Examples with DbXref org.nextprot.api.core.domain.DbXref used on opensource projects

Example 71 with DbXref

use of org.nextprot.api.core.domain.DbXref in project nextprot-api by calipho-sib.

the class DbXrefDaoImpl method findPeptideXrefs.

@Override
public Set<DbXref> findPeptideXrefs(List<String> names) {
    SqlParameterSource namedParams = new MapSqlParameterSource("names", names);
    List<DbXref> xrefs = new NamedParameterJdbcTemplate(dsLocator.getDataSource()).query(sqlDictionary.getSQLQuery("dbxref-by-peptide-names"), namedParams, new DbXRefRowMapper());
    return new HashSet<>(xrefs);
}

Example 72 with DbXref

use of org.nextprot.api.core.domain.DbXref in project nextprot-api by calipho-sib.

the class PublicationDirectLink method getLinkFor.

private static String getLinkFor(String dbName, String accession) {
    DbXref xref = new DbXref();
    xref.setAccession(accession);
    xref.setDatabaseName(dbName);
    xref.setLinkUrl(db2link.get(dbName));
    return resolver.resolve(xref);
}

Example 73 with DbXref

use of org.nextprot.api.core.domain.DbXref in project nextprot-api by calipho-sib.

the class HsspXrefURLResolverTest method testResolveHSSP.

@Test
public void testResolveHSSP() throws Exception {
    DbXref xref = DbXrefURLResolverDelegateTest.createDbXref("PS50853", "HSSP", "%s");
    Assert.assertEquals("http://ps50853", resolver.resolve(xref));
}

Example 74 with DbXref

use of org.nextprot.api.core.domain.DbXref in project nextprot-api by calipho-sib.

the class HsspXrefURLResolverTest method testResolveHSSPWithPDB.

@Test
public void testResolveHSSPWithPDB() throws Exception {
    DbXref xref = DbXrefURLResolverDelegateTest.createDbXref("PS50853", "HSSP", "%s");
    xref.setProperties(Collections.singletonList(DbXrefURLResolverDelegateTest.createDbXrefProperty("PDB accession", "1A7F")));
    Assert.assertEquals("http://1a7f", resolver.resolve(xref));
}

Example 75 with DbXref

use of org.nextprot.api.core.domain.DbXref in project nextprot-api by calipho-sib.

the class JcrbXrefURLResolverTest method testResolveIFO.

@Test
public void testResolveIFO() throws Exception {
    DbXref xref = DbXrefURLResolverDelegateTest.createDbXref("IFO1234", "IFO", "whatever/%s");
    Assert.assertEquals("http://cellbank.nibio.go.jp/~cellbank/cgi-bin/search_res_det.cgi?RNO=ifo1234", resolver.resolve(xref));
}