From ab987450ca9c3e31276f53e45ce29743e9a3720d Mon Sep 17 00:00:00 2001
From: tjc <tjc@ee4ac58c-ac51-4696-9907-e4b3aa274f04>
Date: Thu, 6 Aug 2009 16:16:58 +0000
Subject: [PATCH] use srcfeature_id when updating and add
getFeatureLocBySrcFeatureId
git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11508 ee4ac58c-ac51-4696-9907-e4b3aa274f04
---
artemis_sqlmap/FeatureLoc.xml | 39 +++++++++++++++++++++--------------
1 file changed, 23 insertions(+), 16 deletions(-)
diff --git a/artemis_sqlmap/FeatureLoc.xml b/artemis_sqlmap/FeatureLoc.xml
index c9b4daa11..9989f7de8 100644
--- a/artemis_sqlmap/FeatureLoc.xml
+++ b/artemis_sqlmap/FeatureLoc.xml
@@ -7,8 +7,6 @@
<sqlMap namespace="FeatureLoc">
-
-
<typeAlias alias="FeatureLoc"
type="org.gmod.schema.sequence.FeatureLoc"/>
@@ -37,26 +35,32 @@
WHERE featureloc.feature_id=#id#
</select>
+ <select id="getFeatureLocBySrcFeatureId" resultMap="map-location-lazy">
+ SELECT feature_id, srcfeature_id, fmin, fmax, strand, phase, residue_info, locgroup, rank, is_fmin_partial, is_fmax_partial
+ FROM featureloc
+ WHERE srcfeature_id=#id#
+ </select>
+
<select id="getFeatureLocsByListOfIds" resultMap ="map-location-lazy">
SELECT feature_id, srcfeature_id, fmin, fmax, strand, phase, residue_info, locgroup, rank, is_fmin_partial, is_fmax_partial
FROM featureloc
WHERE featureloc.feature_id IN <iterate open="(" close=")" conjunction=","> $[]$ </iterate>
</select>
- <!-- used to find match meature from the subject and query featureId -->
+ <!-- used to find match feature from the subject and query featureId -->
<select id="getFeatureIdBySrcFeatureId" parameterClass="Feature" resultClass="java.lang.Integer">
<iterate property="featureLocsForFeatureId" conjunction="INTERSECT" >
SELECT feature_id FROM featureloc WHERE srcfeature_id=#featureLocsForFeatureId[].featureBySrcFeatureId.featureId#
</iterate>
</select>
- <!-- WRITE BACK METHODS -->
+ <!-- WRITE BACK METHODS -->
- <!-- UPDATE -->
- <update id="updateFeatureLoc"
+ <!-- UPDATE -->
+ <update id="updateFeatureLoc"
parameterClass="FeatureLoc">
UPDATE featureloc
- SET fmin=$fmin$, fmax=$fmax$, rank=$rank$, strand=$strand$,
+ SET fmin=$fmin$, fmax=$fmax$, strand=$strand$,
is_fmin_partial=#fminPartial#,
is_fmax_partial=#fmaxPartial#
<isNotNull property="phase">
@@ -66,15 +70,18 @@
, phase=NULL
</isNull>
WHERE
- <isGreaterThan property="featureByFeatureId.featureId" compareValue="0">
- feature_id=$featureByFeatureId.featureId$
- </isGreaterThan>
- <isLessEqual property="featureByFeatureId.featureId" compareValue="0">
- <isNotNull property="featureByFeatureId.uniqueName">
- feature_id=(SELECT feature_id FROM feature WHERE uniquename=#featureByFeatureId.uniqueName#)
- </isNotNull>
- </isLessEqual>
- </update>
+ <isGreaterThan property="featureByFeatureId.featureId" compareValue="0">
+ feature_id=$featureByFeatureId.featureId$
+ </isGreaterThan>
+ <isLessEqual property="featureByFeatureId.featureId" compareValue="0">
+ <isNotNull property="featureByFeatureId.uniqueName">
+ feature_id=(SELECT feature_id FROM feature WHERE uniquename=#featureByFeatureId.uniqueName#)
+ </isNotNull>
+ </isLessEqual>
+ <isGreaterThan property="featureBySrcFeatureId.featureId" compareValue="0" prepend="AND">
+ srcfeature_id=$featureBySrcFeatureId.featureId$
+ </isGreaterThan>
+ </update>
<update id="updateFeatureLocByChangingSequence"
parameterClass="uk.ac.sanger.artemis.chado.FeatureForUpdatingResidues">
--
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