diff --git a/artemis_sqlmap/Cvterm.xml b/artemis_sqlmap/Cvterm.xml index 5194e61a546d2e8743c4cd1f215b5827243cf27f..8d63b2ef20c845be23ba014853543a24d26cc6b4 100644 --- a/artemis_sqlmap/Cvterm.xml +++ b/artemis_sqlmap/Cvterm.xml @@ -7,7 +7,7 @@ <sqlMap namespace="Cvterm"> - <resultMap id="select-cvterm-names-result" class="uk.ac.sanger.ibatis.Cvterm"> + <resultMap id="select-cvterm-names-result" class="uk.ac.sanger.artemis.chado.Cvterm"> <result property="id" column="cvterm_id"/> <result property="name" column="cvterm_name"/> <result property="cv_name" column="cv_name"/> diff --git a/artemis_sqlmap/Feature.xml b/artemis_sqlmap/Feature.xml index aef073ca6252daa25c5bd577657da64e7055392e..b5581c114ae13320dfb6d4406beecae597f3eb0d 100644 --- a/artemis_sqlmap/Feature.xml +++ b/artemis_sqlmap/Feature.xml @@ -16,7 +16,7 @@ <result property="timelastmodified" column="timelastmodified"/> <result property="id" column="id"/> <result property="object_id" column="object_id"/> - <result property="strand" column="strand"/> + <result property="strand" column="strand" nullValue="0"/> <result property="fmin" column="fmin"/> <result property="fmax" column="fmax"/> <result property="uniquename" column="uniquename"/> @@ -165,6 +165,18 @@ $schema$.feature.feature_id > 0 </select> + + <select id="getOrganismID" resultClass="java.lang.Integer" + parameterClass="uk.ac.sanger.artemis.chado.ChadoFeature"> + SELECT organism_id FROM $schema$.feature f WHERE + f.feature_id=$srcfeature_id$ + </select> + + + <select id="currval" resultClass="java.lang.Integer" parameterClass="java.lang.String"> + SELECT currval('$value$') + </select> + <!-- WRITE BACK METHODS --> <update id="updateAttributes" parameterClass="uk.ac.sanger.artemis.chado.ChadoTransaction"> UPDATE $schema$.$chadoTable$ @@ -214,4 +226,26 @@ feature_id=$feature_id$ </delete> + <insert id="insertFeature" parameterClass="uk.ac.sanger.artemis.chado.ChadoFeature"> + INSERT INTO $schema$.feature + ( feature_id, organism_id, name, uniquename, type_id ) + VALUES + ( nextval('$schema$.feature_feature_id_seq'), + $organism_id$, + #uniquename#, + #uniquename#, + $type_id$ ) + </insert> + + <insert id="insertFeatureLoc" parameterClass="uk.ac.sanger.artemis.chado.ChadoFeature"> + INSERT INTO $schema$.featureloc + ( featureloc_id, feature_id, srcfeature_id, fmin, fmax ) + VALUES + ( nextval('$schema$.featureloc_featureloc_id_seq'), + $id$, + $srcfeature_id$, + $fmin$, + $fmax$ ) + </insert> + </sqlMap> diff --git a/artemis_sqlmap/Organism.xml b/artemis_sqlmap/Organism.xml index 5fe0a3e0a8c306b704898905888b906b48b0cffb..cec57fa79c687200becb08c4e19e03c3ec06e3e7 100644 --- a/artemis_sqlmap/Organism.xml +++ b/artemis_sqlmap/Organism.xml @@ -8,7 +8,7 @@ <!-- Use primitive wrapper type (e.g. Integer) as parameter and allow results to be auto-mapped results to Organism object (JavaBean) properties --> - <select id="getOrganism" parameterClass="java.lang.String" resultClass="uk.ac.sanger.ibatis.Organism"> + <select id="getOrganism" parameterClass="java.lang.String" resultClass="uk.ac.sanger.artemis.chado.Organism"> SELECT ORGANISM_ID as id, ABBREVIATION,