/*
 * Copyright 2015 OpenCB
 *
 * 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.
 */

package org.opencb.hpg.bigdata.core.lib;

import org.opencb.commons.datastore.core.Query;

/**
 * Created by imedina on 04/08/16.
 */
public class VariantDataset extends ParentDataset<VariantDataset> {

    private VariantParseQuery variantParseQuery;
    private String sql;

    public VariantDataset() {
        variantParseQuery = new VariantParseQuery();
    }

    @Override
    protected void updateDataset(Query query) {
        if (this.sql == null) {
            this.sql = variantParseQuery.parse(query, null, viewName);
            this.ds = this.sqlContext.sql(this.sql);
        }
    }

    public VariantDataset idfilter(String value) {
        query.put("id", value);
        return this;
    }

    public VariantDataset studyfilter(String key, String value) {
        query.put("studies." + key, value);
        return this;
    }

    public VariantDataset annotationfilter(String key, String value) {
        query.put("annotation." + key, value);
        return this;
    }

    public void showMe() {
        System.out.println("------> VariatDataset");
    }
}

@@ -1214,17 +1214,17 @@
 taset id
-f
+F
 ilter(St
@@ -1328,17 +1328,17 @@
 et study
-f
+F
 ilter(St
@@ -1471,17 +1471,17 @@
 notation
-f
+F
 ilter(St
@@ -1583,94 +1583,7 @@
    %7D
-%0A%0A    public void showMe() %7B%0A        System.out.println(%22------%3E VariatDataset%22);%0A    %7D
 %0A%7D%0A

rename VariantDataset filter names to Java style