From 67ac9dab06cf4762f4d423a2af0bbc131d75aa2d Mon Sep 17 00:00:00 2001
From: tjc <tjc@ee4ac58c-ac51-4696-9907-e4b3aa274f04>
Date: Mon, 17 Nov 2008 13:49:29 +0000
Subject: [PATCH] add getTopLevelOrganisms and
getOrganismsContainingSrcFeatures
git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@9369 ee4ac58c-ac51-4696-9907-e4b3aa274f04
---
artemis_sqlmap/Organism.xml | 21 +++++++++++++++++++++
1 file changed, 21 insertions(+)
diff --git a/artemis_sqlmap/Organism.xml b/artemis_sqlmap/Organism.xml
index fd6bcb27d..cdf992c34 100644
--- a/artemis_sqlmap/Organism.xml
+++ b/artemis_sqlmap/Organism.xml
@@ -59,5 +59,26 @@
f.feature_id=$featureId$
</isNull>
</select>
+
+ <select id="getOrganismsContainingSrcFeatures" resultClass="org.gmod.schema.organism.Organism">
+ SELECT DISTINCT ON( feature.organism_id )
+ organism.organism_id AS organismId, abbreviation, genus, species, common_name AS commonName, comment
+ FROM feature
+ join organism using (organism_id)
+ join cvterm on feature.type_id = cvterm.cvterm_id
+ WHERE residues notnull AND residues != ''
+ AND ( <include refid="source_feature_cvterm_names"/> )
+ </select>
+
+ <select id="getTopLevelOrganisms" resultClass="org.gmod.schema.organism.Organism">
+ SELECT DISTINCT ON( feature.organism_id )
+ organism.organism_id AS organismId, abbreviation, genus, species, common_name AS commonName, comment
+ FROM feature
+ join organism using (organism_id)
+ join cvterm on feature.type_id = cvterm.cvterm_id
+ JOIN featureprop using (feature_id)
+ WHERE featureprop.type_id in
+ (SELECT cvterm_id FROM cvterm JOIN cv using (cv_id) WHERE cv.name = 'genedb_misc' AND cvterm.name = 'top_level_seq' )
+ </select>
</sqlMap>
--
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