blob: e781f08bce3a604d573611b7260b99c64d648e4f (
plain)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
|
=begin
* Name: dataset.rb
* Description: Dataset SPARQL tools
* Author: Andreas Maunz <andreas@maunz.de>
* Date: 10/2012
=end
module OpenTox
class Dataset
# Load features via SPARQL (fast)
# @param [String] Dataset URI
# @return [Array] Features in order
def self.find_features_sparql(uri)
sparql = "SELECT DISTINCT ?s FROM <#{uri}> WHERE {
?s <#{RDF.type}> <#{RDF::OT.Feature}> ;
<#{RDF::OLO.index}> ?fidx
} ORDER BY ?fidx"
OpenTox::Backend::FourStore.query(sparql, "text/uri-list").split("\n").collect { |uri| OpenTox::Feature.new uri.strip }
end
# Load compounds via SPARQL (fast)
# @param [String] Dataset URI
# @return [Array] Compounds in order
def self.find_compounds_sparql(uri)
sparql = "SELECT DISTINCT ?compound FROM <#{uri}> WHERE {
?s <#{RDF.type}> <#{RDF::OT.DataEntry}> ;
<#{RDF::OLO.index}> ?cidx;
<#{RDF::OT.compound}> ?compound
} ORDER BY ?cidx"
OpenTox::Backend::FourStore.query(sparql, "text/uri-list").split("\n").collect { |uri| OpenTox::Compound.new uri.strip }
end
# Load data entries via SPARQL (fast)
# @param [String] Dataset uri
# @return [Array] Data entries, ordered primarily over rows and secondarily over cols
def self.find_data_entries_sparql(uri)
sparql = "SELECT ?value FROM <#{uri}> WHERE {
?data_entry <#{RDF::OLO.index}> ?cidx ;
<#{RDF::OT.values}> ?v .
?v <#{RDF::OT.feature}> ?f;
<#{RDF::OT.value}> ?value .
?f <#{RDF::OLO.index}> ?fidx.
} ORDER BY ?cidx ?fidx"
OpenTox::Backend::FourStore.query(sparql,"text/uri-list").split("\n").collect { |val| val.strip }
end
end
end
|
