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Commit d7d11bed authored by tjc's avatar tjc
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use extends in resultMap's 

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@6250 ee4ac58c-ac51-4696-9907-e4b3aa274f04
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artemis_sqlmap/Feature.xml
+ 70
− 57
View file @ d7d11bed
......@@ -21,42 +21,32 @@
<parameter property="featureCvTerms" javaType="java.util.List"/>
</parameterMap>
<resultMap id="map-feature"
class="Feature" groupBy="featureId">
<resultMap id="map-basicfeature" class="Feature">
<result property="timeLastModified" column="timelastmodified"/>
<result property="featureId" column="id"/>
<result property="uniqueName" column="uniquename"/>
<result property="name" column="feature_name"/>
<result property="seqLen" column="seqlen" nullValue="-1" />
</resultMap>
<resultMap id="map-feature" class="Feature"
groupBy="featureId" extends="map-basicfeature">
<result property="organism.organismId" column="organism_id"/>
<result property="featureRelationshipsForSubjectId"
resultMap="FeatureRelationship.feature_relationship" />
<!--
<result property="featureRelationship.featureByObjectId.featureId" column="object_id"/>
<result property="featureRelationship.cvTerm.cvTermId" column="relation_type_id"/>
<result property="featureRelationship.rank" column="rank"/>
-->
<result property="featureLoc.strand" column="strand" nullValue="0"/>
<result property="featureLoc.fmin" column="fmin" nullValue="-1"/>
<result property="featureLoc.fmax" column="fmax" nullValue="0"/>
<result property="featureLoc.phase" column="phase"/>
<result property="uniqueName" column="uniquename"/>
<result property="cvTerm.cvTermId" column="type_id"/>
<result property="featureProps" resultMap="FeatureProp.map-featureprop" />
<!--
<result property="featureprop.cvTerm.cvTermId" column="prop_type_id" nullValue="0"/>
<result property="featureprop.value" column="value"/>
<result property="featureprop.rank" column="prop_rank" nullValue="0"/>
-->
</resultMap>
<!-- mapping for feature table and lazy loading of feature_dbxref, feature_relationship,
featureprop, organism tables -->
<resultMap id="map-feature-lazy"
class="Feature">
<result property="timeLastModified" column="timelastmodified"/>
<result property="featureId" column="id"/>
<result property="uniqueName" column="uniquename"/>
<result property="name" column="name"/>
<resultMap id="map-feature-lazy" class="Feature"
extends="map-basicfeature">
<result property="residues" column="residues" />
<result property="seqLen" column="length" nullValue="-999" />
<result property="cvTerm" column="type_id" select="getCvtermByCvTermId" />
<result property="dbXRef" column="dbXRefId"
select="getDbXRefByDbXRefId" />
......@@ -76,35 +66,24 @@
select="getOrganism" />
</resultMap>
<resultMap id="map-feature-withprop"
class="Feature" groupBy="featureId">
<result property="timeLastModified" column="timelastmodified"/>
<result property="featureId" column="feature_id"/>
<result property="uniqueName" column="uniquename"/>
<result property="name" column="name"/>
<result property="seqLen" column="length" />
<resultMap id="map-feature-withprop" class="Feature"
groupBy="featureId" extends="map-basicfeature">
<result property="cvTerm" column="type_id" select="getCvtermByCvTermId" />
<result property="featureProps" resultMap="FeatureProp.map-featureprop" />
<result property="featureDbXRefs" column="{featureId=feature_id}"
<result property="featureDbXRefs" column="{featureId=id}"
select="getFeatureDbXRef" />
<result property="dbXRef" resultMap="DbXRef.select-dbxref" />
</resultMap>
<resultMap id="map-feature-residues"
class="Feature">
<resultMap id="map-feature-residues" class="Feature">
<result property="residues" column="residues"/>
<result property="seqLen" column="seqLen"/>
<result property="featureLoc.fmin" column="fmin" nullValue="-1"/>
<result property="featureLoc.fmax" column="fmax" nullValue="0"/>
</resultMap>
<resultMap id="select-similaritymatch"
class="Feature" groupBy="featureId">
<result property="timeLastModified" column="timelastmodified"/>
<result property="featureId" column="id"/>
<result property="uniqueName" column="uniquename"/>
<result property="name" column="feature_name"/>
<result property="seqLen" column="length" nullValue="-999" />
<resultMap id="map-similaritymatch" class="Feature"
groupBy="featureId" extends="map-basicfeature">
<result property="cvTerm" column="type_id" select="getCvtermByCvTermId" />
<result property="featureLocsForFeatureId" resultMap="FeatureLoc.map-location" />
<result property="featureProps" column="{feature_id=id}"
......@@ -112,8 +91,17 @@
<result property="analysisFeatures" resultMap="AnalysisFeature.map-analysisfeature" />
</resultMap>
<resultMap id="map-feature-with-residues-result"
class="Feature">
<resultMap id="map-clusterfeature" class="Feature"
groupBy="featureId" extends="map-basicfeature">
<result property="cvTerm" column="type_id" select="getCvtermByCvTermId" />
<result property="featureLocsForFeatureId" resultMap="FeatureLoc.map-location" />
<result property="featureProps" column="{feature_id=id}"
select="getFeaturePropByFeatureId" />
<result property="analysisFeatures" resultMap="AnalysisFeature.map-analysisfeature" />
</resultMap>
<resultMap id="map-feature-with-residues-result" class="Feature">
<result property="name" column="name"/>
<result property="uniqueName" column="uniquename"/>
<result property="featureId" column="feature_id"/>
......@@ -136,8 +124,11 @@
fl.strand,
fmin,
fmax,
f.name AS feature_name,
uniquename,
f.type_id,
f.seqlen,
fp.featureprop_id,
fp.type_id AS prop_type_id,
fp.rank AS prop_rank,
fp.value,
......@@ -165,10 +156,10 @@
f.feature_id AS id,
uniquename,
organism_id AS organismId,
f.name,
f.name AS feature_name,
f.type_id,
f.dbxref_id AS dbXRefId,
seqlen AS length,
f.seqlen,
residues
FROM feature f
<dynamic>
......@@ -208,10 +199,10 @@
f.feature_id AS id,
uniquename,
organism_id AS organismId,
f.name,
f.name AS feature_name,
f.type_id,
f.dbxref_id AS dbXRefId,
seqlen AS length,
f.seqlen,
residues
FROM feature f
WHERE f.feature_id=$featureId$
......@@ -221,14 +212,14 @@
cacheModel="feature-cache">
SELECT
timelastmodified,
f.feature_id,
f.feature_id AS id,
uniquename,
organism_id AS organismId,
f.name,
f.name AS feature_name,
f.type_id,
f.dbxref_id,
seqlen AS length,
fp.type_id AS prop_type_id, fp.rank AS prop_rank, fp.value,
f.seqlen,
fp.type_id AS prop_type_id, fp.rank AS prop_rank, fp.value, fp.featureprop_id,
dbxref.*, db.*
FROM feature f
LEFT JOIN featureprop fp ON fp.feature_id=f.feature_id
......@@ -240,13 +231,13 @@
<select id="getFeaturesByListOfIds" resultMap ="map-feature-withprop">
SELECT
timelastmodified,
f.feature_id,
f.feature_id AS id,
uniquename,
organism_id AS organismId,
f.name,
f.type_id,
f.dbxref_id AS dbXRefId,
seqlen AS length,
f.seqlen,
fp.type_id AS prop_type_id, fp.rank AS prop_rank, fp.value,
dbxref.*, db.*
FROM feature f
......@@ -259,14 +250,14 @@
<!-- Returns matches for all features on a given srcfeature -->
<select id="getLazySimilarityMatches" parameterClass="java.lang.Integer"
resultMap="select-similaritymatch">
resultMap="map-similaritymatch">
SELECT
timelastmodified,
f.feature_id AS id,
f.uniquename,
f.type_id,
f.name AS feature_name,
f.seqlen AS length,
f.seqlen,
srcfeature_id, fmin, fmax, strand, phase, residue_info, locgroup, fl.rank,
rawscore, normscore, significance, identity, a.analysis_id,
a.name, description, program, programversion, algorithm, sourcename, sourceversion,sourceuri, timeexecuted
......@@ -282,14 +273,14 @@
<!-- Returns matches for a list of feature_id's -->
<select id="getLazySimilarityMatchesByFeatureIds" parameterClass="java.util.List"
resultMap="select-similaritymatch">
resultMap="map-similaritymatch">
SELECT
timelastmodified,
f.feature_id AS id,
f.uniquename,
f.type_id,
f.name AS feature_name,
f.seqlen AS length,
f.seqlen,
f.residues,
srcfeature_id, fmin, fmax, strand, phase, residue_info, locgroup, fl.rank,
rawscore, normscore, significance, identity, a.analysis_id,
......@@ -305,6 +296,28 @@
ORDER BY f.feature_id
</select>
<!-- Returns cluster/ortholog/paralog for a list of feature_id's -->
<select id="getLazyClustersByFeatureIds" parameterClass="java.util.List"
resultMap="map-clusterfeature">
SELECT
timelastmodified,
f.feature_id AS id,
fr.subject_id,
fr.type_id,
fr.rank,
f.uniquename,
f.type_id,
f.name AS feature_name,
f.seqlen,
rawscore, normscore, significance, identity, a.analysis_id,
a.name, description, program, programversion, algorithm, sourcename, sourceversion,sourceuri, timeexecuted
FROM feature f
LEFT JOIN feature_relationship fr ON f.feature_id=fr.object_id
LEFT JOIN analysisfeature af ON f.feature_id=af.feature_id
LEFT JOIN analysis a ON af.analysis_id=a.analysis_id
WHERE f.type_id=( SELECT cvterm_id FROM cvterm WHERE name='orthologous_to' )
AND fr.subject_id IN ( SELECT feature_id FROM featureloc WHERE srcfeature_id=$value$ )
</select>
<select id="getSchema" resultClass="java.lang.String">
SELECT schema_name FROM information_schema.schemata WHERE schema_name=schema_owner
......
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