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andrawaag · Oct 12, 2017 · a0d4181 · a0d4181
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diff --git a/package/obo/aeo_completions.sublime-completions.gz b/package/obo/aeo_completions.sublime-completions.gz
diff --git a/package/obo/aero_completions.sublime-completions.gz b/package/obo/aero_completions.sublime-completions.gz
diff --git a/package/obo/agro_completions.sublime-completions.gz b/package/obo/agro_completions.sublime-completions.gz
diff --git a/package/obo/ancestro_completions.sublime-completions.gz b/package/obo/ancestro_completions.sublime-completions.gz
diff --git a/package/obo/apo_completions.sublime-completions.gz b/package/obo/apo_completions.sublime-completions.gz
diff --git a/package/obo/atol_completions.sublime-completions.gz b/package/obo/atol_completions.sublime-completions.gz
diff --git a/package/obo/bao_completions.sublime-completions.gz b/package/obo/bao_completions.sublime-completions.gz
diff --git a/package/obo/bcgo_completions.sublime-completions.gz b/package/obo/bcgo_completions.sublime-completions.gz
diff --git a/package/obo/bco_completions.sublime-completions.gz b/package/obo/bco_completions.sublime-completions.gz
diff --git a/package/obo/bfo_completions.sublime-completions.gz b/package/obo/bfo_completions.sublime-completions.gz
diff --git a/package/obo/bspo_completions.sublime-completions.gz b/package/obo/bspo_completions.sublime-completions.gz
diff --git a/package/obo/bto_completions.sublime-completions.gz b/package/obo/bto_completions.sublime-completions.gz
diff --git a/package/obo/caro_completions.sublime-completions.gz b/package/obo/caro_completions.sublime-completions.gz
diff --git a/package/obo/cco_completions.sublime-completions.gz b/package/obo/cco_completions.sublime-completions.gz
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diff --git a/package/obo/cteno_completions.sublime-completions.gz b/package/obo/cteno_completions.sublime-completions.gz
diff --git a/package/obo/cvdo_completions.sublime-completions.gz b/package/obo/cvdo_completions.sublime-completions.gz
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diff --git a/package/obo/ddpheno_completions.sublime-completions.gz b/package/obo/ddpheno_completions.sublime-completions.gz
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diff --git a/package/obo/dpo_completions.sublime-completions.gz b/package/obo/dpo_completions.sublime-completions.gz
diff --git a/package/obo/dron_completions.sublime-completions.gz b/package/obo/dron_completions.sublime-completions.gz
diff --git a/package/obo/duo_completions.sublime-completions.gz b/package/obo/duo_completions.sublime-completions.gz
diff --git a/package/obo/eco_completions.sublime-completions.gz b/package/obo/eco_completions.sublime-completions.gz
diff --git a/package/obo/edam_completions.sublime-completions.gz b/package/obo/edam_completions.sublime-completions.gz
diff --git a/package/obo/efo_completions.sublime-completions.gz b/package/obo/efo_completions.sublime-completions.gz
diff --git a/package/obo/ehdaa2_completions.sublime-completions.gz b/package/obo/ehdaa2_completions.sublime-completions.gz
diff --git a/package/obo/emap_completions.sublime-completions.gz b/package/obo/emap_completions.sublime-completions.gz
diff --git a/package/obo/emapa_completions.sublime-completions.gz b/package/obo/emapa_completions.sublime-completions.gz
diff --git a/package/obo/enm_completions.sublime-completions.gz b/package/obo/enm_completions.sublime-completions.gz
diff --git a/package/obo/envo_completions.sublime-completions.gz b/package/obo/envo_completions.sublime-completions.gz
diff --git a/package/obo/eo_completions.sublime-completions.gz b/package/obo/eo_completions.sublime-completions.gz
diff --git a/package/obo/eol_completions.sublime-completions.gz b/package/obo/eol_completions.sublime-completions.gz
diff --git a/package/obo/epo_completions.sublime-completions.gz b/package/obo/epo_completions.sublime-completions.gz
diff --git a/package/obo/ero_completions.sublime-completions.gz b/package/obo/ero_completions.sublime-completions.gz
diff --git a/package/obo/exo_completions.sublime-completions.gz b/package/obo/exo_completions.sublime-completions.gz
diff --git a/package/obo/fao_completions.sublime-completions.gz b/package/obo/fao_completions.sublime-completions.gz
diff --git a/package/obo/fbbi_completions.sublime-completions.gz b/package/obo/fbbi_completions.sublime-completions.gz
diff --git a/package/obo/fbbt_completions.sublime-completions.gz b/package/obo/fbbt_completions.sublime-completions.gz
diff --git a/package/obo/fbcv_completions.sublime-completions.gz b/package/obo/fbcv_completions.sublime-completions.gz
diff --git a/package/obo/fbdv_completions.sublime-completions.gz b/package/obo/fbdv_completions.sublime-completions.gz
diff --git a/package/obo/fix_completions.sublime-completions.gz b/package/obo/fix_completions.sublime-completions.gz
diff --git a/package/obo/flopo_completions.sublime-completions.gz b/package/obo/flopo_completions.sublime-completions.gz
diff --git a/package/obo/flu_completions.sublime-completions.gz b/package/obo/flu_completions.sublime-completions.gz
diff --git a/package/obo/fma_completions.sublime-completions.gz b/package/obo/fma_completions.sublime-completions.gz
diff --git a/package/obo/foodon_completions.sublime-completions.gz b/package/obo/foodon_completions.sublime-completions.gz
diff --git a/package/obo/fypo_completions.sublime-completions.gz b/package/obo/fypo_completions.sublime-completions.gz
diff --git a/package/obo/gaz_completions.sublime-completions.gz b/package/obo/gaz_completions.sublime-completions.gz
diff --git a/package/obo/genepio_completions.sublime-completions.gz b/package/obo/genepio_completions.sublime-completions.gz
diff --git a/package/obo/geno_completions.sublime-completions.gz b/package/obo/geno_completions.sublime-completions.gz
diff --git a/package/obo/geo_completions.sublime-completions.gz b/package/obo/geo_completions.sublime-completions.gz
diff --git a/package/obo/gexo_completions.sublime-completions.gz b/package/obo/gexo_completions.sublime-completions.gz
diff --git a/package/obo/go_completions.sublime-completions.gz b/package/obo/go_completions.sublime-completions.gz
diff --git a/package/obo/hao_completions.sublime-completions.gz b/package/obo/hao_completions.sublime-completions.gz
diff --git a/package/obo/hom_completions.sublime-completions.gz b/package/obo/hom_completions.sublime-completions.gz
diff --git a/package/obo/hp_completions.sublime-completions.gz b/package/obo/hp_completions.sublime-completions.gz
diff --git a/package/obo/hsapdv_completions.sublime-completions.gz b/package/obo/hsapdv_completions.sublime-completions.gz
diff --git a/package/obo/iao_completions.sublime-completions.gz b/package/obo/iao_completions.sublime-completions.gz
diff --git a/package/obo/ico_completions.sublime-completions.gz b/package/obo/ico_completions.sublime-completions.gz
diff --git a/package/obo/ido_completions.sublime-completions.gz b/package/obo/ido_completions.sublime-completions.gz
diff --git a/package/obo/idomal_completions.sublime-completions.gz b/package/obo/idomal_completions.sublime-completions.gz
diff --git a/package/obo/kisao_completions.sublime-completions.gz b/package/obo/kisao_completions.sublime-completions.gz
diff --git a/package/obo/lbo_completions.sublime-completions.gz b/package/obo/lbo_completions.sublime-completions.gz
diff --git a/package/obo/ma_completions.sublime-completions.gz b/package/obo/ma_completions.sublime-completions.gz
diff --git a/package/obo/mamo_completions.sublime-completions.gz b/package/obo/mamo_completions.sublime-completions.gz
diff --git a/package/obo/mf_completions.sublime-completions.gz b/package/obo/mf_completions.sublime-completions.gz
diff --git a/package/obo/mfmo_completions.sublime-completions.gz b/package/obo/mfmo_completions.sublime-completions.gz
diff --git a/package/obo/mfoem_completions.sublime-completions.gz b/package/obo/mfoem_completions.sublime-completions.gz
diff --git a/package/obo/mi_completions.sublime-completions.gz b/package/obo/mi_completions.sublime-completions.gz
diff --git a/package/obo/miapa_completions.sublime-completions.gz b/package/obo/miapa_completions.sublime-completions.gz
diff --git a/package/obo/mirnao_completions.sublime-completions.gz b/package/obo/mirnao_completions.sublime-completions.gz
diff --git a/package/obo/miro_completions.sublime-completions.gz b/package/obo/miro_completions.sublime-completions.gz
diff --git a/package/obo/mmo_completions.sublime-completions.gz b/package/obo/mmo_completions.sublime-completions.gz
diff --git a/package/obo/mmusdv_completions.sublime-completions.gz b/package/obo/mmusdv_completions.sublime-completions.gz
diff --git a/package/obo/mod_completions.sublime-completions.gz b/package/obo/mod_completions.sublime-completions.gz
diff --git a/package/obo/mondo_completions.sublime-completions.gz b/package/obo/mondo_completions.sublime-completions.gz
diff --git a/package/obo/mop_completions.sublime-completions.gz b/package/obo/mop_completions.sublime-completions.gz
diff --git a/package/obo/mp_completions.sublime-completions.gz b/package/obo/mp_completions.sublime-completions.gz
diff --git a/package/obo/mpath_completions.sublime-completions.gz b/package/obo/mpath_completions.sublime-completions.gz
diff --git a/package/obo/mro_completions.sublime-completions.gz b/package/obo/mro_completions.sublime-completions.gz
diff --git a/package/obo/ms_completions.sublime-completions.gz b/package/obo/ms_completions.sublime-completions.gz
diff --git a/package/obo/nbo_completions.sublime-completions.gz b/package/obo/nbo_completions.sublime-completions.gz
diff --git a/package/obo/ncbitaxon_completions.sublime-completions.gz b/package/obo/ncbitaxon_completions.sublime-completions.gz
diff --git a/package/obo/ncit_completions.sublime-completions.gz b/package/obo/ncit_completions.sublime-completions.gz
diff --git a/package/obo/ncro_completions.sublime-completions.gz b/package/obo/ncro_completions.sublime-completions.gz
diff --git a/package/obo/oae_completions.sublime-completions.gz b/package/obo/oae_completions.sublime-completions.gz
diff --git a/package/obo/oarcs_completions.sublime-completions.gz b/package/obo/oarcs_completions.sublime-completions.gz
diff --git a/package/obo/oba_completions.sublime-completions.gz b/package/obo/oba_completions.sublime-completions.gz
diff --git a/package/obo/obcs_completions.sublime-completions.gz b/package/obo/obcs_completions.sublime-completions.gz
diff --git a/package/obo/obi_completions.sublime-completions.gz b/package/obo/obi_completions.sublime-completions.gz
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diff --git a/package/obo/ogg_completions.sublime-completions.gz b/package/obo/ogg_completions.sublime-completions.gz
diff --git a/package/obo/ogi_completions.sublime-completions.gz b/package/obo/ogi_completions.sublime-completions.gz
diff --git a/package/obo/ogms_completions.sublime-completions.gz b/package/obo/ogms_completions.sublime-completions.gz
diff --git a/package/obo/ogsf_completions.sublime-completions.gz b/package/obo/ogsf_completions.sublime-completions.gz
diff --git a/package/obo/ohd_completions.sublime-completions.gz b/package/obo/ohd_completions.sublime-completions.gz
diff --git a/package/obo/ohmi_completions.sublime-completions.gz b/package/obo/ohmi_completions.sublime-completions.gz
diff --git a/package/obo/olatdv_completions.sublime-completions.gz b/package/obo/olatdv_completions.sublime-completions.gz
diff --git a/package/obo/omiabis_completions.sublime-completions.gz b/package/obo/omiabis_completions.sublime-completions.gz
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diff --git a/package/obo/omrse_completions.sublime-completions.gz b/package/obo/omrse_completions.sublime-completions.gz
diff --git a/package/obo/ontoneo_completions.sublime-completions.gz b/package/obo/ontoneo_completions.sublime-completions.gz
diff --git a/package/obo/oostt_completions.sublime-completions.gz b/package/obo/oostt_completions.sublime-completions.gz
diff --git a/package/obo/opl_completions.sublime-completions.gz b/package/obo/opl_completions.sublime-completions.gz
diff --git a/package/obo/ordo_completions.sublime-completions.gz b/package/obo/ordo_completions.sublime-completions.gz
diff --git a/package/obo/ovae_completions.sublime-completions.gz b/package/obo/ovae_completions.sublime-completions.gz
diff --git a/package/obo/pato_completions.sublime-completions.gz b/package/obo/pato_completions.sublime-completions.gz
diff --git a/package/obo/pco_completions.sublime-completions.gz b/package/obo/pco_completions.sublime-completions.gz
diff --git a/package/obo/pdro_completions.sublime-completions.gz b/package/obo/pdro_completions.sublime-completions.gz
diff --git a/package/obo/pdumdv_completions.sublime-completions.gz b/package/obo/pdumdv_completions.sublime-completions.gz
diff --git a/package/obo/plana_completions.sublime-completions.gz b/package/obo/plana_completions.sublime-completions.gz
diff --git a/package/obo/po_completions.sublime-completions.gz b/package/obo/po_completions.sublime-completions.gz
diff --git a/package/obo/poro_completions.sublime-completions.gz b/package/obo/poro_completions.sublime-completions.gz
diff --git a/package/obo/ppo_completions.sublime-completions.gz b/package/obo/ppo_completions.sublime-completions.gz
diff --git a/package/obo/pr_completions.sublime-completions.gz b/package/obo/pr_completions.sublime-completions.gz
diff --git a/package/obo/probonto_completions.sublime-completions.gz b/package/obo/probonto_completions.sublime-completions.gz
diff --git a/package/obo/pw_completions.sublime-completions.gz b/package/obo/pw_completions.sublime-completions.gz
diff --git a/package/obo/reto_completions.sublime-completions.gz b/package/obo/reto_completions.sublime-completions.gz
diff --git a/package/obo/rex_completions.sublime-completions.gz b/package/obo/rex_completions.sublime-completions.gz
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diff --git a/package/obo/ro_completions.sublime-completions.gz b/package/obo/ro_completions.sublime-completions.gz
diff --git a/package/obo/rs_completions.sublime-completions.gz b/package/obo/rs_completions.sublime-completions.gz
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diff --git a/package/obo/scdo_completions.sublime-completions.gz b/package/obo/scdo_completions.sublime-completions.gz
diff --git a/package/obo/sep_completions.sublime-completions.gz b/package/obo/sep_completions.sublime-completions.gz
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diff --git a/package/obo/so_completions.sublime-completions.gz b/package/obo/so_completions.sublime-completions.gz
diff --git a/package/obo/spd_completions.sublime-completions.gz b/package/obo/spd_completions.sublime-completions.gz
diff --git a/package/obo/stato_completions.sublime-completions.gz b/package/obo/stato_completions.sublime-completions.gz
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diff --git a/package/obo/symp_completions.sublime-completions.gz b/package/obo/symp_completions.sublime-completions.gz
diff --git a/package/obo/tads_completions.sublime-completions.gz b/package/obo/tads_completions.sublime-completions.gz
diff --git a/package/obo/taxrank_completions.sublime-completions.gz b/package/obo/taxrank_completions.sublime-completions.gz
diff --git a/package/obo/teddy_completions.sublime-completions.gz b/package/obo/teddy_completions.sublime-completions.gz
diff --git a/package/obo/tgma_completions.sublime-completions.gz b/package/obo/tgma_completions.sublime-completions.gz
diff --git a/package/obo/to_completions.sublime-completions.gz b/package/obo/to_completions.sublime-completions.gz
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diff --git a/package/obo/uberon_completions.sublime-completions.gz b/package/obo/uberon_completions.sublime-completions.gz
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diff --git a/package/obo/wbls_completions.sublime-completions.gz b/package/obo/wbls_completions.sublime-completions.gz
diff --git a/package/obo/wbphenotype_completions.sublime-completions.gz b/package/obo/wbphenotype_completions.sublime-completions.gz
diff --git a/package/obo/xao_completions.sublime-completions.gz b/package/obo/xao_completions.sublime-completions.gz
diff --git a/package/obo/xco_completions.sublime-completions.gz b/package/obo/xco_completions.sublime-completions.gz
diff --git a/package/obo/zeco_completions.sublime-completions.gz b/package/obo/zeco_completions.sublime-completions.gz
diff --git a/package/obo/zfa_completions.sublime-completions.gz b/package/obo/zfa_completions.sublime-completions.gz
diff --git a/package/obo/zfs_completions.sublime-completions.gz b/package/obo/zfs_completions.sublime-completions.gz
diff --git a/package/wikidata/wikidata_completions.sublime-completions b/package/wikidata/wikidata_completions.sublime-completions
diff --git a/sublime_shex_completion_generators/shex_obo_completions.py b/sublime_shex_completion_generators/shex_obo_completions.py
@@ -0,0 +1,66 @@
+from SPARQLWrapper import SPARQLWrapper, JSON
+import pprint
+import json
+import os
+import sys
+
+sparql = SPARQLWrapper("http://www.ebi.ac.uk/rdf/services/atlas/sparql")
+
+main_query = """
+PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
+PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
+PREFIX owl: <http://www.w3.org/2002/07/owl#>
+PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
+PREFIX dc: <http://purl.org/dc/elements/1.1/>
+PREFIX dcterms: <http://purl.org/dc/terms/>
+PREFIX dbpedia2: <http://dbpedia.org/property/>
+PREFIX dbpedia: <http://dbpedia.org/>
+PREFIX foaf: <http://xmlns.com/foaf/0.1/>
+PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
+
+SELECT DISTINCT  ?allOlsOntologiesGraph
+WHERE {
+<http://rdf.ebi.ac.uk/dataset/ols> dcterms:hasPart  ?allOlsOntologiesGraph  .
+}
+"""
+sparql.setQuery(main_query)
+sparql.setReturnFormat(JSON)
+results = sparql.query().convert()
+for result in results["results"]["bindings"]:
+     print(result["allOlsOntologiesGraph"]["value"])
+     shex_completions = dict()
+     shex_completions["scope"] = "source.shex"
+     shex_completions["completions"] = []
+     fn = os.path.join(os.path.dirname(__file__),
+                       "../package/obo/" + result["allOlsOntologiesGraph"]["value"].replace("http://rdf.ebi.ac.uk/dataset/",
+                                                                            "") + "_completions.sublime-completions")
+     file = open(fn, "w")
+     query = ("     PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>\n"
+              "     PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>\n"
+              "     PREFIX owl: <http://www.w3.org/2002/07/owl#>\n"
+              "     PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>\n"
+              "     PREFIX dc: <http://purl.org/dc/elements/1.1/>\n"
+              "     PREFIX dcterms: <http://purl.org/dc/terms/>\n"
+              "     PREFIX dbpedia2: <http://dbpedia.org/property/>\n"
+              "     PREFIX dbpedia: <http://dbpedia.org/>\n"
+              "     PREFIX foaf: <http://xmlns.com/foaf/0.1/>\n"
+              "     PREFIX skos: <http://www.w3.org/2004/02/skos/core#>\n"
+              "\n"
+              "     PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>\n"
+              "     SELECT ?class ?label\n"
+              "     FROM <http://rdf.ebi.ac.uk/dataset/"+result["allOlsOntologiesGraph"]["value"].replace("http://rdf.ebi.ac.uk/dataset/", "")+">"
+              "     WHERE {"
+              "          ?class rdfs:label ?label .}")
+
+     sparql.setQuery(query)
+     sparql.setReturnFormat(JSON)
+     results = sparql.query().convert()
+     for result in results["results"]["bindings"]:
+          completion = dict()
+          completion["trigger"] = result["label"]["value"]
+          completion["contents"] = result["class"]["value"].replace("http://purl.obolibrary.org/obo/", "obo:")
+          shex_completions["completions"].append(completion)
+
+     pprint.pprint(shex_completions)
+     file.write(json.dumps(shex_completions))
+     file.close()
diff --git a/sublime_shex_completion_generators/shex_wikidata_completions.py b/sublime_shex_completion_generators/shex_wikidata_completions.py
@@ -0,0 +1,35 @@
+from SPARQLWrapper import SPARQLWrapper, JSON
+import pprint
+import json
+import os
+
+sparql = SPARQLWrapper("https://query.wikidata.org/sparql")
+query = """
+SELECT ?s ?property ?propertyLabel WHERE {
+  ?property wikibase:claim ?s .
+  SERVICE wikibase:label { bd:serviceParam wikibase:language "[AUTO_LANGUAGE],en". }
+}
+"""
+shex_completions= dict()
+shex_completions["scope"] = "source.shex"
+shex_completions["completions"] = []
+
+file = open("wikidata_completions.sublime-completions", "w")
+fn = os.path.join(os.path.dirname(__file__),
+                       "../package/wikidata/wikidata_completions.sublime-completions")
+file = open(fn, "w")
+sparql.setQuery(query)
+sparql.setReturnFormat(JSON)
+results = sparql.query().convert()
+for result in results["results"]["bindings"]:
+     # { "trigger": "a", "contents": "<a href=\"$1\">$0</a>" },
+     #          { "trigger": "abbr", "contents": "<abbr>$0</abbr>" },
+     #           { "trigger": "acronym", "contents": "<acronym>$0</acronym>" }
+     completion = dict()
+     completion["trigger"] = result["propertyLabel"]["value"]
+     completion["contents"] = result["s"]["value"].replace("http://www.wikidata.org/prop/", "")
+     shex_completions["completions"].append(completion)
+
+pprint.pprint(shex_completions)
+file.write(json.dumps(shex_completions))
+file.close()
diff --git a/sublime_shex_completion_generators/wikidata_completions.sublime-completions b/sublime_shex_completion_generators/wikidata_completions.sublime-completions