/*
* Copyright [1999-2015] Wellcome Trust Sanger Institute and the EMBL-European Bioinformatics Institute
* Copyright [2016-2017] EMBL-European Bioinformatics Institute
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*/
/**
* File: DisplayXrefIdTest.java
* Created by: dstaines
* Created on: May 27, 2009
* CVS: $$
*/
package org.ensembl.healthcheck.testcase.eg_core;
import org.ensembl.healthcheck.DatabaseType;
import org.ensembl.healthcheck.Team;
import org.ensembl.healthcheck.testcase.AbstractRowCountTestCase;
/**
* Test to find genes where display_xref_id is not set
*
* @author dstaines
*
*/
public class DisplayXrefId extends AbstractRowCountTestCase {
public DisplayXrefId() {
super();
this.addToGroup(AbstractEgCoreTestCase.EG_GROUP);
this.appliesToType(DatabaseType.CORE);
this.setTeamResponsible(Team.ENSEMBL_GENOMES);
this.setDescription("Test to find genes where display_xref_id is not set");
}
private final static String QUERY = "select count(*) from gene where status not in ('NOVEL','ANNOTATED') and display_xref_id is null";
/*
* (non-Javadoc)
*
* @see
* org.ensembl.healthcheck.testcase.AbstractRowCountTestCase#getExpectedCount
* ()
*/
@Override
protected int getExpectedCount() {
return 0;
}
/*
* (non-Javadoc)
*
* @see org.ensembl.healthcheck.testcase.AbstractIntegerTestCase#getSql()
*/
@Override
protected String getSql() {
return QUERY;
}
@Override
protected String getErrorMessage(int count) {
return count+" genes with non-novel status found with null display_xref_id";
}
}