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harm.py
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harm.py
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from bottle import route, run, template, request, static_file
from SPARQLWrapper import SPARQLWrapper, JSON
import urllib
import logging
import glob
import sys
import traceback
import os
__VERSION = 0.1
@route('/harmonize/version')
def version():
return "Harmonize version " + str(__VERSION)
@route('/harmonize')
@route('/harmonize/')
def harmonize():
return template('harm')
@route('/harmonize/vocab')
def vocab():
sparql = SPARQLWrapper("http://lod.cedar-project.nl:8080/sparql/cedar")
dimensions = """
PREFIX sdmx: <http://purl.org/linked-data/sdmx#>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX qb: <http://purl.org/linked-data/cube#>
SELECT DISTINCT ?dimensionu ?dimension (COUNT(?code) AS ?ncodes)
FROM <http://lod.cedar-project.nl/resource/harmonization>
WHERE {
?dimensionu a qb:DimensionProperty ;
qb:concept ?concept ;
rdfs:label ?dimension ;
rdfs:range ?range .
OPTIONAL {?dimensionu qb:codeList ?codelist .
?codelist skos:hasTopConcept ?code . }
} GROUP BY ?dimensionu ?dimension ORDER BY ?dimension
"""
sparql.setQuery(dimensions)
sparql.setReturnFormat(JSON)
results = sparql.query().convert()
return template('vocab', state="dimensions", results=results)
@route('/harmonize/vocab/detail', method = 'POST')
def vocab_detail(__dim = None):
dim = None
if __dim:
dim = __dim
else:
dim = request.forms.get("dim")
print dim
sparql = SPARQLWrapper("http://lod.cedar-project.nl:8080/sparql/cedar")
det_dimension = """
PREFIX sdmx: <http://purl.org/linked-data/sdmx#>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX qb: <http://purl.org/linked-data/cube#>
SELECT DISTINCT ?code ?codel ?codelist ?concept
FROM <http://lod.cedar-project.nl/resource/harmonization>
WHERE {
<%s> a qb:DimensionProperty ;
qb:concept ?concept ;
rdfs:range ?range .
OPTIONAL {<%s> qb:codeList ?codelist .
?codelist skos:hasTopConcept ?code .
?code skos:prefLabel ?codel . }
}
""" % (dim, dim)
sparql.setQuery(det_dimension)
sparql.setReturnFormat(JSON)
details = sparql.query().convert()
return template('vocab-detail', dim=dim, details=details)
@route('/harmonize/vocab/alldetails')
def vocab_alldetails():
sparql = SPARQLWrapper("http://lod.cedar-project.nl:8080/sparql/cedar")
dimension = """
PREFIX sdmx: <http://purl.org/linked-data/sdmx#>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX qb: <http://purl.org/linked-data/cube#>
SELECT ?dimension ?concept ?range ?codelist ?code
FROM <http://lod.cedar-project.nl/resource/harmonization>
WHERE {
?dimension a qb:DimensionProperty ;
qb:concept ?concept ;
rdfs:range ?range .
OPTIONAL {?dimension qb:codeList ?codelist .
?codelist skos:hasTopConcept ?code . }
}
"""
sparql.setQuery(dimension)
sparql.setReturnFormat(JSON)
details = sparql.query().convert()
return template('vocab-alldetails', details=details)
@route('/harmonize/vocab/addcode', method = "POST")
def vocab_addcode():
code = request.forms.get("code")
codelist = request.forms.get("codelist")
codel = request.forms.get("codel")
dim = request.forms.get("dim")
concept = request.forms.get("concept")
print code, codelist, codel, dim
sparql = SPARQLWrapper("http://lod.cedar-project.nl:8080/sparql/cedar")
# If the code list does not exist, we create it
ask_codelist = """
SELECT *
FROM <http://lod.cedar-project.nl/resource/harmonization>
WHERE {<%s> ?p ?o .}
""" % codelist
sparql.setQuery(ask_codelist)
sparql.setReturnFormat(JSON)
cl_results = sparql.query().convert()
if not "p" in cl_results["results"]["bindings"]:
create_codelist = """
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX qb: <http://purl.org/linked-data/cube#>
INSERT DATA { GRAPH <http://lod.cedar-project.nl/resource/harmonization> {
<%s> a skos:ConceptScheme .
<%s> qb:codeList <%s> .
}}
""" % (codelist, dim, codelist)
sparql.setQuery(create_codelist)
sparql.setReturnFormat(JSON)
sparql.query().convert()
insertcode = """
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
INSERT DATA { GRAPH <http://lod.cedar-project.nl/resource/harmonization> {
<%s> a skos:Concept, <%s> ;
skos:topConceptOf <%s> ;
skos:prefLabel \"%s\"@en ;
skos:inScheme <%s> .
<%s> skos:hasTopConcept <%s> .
}}
""" % (code, concept, codelist, codel, codelist, codelist, code)
print insertcode
sparql.setQuery(insertcode)
sparql.setReturnFormat(JSON)
sparql.query().convert()
return vocab_detail(dim)
@route('/harmonize/harm')
def harm(__ds = None):
ds = None
if __ds:
ds = __ds
else:
ds = request.query.ds
if not ds:
sparql = SPARQLWrapper("http://lod.cedar-project.nl:8080/sparql/cedar")
sparql.setQuery("""
PREFIX d2s: <http://www.data2semantics.org/core/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
SELECT DISTINCT ?g ?ltitle
FROM <http://lod.cedar-project.nl/resource/cedar-dataset>
WHERE {
GRAPH ?g {
?title a d2s:Title .
?title d2s:value ?vtitle .
?vtitle skos:prefLabel ?ltitle .
}
} GROUP BY ?g ORDER BY ?g
""")
sparql.setReturnFormat(JSON)
results = sparql.query().convert()
return template('manage', state='manage-ds', files=results)
else:
# List of dimensions, variables and values in the harm layer
sparql = SPARQLWrapper("http://lod.cedar-project.nl:8080/sparql/cedar")
sparql.setQuery("""
PREFIX d2s: <http://www.data2semantics.org/core/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
SELECT DISTINCT(?dim) ?ldim ?var ?val
FROM <%s>
FROM <http://lod.cedar-project.nl/resource/harm>
WHERE {
{GRAPH <%s> {
?s d2s:dimension ?dim .
?dim skos:prefLabel ?ldim .
}}
OPTIONAL {
{GRAPH <http://lod.cedar-project.nl/resource/harm> {?dim ?var ?val .}}
}
} ORDER BY ?ldim
""" % (ds, ds))
sparql.setReturnFormat(JSON)
dimvarval = sparql.query().convert()
# List of all dimensions (feeding the combos)
sparql.setQuery("""
PREFIX sdmx: <http://purl.org/linked-data/sdmx#>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX qb: <http://purl.org/linked-data/cube#>
SELECT DISTINCT ?dimensionu ?dimension
FROM <http://lod.cedar-project.nl/resource/harmonization>
WHERE {
?dimensionu a qb:DimensionProperty ;
qb:concept ?concept ;
rdfs:label ?dimension ;
rdfs:range ?range .
OPTIONAL {?dimensionu qb:codeList ?codelist .
?codelist skos:hasTopConcept ?code . }
} ORDER BY ?dimension
""")
variables = sparql.query().convert()
# List of all codes (feeding the combos)
sparql.setQuery("""
PREFIX sdmx: <http://purl.org/linked-data/sdmx#>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX qb: <http://purl.org/linked-data/cube#>
SELECT DISTINCT ?codeu ?code
FROM <http://lod.cedar-project.nl/resource/harmonization>
WHERE {
?dimension a qb:DimensionProperty ;
qb:concept ?concept ;
rdfs:range ?range .
OPTIONAL {?dimension qb:codeList ?codelist .
?codelist skos:hasTopConcept ?codeu .
?codeu skos:prefLabel ?code . }
} ORDER BY ?code
""")
values = sparql.query().convert()
return template('manage', state='manage-variables', dimvarval=dimvarval, variables=variables, values=values, ds=ds)
@route('/harmonize/update', method = 'POST')
def update():
dimension = request.forms.get("dim")
variable = request.forms.get("ddVariable")
value = request.forms.get("ddValue")
ds = request.forms.get("ds")
print dimension, variable, value, ds
sparql = SPARQLWrapper("http://lod.cedar-project.nl:8080/sparql/cedar")
delete = """
DELETE { GRAPH <http://lod.cedar-project.nl/resource/harm> {<%s> ?var ?val .}}
WHERE {<%s> ?var ?val .}
""" % (dimension, dimension)
sparql.setQuery(delete)
deleteResults = sparql.query().convert()
if not (variable == 'None' or value == 'None'):
insert = """
INSERT INTO <http://lod.cedar-project.nl/resource/harm> {<%s> <%s> <%s>}
""" % (dimension, variable, value)
sparql.setQuery(insert)
insertResults = sparql.query().convert()
return harm(ds)
@route('/harmonize/query-iface')
def query_iface():
sparql = SPARQLWrapper("http://lod.cedar-project.nl:8080/sparql/cedar")
sparql.setReturnFormat(JSON)
# List of all dimensions (feeding the combos)
sparql.setQuery("""
PREFIX sdmx: <http://purl.org/linked-data/sdmx#>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX qb: <http://purl.org/linked-data/cube#>
SELECT DISTINCT ?dimensionu ?dimension
FROM <http://lod.cedar-project.nl/resource/harmonization>
WHERE {
?dimensionu a qb:DimensionProperty ;
qb:concept ?concept ;
rdfs:label ?dimension ;
rdfs:range ?range .
OPTIONAL {?dimensionu qb:codeList ?codelist .
?codelist skos:hasTopConcept ?code . }
} ORDER BY ?dimension
""")
variables = sparql.query().convert()
# List of all codes (feeding the combos)
sparql.setQuery("""
PREFIX sdmx: <http://purl.org/linked-data/sdmx#>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX qb: <http://purl.org/linked-data/cube#>
SELECT DISTINCT ?codeu ?code
FROM <http://lod.cedar-project.nl/resource/harmonization>
WHERE {
?dimension a qb:DimensionProperty ;
qb:concept ?concept ;
rdfs:range ?range .
OPTIONAL {?dimension qb:codeList ?codelist .
?codelist skos:hasTopConcept ?codeu .
?codeu skos:prefLabel ?code . }
} ORDER BY ?code
""")
values = sparql.query().convert()
return template('query', state='start', variables=variables, values=values, prevvar=None, prevval=None, sumcheck=None)
@route('/harmonize/query', method = 'POST')
def query():
variable = request.forms.get("ddVariable")
value = request.forms.get("ddValue")
sumcheck = request.forms.get("sum")
print variable, value, sumcheck
sparql = SPARQLWrapper("http://lod.cedar-project.nl:8080/sparql/cedar")
sparql.setReturnFormat(JSON)
projections = "?g ?ldim (SUM(?population) AS ?population)" if sumcheck else "?g ?lcell ?ldim ?population"
query = """
PREFIX d2s: <http://www.data2semantics.org/core/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
SELECT """ + projections + """
FROM <http://lod.cedar-project.nl/resource/cedar-dataset>
WHERE {
GRAPH ?g { ?cell d2s:isObservation [ d2s:dimension ?dim ;
d2s:populationSize ?population ] .
?cell d2s:cell ?lcell .
{ SELECT ?dim FROM <http://lod.cedar-project.nl/resource/harm> WHERE { ?dim <%s> <%s> . } }
{ SELECT ?ldim FROM <http://lod.cedar-project.nl/resource/harmonization> WHERE { <%s> skos:prefLabel ?ldim } }
}
} GROUP BY ?g ?ldim ORDER BY ?g
""" % (variable, value, value)
print query
sparql.setQuery(query)
numbers = sparql.query().convert()
# List of all dimensions (feeding the combos)
sparql.setQuery("""
PREFIX sdmx: <http://purl.org/linked-data/sdmx#>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX qb: <http://purl.org/linked-data/cube#>
SELECT DISTINCT ?dimensionu ?dimension
FROM <http://lod.cedar-project.nl/resource/harmonization>
WHERE {
?dimensionu a qb:DimensionProperty ;
qb:concept ?concept ;
rdfs:label ?dimension ;
rdfs:range ?range .
OPTIONAL {?dimensionu qb:codeList ?codelist .
?codelist skos:hasTopConcept ?code . }
} ORDER BY ?dimension
""")
variables = sparql.query().convert()
# List of all codes (feeding the combos)
sparql.setQuery("""
PREFIX sdmx: <http://purl.org/linked-data/sdmx#>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX qb: <http://purl.org/linked-data/cube#>
SELECT DISTINCT ?codeu ?code
FROM <http://lod.cedar-project.nl/resource/harmonization>
WHERE {
?dimension a qb:DimensionProperty ;
qb:concept ?concept ;
rdfs:range ?range .
OPTIONAL {?dimension qb:codeList ?codelist .
?codelist skos:hasTopConcept ?codeu .
?codeu skos:prefLabel ?code . }
} ORDER BY ?code
""")
values = sparql.query().convert()
#Finally, prepare the CSV query URL
params = { "default-graph-uri" : "", "query" : query, "format" : "text/csv", "timeout" : 0, "debug" : "on"}
url = "http://lod.cedar-project.nl:8080/sparql/cedar?" + urllib.urlencode(params)
return template('query', state='results', numbers=numbers, variables=variables, values=values, prevvar=variable, prevval=value, sumcheck=sumcheck, url=url)
@route('/harmonize/admin')
def admin():
return template('admin')
@route('/harmonize/clear')
def clear():
sparql = SPARQLWrapper("http://lod.cedar-project.nl:8080/sparql/cedar")
query = """
DELETE { GRAPH <http://lod.cedar-project.nl/resource/harm> {?s ?p ?o .}}
WHERE { GRAPH <http://lod.cedar-project.nl/resource/harm> {?s ?p ?o .}}
"""
sparql.setQuery(query)
sparql.setReturnFormat(JSON)
sparql.query().convert()
return admin()
# Static Routes
@route('/js/<filename:re:.*\.js>')
def javascripts(filename):
return static_file(filename, root='views/js')
@route('/css/<filename:re:.*\.css>')
def stylesheets(filename):
return static_file(filename, root='views/css')
@route('/img/<filename:re:.*\.(jpg|png|gif|ico)>')
def images(filename):
return static_file(filename, root='views/img')
@route('/fonts/<filename:re:.*\.(eot|ttf|woff|svg)>')
def fonts(filename):
return static_file(filename, root='views/fonts')
run(host = 'localhost', port = 8080, debug = True)