From 7b14ce444c7cdae5e616e6216e5017b2383e7b46 Mon Sep 17 00:00:00 2001
From: Robert Buels <rbuels@gmail.com>
Date: Mon, 10 Sep 2012 14:42:30 -0400
Subject: [PATCH] commit test configurations for leechuck and jerven data

---
 sparql_branch_todo.txt |  1 +
 sparql_jerven.json     |  9 +++++++++
 sparql_local.json      | 10 ++++++++++
 3 files changed, 20 insertions(+)
 create mode 100644 sparql_jerven.json
 create mode 100644 sparql_local.json

diff --git a/sparql_branch_todo.txt b/sparql_branch_todo.txt
index 058e929acf..7438ddf8da 100644
--- a/sparql_branch_todo.txt
+++ b/sparql_branch_todo.txt
@@ -1,3 +1,4 @@
 - block aggregation
 - factor block aggregation into BlockBased.js
 - support for subfeatures
+- remove todo and example-query files from root dir
diff --git a/sparql_jerven.json b/sparql_jerven.json
new file mode 100644
index 0000000000..d45dec6d3a
--- /dev/null
+++ b/sparql_jerven.json
@@ -0,0 +1,9 @@
+{
+         "storeClass" : "JBrowse/Store/SeqFeature/SPARQL",
+         "urlTemplate" : "http://192.168.100.5:8098/sparql",
+         "type" : "JBrowse/View/Track/HTMLFeatures",
+         "label" : "sparql",
+         "key" : "SPARQL Test",
+         "style": { "className": "feature5" },
+         "queryTemplate": "PREFIX pos:<https://github.com/dbcls/bh12/wiki/Feature-Annotation-Location-Description-Ontology#> PREFIX up:<http://purl.uniprot.org/core/>  PREFIX rdfs:<http://www.w3.org/2000/01/rdf-schema#> SELECT ?start ?end ?strand ?id ?Protein WHERE { ?Protein up:encodedBy ?id . ?id pos:locationOn ?location . ?location pos:begin ?sp . ?location pos:end ?ep . ?sp a pos:Position . ?sp pos:reference ?ref . ?ref rdfs:label ?strand . ?sp pos:position ?start . ?ep a pos:Position . ?ep pos:position ?end .  FILTER( !(?start > {end} || ?end < {start}) )  }"
+}
diff --git a/sparql_local.json b/sparql_local.json
new file mode 100644
index 0000000000..623b088554
--- /dev/null
+++ b/sparql_local.json
@@ -0,0 +1,10 @@
+{
+         "storeClass" : "JBrowse/Store/SeqFeature/SPARQL",
+         "urlTemplate" : "/sparql",
+         "type" : "JBrowse/View/Track/HTMLFeatures",
+         "label" : "sparql",
+         "key" : "SPARQL Test",
+         "style": { "className": "feature5", "arrowheadClass": "arrowhead" },
+
+         "queryTemplate": "PREFIX xsd:<http://www.w3.org/2001/XMLSchema#> PREFIX  rdf:<http://www.w3.org/1999/02/22-rdf-syntax-ns#> PREFIX rdfs:<http://www.w3.org/2000/01/rdf-schema#> PREFIX pos:<http://phenomebrowser.net/gff3/#> SELECT ?id ?name ?type ?start ?end ?strand WHERE { ?id rdf:type ?te . ?te rdfs:label ?type .  ?id pos:location ?location . ?location pos:start ?sp .  ?sp pos:position ?start . ?location pos:end ?ep . ?ep pos:position ?end . ?sp rdf:type ?spt . ?spt rdf:label ?strand . ?id rdfs:label ?name . FILTER( !(?start > {end} || ?end < {start}) ) . FILTER( ?type = \"gene\"^^xsd:string )  }"
+}