymeLink.GO Static link to the Gene Ontology database.
static EnzymeLink	EnzymeLink.KEGG Static link to the KEGG database.
static EnzymeLink	EnzymeLink.METACYC Link to MetaCyc.
static EnzymeLink	EnzymeLink.NC_IUBMB Static link to the GM pages (NC-IUBMB).
static EnzymeLink	EnzymeLink.NIST74 Static link to the NIST 74 database.
static EnzymeLink	EnzymeLink.PDB Static link to the PDB database.
static EnzymeLink	EnzymeLink.UMBBD Static link to the UM-BBD database.
static EnzymeLink	EnzymeLink.WIT Static link to the ERGO (formerly WIT) database.

Methods in uk.ac.ebi.intenz.domain.enzyme that return EnzymeLink

static EnzymeLink	EnzymeLink.getStaticLink(XrefDatabaseConstant databaseConstant)
static EnzymeLink	EnzymeLink.valueOf(XrefDatabaseConstant xrefDatabaseConstant, String specificUrl, String accession, String name, EnzymeSourceConstant source, EnzymeViewConstant view) Returns an EnzymeLink instance.
static EnzymeLink	EnzymeLink.valueOf(XrefDatabaseConstant xrefDatabaseConstant, String specificUrl, String accession, String name, EnzymeSourceConstant source, EnzymeViewConstant view, String dataComment) Returns a commented EnzymeLink instance.

Methods in uk.ac.ebi.intenz.domain.enzyme that return types with arguments of type EnzymeLink

SortedSet<EnzymeLink>	EnzymeEntry.getCasNumbers() CAS numbers for IntEnz and IUBMB views.
SortedSet<EnzymeLink>	EnzymeEntry.getLinks()
SortedSet<EnzymeLink>	EnzymeEntry.getLinks(EnzymeViewConstant view) Deprecated. use EnzymeEntry.getLinks(String) instead
SortedSet<EnzymeLink>	EnzymeEntry.getLinks(String view)
SortedSet<EnzymeLink>	EnzymeEntry.getLinks(View theView) Return the links to entries in external databases.
SortedSet<EnzymeLink>	EnzymeEntry.getUniProtLinks()

Methods in uk.ac.ebi.intenz.domain.enzyme with parameters of type EnzymeLink

void	EnzymeEntry.addLink(EnzymeLink link) Adds a link to the list of additional links.
int	EnzymeLink.compareTo(EnzymeLink link) Used for ordering links in a collection.
void	EnzymeEntry.removeLink(EnzymeLink link) Removes a link from the list of additional links.

Method parameters in uk.ac.ebi.intenz.domain.enzyme with type arguments of type EnzymeLink

void	EnzymeEntry.setLinks(SortedSet<EnzymeLink> links) Sets the list of links.

Uses of EnzymeLink in uk.ac.ebi.intenz.mapper

Methods in uk.ac.ebi.intenz.mapper that return types with arguments of type EnzymeLink

List<EnzymeLink>	EnzymeLinkMapper.exportSibLinks(Long enzymeId, Connection con) Exports all links which are displayed in the ENZYME view.
List<EnzymeLink>	EnzymeLinkMapper.find(Long enzymeId, Connection con) Tries to find link information about an enzyme in tables LINKS and XREFS.
List<EnzymeLink>	EnzymeLinkMapper.findSibXrefs(Long enzymeId, Connection con) Finds all xrefs which are displayed in the ENZYME view.
List<EnzymeLink>	EnzymeLinkMapper.findXrefs(Long enzymeId, Connection con) Tries to find SwissProt xref information about an enzyme.

Methods in uk.ac.ebi.intenz.mapper with parameters of type EnzymeLink

void	EnzymeLinkMapper.delete(Long enzymeId, EnzymeLink link, Connection con)
void	EnzymeLinkMapper.deleteXref(Long enzymeId, EnzymeLink xref, Connection con)
void	EnzymeLinkMapper.insertLink(EnzymeLink link, Long enzymeId, Status status, Connection con)
void	EnzymeLinkMapper.updateLinkUrl(EnzymeLink link, Long enzymeId, Status status, Connection con)

Method parameters in uk.ac.ebi.intenz.mapper with type arguments of type EnzymeLink

void	EnzymeLinkMapper.deleteOtherLinks(List<EnzymeLink> links, Long enzymeId, Connection con)
void	EnzymeLinkMapper.insert(List<EnzymeLink> links, Long enzymeId, Status status, Connection con) Stores the given list of links into the database.
void	EnzymeLinkMapper.reloadLinks(List<EnzymeLink> links, Long enzymeId, Status status, Connection con)

Uses of EnzymeLink in uk.ac.ebi.intenz.tools.importer

Methods in uk.ac.ebi.intenz.tools.importer that return types with arguments of type EnzymeLink

protected SortedSet<EnzymeLink>

KrakenLinkImporter.getKrakenLinks(String ec)