FeatureCvTerm.xml

<!DOCTYPE sqlMap 
    PUBLIC "-//ibatis.apache.org//DTD SQL Map 2.0//EN" 
    "http://ibatis.apache.org/dtd/sql-map-2.dtd"> 
 

<sqlMap namespace="FeatureCvTerm"> 
 
    <cacheModel id="featurecvterm-rank-cache" type ="LRU" readOnly="true"> 
      <flushInterval hours="24"/>  
      <property name="cache-size" value="15" /> 
    </cacheModel> 
    
    <typeAlias alias="FeatureCvTerm"
        type="org.gmod.schema.sequence.FeatureCvTerm"/>

     <resultMap id="select-featurecvterm-no-rank" class="FeatureCvTerm" 
                groupBy="featureCvTermId">
        <result property="featureCvTermId"   column="feature_cvterm_id" />
        <result property="feature.featureId" column="feature_id" />
        <result property="cvTerm.cvTermId"   column="cvterm_id" />
        <result property="cvTerm.name"       column="cvterm_name" />
        <result property="cvTerm.cv.name"    column="cv_name" />
        <result property="not"               column="is_not" />

        <result property="featureCvTermProps" resultMap="FeatureCvTermProp.feature_cvtermprop"  />
        <result property="pub.pubId"         column="pub_id" />
        <result property="pub.uniqueName"    column="uniquename" />
        <result property="cvTerm.dbXRef.accession" column="accession" />
        <result property="cvTerm.dbXRef.db.name"   column="name" />
        <result property="featureCvTermDbXRefs"    column="feature_cvterm_id"
                                          select="getFeatureCvTermDbXRefByFeatureCvTerm" />
        <!-- <result property="pub" column="pub_id" select="selectPub" /> -->
     </resultMap>
     
     <resultMap id="select-featurecvterm" class="FeatureCvTerm" 
                extends="select-featurecvterm-no-rank">
        <result property="rank" column="rank" />
     </resultMap>

 
      <!--  select feature_cvterm -->
      <sql id="sql_select_feature_cvterm">
         SELECT
          fc.*, 
          fcp.type_id, fcp.value, fcp.rank AS fcp_rank,
          cvterm.name AS cvterm_name,
          cv.name AS cv_name,
          pub.pub_id, 
          pub.uniquename,
          db.name,
          dbxref.accession
        FROM feature_cvterm fc 
        LEFT JOIN feature_cvtermprop fcp ON fc.feature_cvterm_id=fcp.feature_cvterm_id 
        LEFT JOIN cvterm ON cvterm.cvterm_id=fc.cvterm_id 
        LEFT JOIN cv ON cvterm.cv_id=cv.cv_id 
        LEFT JOIN pub ON fc.pub_id=pub.pub_id
        LEFT JOIN dbxref ON cvterm.dbxref_id=dbxref.dbxref_id 
        LEFT JOIN db ON dbxref.db_id=db.db_id
      </sql>
  
	<select id="getFeatureCvTermsBySrcFeature" parameterClass="org.gmod.schema.sequence.Feature"
             resultMap="select-featurecvterm">
        <include refid="sql_select_feature_cvterm"/> 
        WHERE feature_id IN 
		(SELECT feature_id FROM featureloc fl WHERE srcfeature_id=$featureId$
	    <isGreaterThan property="featureLoc.fmin" compareValue="0" prepend="AND"> 
           <![CDATA[ fl.fmin > $featureLoc.fmin$ AND fl.fmax < $featureLoc.fmax$ ]]>
        </isGreaterThan>)
        ORDER BY fc.feature_cvterm_id, fc.rank, type_id, fcp.rank;
     </select>
	
	
	<select id="getFeatureCvTermsNoRankBySrcFeature" parameterClass="org.gmod.schema.sequence.Feature"
             resultMap="select-featurecvterm-no-rank">
        <include refid="sql_select_feature_cvterm"/>
        WHERE feature_id IN 
		(SELECT feature_id FROM featureloc fl WHERE srcfeature_id=$featureId$
	    <isGreaterThan property="featureLoc.fmin" compareValue="0" prepend="AND"> 
           <![CDATA[ fl.fmin > $featureLoc.fmin$ AND fl.fmax < $featureLoc.fmax$ ]]>
        </isGreaterThan>)
        ORDER BY fc.feature_cvterm_id, type_id, fcp.rank;
     </select>
	
	
     <select id="getFeatureCvTermsByFeature" parameterClass="Feature"
             resultMap="select-featurecvterm">
        <include refid="sql_select_feature_cvterm"/>
        <dynamic>
          <isNotNull property="uniqueName" prepend="WHERE">
            feature_id IN (SELECT feature_id FROM feature WHERE uniquename=#uniqueName#)
          </isNotNull>
        </dynamic>
        ORDER BY fc.feature_cvterm_id, fc.rank, type_id, fcp.rank;
     </select>


     <!-- same as getFeatureCvTermsByFeature but without feature_cvterm.rank -->   
     <select id="getFeatureCvTermsNoRankByFeature" parameterClass="Feature"
             resultMap="select-featurecvterm-no-rank">
        <include refid="sql_select_feature_cvterm"/>
        <dynamic>
          <isNotNull property="uniqueName" prepend="WHERE">
            feature_id=(SELECT feature_id FROM feature WHERE uniquename=#uniqueName#)
          </isNotNull>
        </dynamic>
        ORDER BY fc.feature_cvterm_id, type_id, fcp.rank;
     </select>
     
     
     <select id="getFeatureCvTermColumnsForASchema" parameterClass="java.lang.String"
             resultClass="java.lang.String" cacheModel="featurecvterm-rank-cache">
       SELECT pg_attribute.attname 
       FROM pg_attribute, pg_class, pg_namespace 
       WHERE pg_namespace.oid=pg_class.relnamespace AND 
             attrelid=pg_class.oid AND 
             relname='feature_cvterm' AND 
             attnum > 0
             <!--AND nspname=#value#-->
     </select>
     
     
    <delete id="deleteFeatureCvTerm" parameterClass="FeatureCvTerm">
      DELETE FROM feature_cvterm WHERE
      feature_cvterm_id=$featureCvTermId$
    </delete>
    
    <!--  UPDATE  -->
    <update id="updateFeatureCvTerm" 
            parameterClass="FeatureCvTerm">
      UPDATE feature_cvterm
      SET rank=$rank$
      WHERE feature_cvterm_id=$featureCvTermId$
    </update>
    
    <!-- INSERT -->
    <insert id="insertFeatureCvTerm" 
            parameterClass="FeatureCvTerm">
      INSERT INTO feature_cvterm
        ( feature_cvterm_id, feature_id, cvterm_id, pub_id, rank, is_not )
      VALUES
        ( nextval('feature_cvterm_feature_cvterm_id_seq'),
          (SELECT feature_id FROM feature WHERE uniquename=#feature.uniqueName#),
		  <isGreaterThan property="cvTerm.cvTermId" compareValue="0">
            $cvTerm.cvTermId$,
	      </isGreaterThan>
		  <isEqual property="cvTerm.cvTermId" compareValue="0">
			(SELECT cvterm_id FROM cvterm WHERE name=#cvTerm.name# AND 
			  cv_id = (SELECT cv_id FROM cv WHERE name=#cvTerm.cv.name#)), 
	      </isEqual>
          <dynamic>
            <isNotNull property="pub">
              <isEqual property="pub.pubId" compareValue="0">
               (SELECT pub_id FROM pub WHERE uniquename=#pub.uniqueName#), 
              </isEqual>
              <isGreaterThan property="pub.pubId" compareValue="0">
               $pub.pubId$, 
              </isGreaterThan>
            </isNotNull>
            <isNull property="pub"> 
              (SELECT pub_id FROM pub WHERE uniquename='null' OR uniquename='NULL'), 
            </isNull>     
          </dynamic>
          $rank$,
          $not$ )
    </insert>
     
</sqlMap>