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create_apis_graph_v3.py
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create_apis_graph_v3.py
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from collections import ChainMap
import enum
from itertools import chain
import os
from pathlib import Path
import shutil
import git
from prefect import flow, get_run_logger, task, unmapped
from copy import deepcopy
from datetime import datetime, timedelta
import requests
from rdflib import Graph, Literal, RDF, Namespace, URIRef
from rdflib.namespace import RDFS, XSD
from typing import Any, Tuple
from pydantic import BaseModel, DirectoryPath, Extra, Field, HttpUrl
from push_rdf_file_to_github import push_data_to_repo_flow
from push_rdf_file_to_github import Params as ParamsPush
from prefect.concurrency.sync import rate_limit
def convert_timedelta(duration):
days, seconds = duration.days, duration.seconds
hours = days * 24 + seconds // 3600
minutes = (seconds % 3600) // 60
seconds = seconds % 60
return hours, minutes, seconds
def create_time_span_tripels(kind, event_node, obj):
global g
if kind == "start":
if obj["start_date_written"] is not None:
if len(obj[f"start_date_written"]) > 0:
label_date = obj[f"start_date_written"]
if obj["end_date_written"] is not None:
if len(obj["end_date_written"]) > 0:
label_date += f" - {obj['end_date_written']}"
g.add((event_node, rdfs.label, Literal(label_date)))
if len(obj[f"{kind}_date_written"]) == 4:
# check whether only a year has bin given for the start date and add according nodes
if kind == "start":
g.add(
(
event_node,
crm.P82a_begin_of_the_begin,
(
Literal(
f"{obj[f'{kind}_date_written']}-01-01T00:00:00",
datatype=XSD.dateTime,
)
),
)
)
g.add(
(
event_node,
crm.P81a_end_of_the_begin,
(
Literal(
f"{obj[f'{kind}_date_written']}-12-31T23:59:59",
datatype=XSD.dateTime,
)
),
)
)
elif kind == "end":
g.add(
(
event_node,
crm.P82b_end_of_the_end,
(
Literal(
f"{obj[f'{kind}_date_written']}-12-31T23:59:59",
datatype=XSD.dateTime,
)
),
)
)
g.add(
(
event_node,
crm.P81b_begin_of_the_end,
(
Literal(
f"{obj[f'{kind}_date_written']}-01-01T00:00:00",
datatype=XSD.dateTime,
)
),
)
)
else:
if kind == "start":
g.add(
(
event_node,
crm.P82a_begin_of_the_begin,
(Literal(f"{obj[f'{kind}_date']}T00:00:00", datatype=XSD.dateTime)),
)
)
elif kind == "end":
g.add(
(
event_node,
crm.P82b_end_of_the_end,
(Literal(f"{obj[f'{kind}_date']}T23:59:59", datatype=XSD.dateTime)),
)
)
g.add((event_node, RDF.type, crm["E52_Time-Span"]))
return True
@task(tags=["render-rdflib"], timeout_seconds=60)
def render_personplace_relation(rel):
"""renders personplace relation as RDF graph
Args:
pers_uri (_type_): _description_
rel (_type_): _description_
g (_type_): _description_
"""
# prepare nodes
global g
place = None
place_uri = idmapis[f"place.{rel['related_place']['id']}"]
if rel["relation_type"]["id"] == 595:
# define serialization for "person born in place relations"
g.add(
(
idmapis[f"birthevent.{rel['related_person']['id']}"],
crm.P7_took_place_at,
place_uri,
)
)
rel_rendered = True
elif rel["relation_type"]["id"] == 596:
# define serialization for "person born in place relations"
g.add(
(
idmapis[f"deathevent.{rel['related_person']['id']}"],
crm.P7_took_place_at,
place_uri,
)
)
rel_rendered = True
else:
event_uri = idmapis[f"event.personplace.{rel['id']}"]
if (event_uri, None, None) not in g:
render_event(rel, "personplace", event_uri)
g.add((event_uri, crm.P7_took_place_at, place_uri))
rel_rendered = True
if (
rel_rendered
and (place_uri, None, None) not in g
and rel["related_place"]["id"] not in glob_list_entities["place"]
):
place = rel["related_place"]["id"]
glob_list_entities["place"].append(rel["related_place"]["id"])
return True
@task(tags=["render-rdflib"], timeout_seconds=60)
def render_personperson_relation(rel):
"""renders personperson relation as RDF graph
Args:
pers_uri (_type_): _description_
rel (_type_): _description_
g (_type_): _description_http://localhost:8000/apis/api/entities/person/
"""
# prepare nodes
global g
logger = get_run_logger()
family_relations = [
5870, # war Bruder von
5871, # war Schwester von
5741, # family member
5414, # war Kind von
5413, # war Elternteil von
5412, # war verwandt
5411, # war verheiratet
]
if isinstance(rel, list):
if len(rel) == 0:
logger.warning("No person-person relations found skipping rest of task")
return None
# return Exception("No person-person relations found skipping")
if rel["relation_type"]["label"] == "undefined":
logger.warning("Relation type is undefined, skipping rest of task")
# return Exception("Relation type is undefined, skipping")
person = None
pers_uri = idmapis[f"personproxy.{rel['related_personA']['id']}"]
n_rel_type = idmapis[f"personrelation.{rel['id']}"]
n_relationtype = idmrelations[f"{rel['relation_type']['id']}"]
if rel["relation_type"]["id"] in family_relations:
g.add((pers_uri, bioc.has_family_relation, n_rel_type))
else:
g.add((pers_uri, bioc.has_person_relation, n_rel_type))
g.add((n_rel_type, RDF.type, n_relationtype))
g.add(
(n_rel_type, RDFS.label, Literal(f"{rel['relation_type']['label']}", lang="de"))
)
g.add(
(
idmapis[f"personproxy.{rel['related_personB']['id']}"],
bioc.bearer_of,
n_rel_type,
)
)
if rel["related_personB"]["id"] not in glob_list_entities["person"]:
glob_list_entities["person"].append(rel["related_personB"]["id"])
# g.add(n_rel_type, bioc.bearer_of, (URIRef(
# f"{idmapis}personproxy/{rel['related_personB']['id']}")))
# TODO: add hiarachy of person relations
if rel["relation_type"] is not None:
if rel["relation_type"]["parent_id"] is not None:
g.add(
(
n_relationtype,
RDFS.subClassOf,
idmrelations[f"{rel['relation_type']['parent_id']}"],
)
)
if rel["relation_type"]["id"] in family_relations:
g.add(
(
idmrelations[f"{rel['relation_type']['parent_id']}"],
RDFS.subClassOf,
bioc.Family_Relationship_Role,
)
)
else:
g.add(
(
idmrelations[f"{rel['relation_type']['parent_id']}"],
RDFS.subClassOf,
bioc.Person_Relationship_Role,
)
)
else:
if rel["relation_type"]["id"] in family_relations:
g.add(
(
idmrelations[f"{rel['relation_type']['id']}"],
RDFS.subClassOf,
bioc.Family_Relationship_Role,
)
)
else:
g.add(
(
idmrelations[f"{rel['relation_type']['id']}"],
RDFS.subClassOf,
bioc.Person_Relationship_Role,
)
)
else:
if rel["relation_type"]["id"] in family_relations:
g.add((n_relationtype, RDFS.subClassOf, bioc.Family_Relationship_Role))
else:
g.add((n_relationtype, RDFS.subClassOf, bioc.Person_Relationship_Role))
logger.info(f" personpersonrelation serialized for: {rel['related_personA']['id']}")
# return g
# group which is part of this relation
return True
@task(tags=["render-rdflib"], timeout_seconds=60)
def render_personrole_from_relation(rel):
"""renders personrole as RDF graph
Args:
pers_uri (_type_): _description_
role (_type_): _description_
g (_type_): _description_
"""
# prepare nodes
global g
logger = get_run_logger()
if (
idmapis[f"personrole.{rel['relation_type']['id']}"],
None,
None,
) not in g:
for k in rel.keys():
if k.startswith("related_"):
if k.split("_")[1] != "person":
role = rel["relation_type"]
second_entity = k.split("_")[1]
else:
logger.info("personrole already in graph")
return None
label = "label"
if "label" not in role:
label = "name"
parent = "parent_id"
if "parent_id" not in role:
parent = "parent_class"
n_role = idmapis[f"personrole.{role['id']}"]
g.add((n_role, RDFS.label, Literal(f"{role[label]}", lang="de")))
if role[parent] is not None:
if "parent_id" in role:
p_id = role["parent_id"]
else:
p_id = role["parent_class"]["id"]
if (idmapis[f"personrole.{p_id}"], None, None) not in g:
if f"person{second_entity}relation" not in glob_list_vocabs:
glob_list_vocabs[f"person{second_entity}relation"] = []
glob_list_vocabs[f"person{second_entity}relation"].append(p_id)
return True
else:
g.add((n_role, RDF.type, bioc.Actor_Role))
return True
@task(tags=["render-rdflib"], timeout_seconds=60)
def render_personrole(role):
global g
logger = get_run_logger()
if role is None:
logger.warning("No role given")
return None
if (idmapis[f"personrole.{role['id']}"], None, None) in g:
logger.info("personrole already in graph")
return True
n_role = idmapis[f"personrole.{role['id']}"]
g.add((n_role, RDFS.label, Literal(f"{role['name']}", lang="de")))
if role["parent_class"] is not None:
if (
idmapis[f"personrole.{role['parent_class']['id']}"],
None,
None,
) not in g:
logger.warning(f"parent role not in graph")
if role["url"].split("/")[-3] not in glob_list_vocabs:
glob_list_vocabs[role["url"].split("/")[-3]] = []
glob_list_vocabs[role["url"].split("/")[-3]].append(
role["parent_class"]["id"]
)
return True
else:
g.add((n_role, RDF.type, bioc.Actor_Role))
return True
@task(tags=["render-rdflib"], timeout_seconds=60)
def render_personinstitution_relation(rel: dict) -> Tuple[Graph, Any]:
global g
logger = get_run_logger()
pers_uri = idmapis[f"personproxy.{rel['related_person']['id']}"]
inst = None
# connect personproxy and institutions with grouprelationship
n_rel_type = idmapis[f"grouprelation.{rel['id']}"]
g.add((pers_uri, bioc.has_group_relation, n_rel_type))
# Person has a specific group relation
g.add(
(
n_rel_type,
RDF.type,
idmapis[f"grouprole.{rel['relation_type']['id']}"],
)
)
# define type of grouprelation
if rel["relation_type"]["parent_id"] is not None:
# if the relationtype has a superclass, it is added here
g.add(
(
idmapis[f"grouprole.{rel['relation_type']['id']}"],
rdfs.subClassOf,
idmapis[f"grouprole.{rel['relation_type']['parent_id']}"],
)
)
g.add((n_rel_type, rdfs.label, Literal(rel["relation_type"]["label"], lang="de")))
# add label to relationtype
g.add(
(
n_rel_type,
bioc.inheres_in,
idmapis[f"groupproxy.{rel['related_institution']['id']}"],
)
)
# g.add((URIRef(
# f"{idmapis}groupproxy/{rel['related_institution']['id']}"), bioc.bearer_of, n_rel_type))
# group which is part of this relation
g.add((idmapis[f"career.{rel['id']}"], RDF.type, idmcore.Career))
# add career event of type idmcore:career
g.add(
(
idmcore.Career,
rdfs.subClassOf,
crm.E5_Event,
)
)
g.add(
(
idmapis[f"career.{rel['id']}"],
rdfs.label,
Literal(
f"{rel['related_person']['label']} {rel['relation_type']['label']} {rel['related_institution']['label']}",
lang="de",
),
)
)
# label for career event
g.add(
(
idmapis[f"career.{rel['id']}"],
bioc.had_participant_in_role,
idmapis[f"personrole.{rel['id']}.{rel['related_person']['id']}"],
)
)
# role of participating person in the career event
g.add(
(
idmapis[f"personproxy.{rel['related_person']['id']}"],
bioc.bearer_of,
idmapis[f"personrole.{rel['id']}.{rel['related_person']['id']}"],
)
)
g.add(
(
idmapis[f"personrole.{rel['id']}.{rel['related_person']['id']}"],
RDF.type,
idmapis[f"personrole.{rel['relation_type']['id']}"],
)
)
if rel["relation_type"]["parent_id"] is not None:
g.add(
(
idmapis[f"personrole.{rel['relation_type']['id']}"],
RDF.type,
idmapis[f"personrole.{rel['relation_type']['parent_id']}"],
)
)
# person which inheres this role
g.add(
(
idmapis[f"career.{rel['id']}"],
bioc.had_participant_in_role,
idmapis[f"grouprole.{rel['id']}.{rel['related_institution']['id']}"],
)
)
# role of institution/ group in the career event
g.add(
(
idmapis[f"grouprole.{rel['id']}.{rel['related_institution']['id']}"],
RDF.type,
bioc.Group_Relationship_Role,
)
)
g.add(
(
idmapis[f"grouprole.{rel['id']}.{rel['related_institution']['id']}"],
bioc.inheres_in,
idmapis[f"groupproxy.{rel['related_institution']['id']}"],
)
)
# role which inheres the institution/ group
if (
idmapis[f"groupproxy.{rel['related_institution']['id']}"],
None,
None,
) not in g:
if rel["related_institution"]["id"] not in glob_list_entities["institution"]:
inst = rel["related_institution"]["id"]
glob_list_entities["institution"].append(rel["related_institution"]["id"])
if rel["start_date"] is not None or rel["end_date"] is not None:
g.add(
(
idmapis[f"career.{rel['id']}"],
URIRef(f"{crm}P4_has_time-span"),
idmapis[f"career.timespan.{rel['id']}"],
)
)
for rel_plcs in g.objects(
idmapis[f"groupproxy.{rel['related_institution']['id']}"],
crm.P74_has_current_or_former_residence,
):
g.add((idmapis[f"career.{rel['id']}"], crm.P7_took_place_at, rel_plcs))
logger.info(
f" personinstitutionrelation serialized for: {rel['related_person']['id']}"
)
if rel["start_date"] is not None:
create_time_span_tripels("start", idmapis[f"career.timespan.{rel['id']}"], rel)
if rel["end_date"] is not None:
create_time_span_tripels("end", idmapis[f"career.timespan.{rel['id']}"], rel)
""" if (rel['start_date'] is not None) and (rel['end_date'] is not None):
g.add((URIRef(f"{idmapis}career/timespan/{rel['id']}"), crm.P82a_begin_of_the_begin, (Literal(
rel['start_date']+'T00:00:00', datatype=XSD.dateTime))))
g.add((URIRef(f"{idmapis}career/timespan/{rel['id']}"), crm.P82b_end_of_the_end, (Literal(
rel['end_date']+'T23:59:59', datatype=XSD.dateTime))))
g.add((URIRef(f"{idmapis}career/timespan/{rel['id']}"), rdfs.label, Literal(
rel['start_date_written'])+' - ' + rel['end_date_written']))
elif ((rel['start_date'] is not None) and (rel['end_date'] is not None)):
g.add((URIRef(f"{idmapis}career/timespan/{rel['id']}"), crm.P82a_begin_of_the_begin, (Literal(
rel['start_date']+'T00:00:00', datatype=XSD.dateTime))))
g.add((URIRef(
f"{idmapis}career/timespan/{rel['id']}"), rdfs.label, Literal(rel['start_date_written'])))
elif ((rel['start_date'] is not None) and (rel['end_date'] is not None)):
g.add((URIRef(f"{idmapis}career/timespan/{rel['id']}"), crm.P82b_end_of_the_end, (Literal(
rel['end_date']+'T23:59:59', datatype=XSD.dateTime))))
g.add((URIRef(f"{idmapis}career/timespan/{rel['id']}"), rdfs.label, Literal(
'time-span end:' + rel['end_date_written']))) """
return True
@task(tags=["render-rdflib"], timeout_seconds=60)
def render_person(person):
"""renders person object as RDF graph
Args:
person (_type_): _description_
g (_type_): _description_
"""
# pers_uri = URIRef(idmapis + f"personproxy/{person['id']}")
global g
pers_uri = idmapis[f"personproxy.{person['id']}"]
if (pers_uri, None, None) in g:
return True
g.add((pers_uri, RDF.type, crm.E21_Person))
g.add((pers_uri, RDF.type, idmcore.Person_Proxy))
g.add(
(
pers_uri,
RDFS.label,
Literal(f"{person['first_name']} {person['name']}", lang="de"),
)
)
# define that individual in APIS named graph and APIS entity are the same
g.add((pers_uri, owl.sameAs, URIRef(f"{base_uri}/entity/{person['id']}")))
# add sameAs
# add appellations
node_main_appellation = idmapis[f"appellation.label.{person['id']}"]
g.add((node_main_appellation, RDF.type, crm.E33_E41_Linguistic_Appellation))
g.add(
(
node_main_appellation,
RDFS.label,
Literal(
f"{person['name'] if person['name'] is not None else '-'}, {person['first_name'] if person['first_name'] is not None else '-'}",
lang="de",
),
)
)
g.add((pers_uri, crm.P1_is_identified_by, node_main_appellation))
if person["first_name"] is not None:
node_first_name_appellation = idmapis[f"appellation.first_name.{person['id']}"]
g.add(
(node_first_name_appellation, RDF.type, crm.E33_E41_Linguistic_Appellation)
)
g.add(
(
node_first_name_appellation,
RDFS.label,
Literal(person["first_name"], lang="de"),
)
)
g.add(
(node_main_appellation, crm.P148_has_component, node_first_name_appellation)
)
if person["name"] is not None:
node_last_name_appellation = idmapis[f"appellation.last_name.{person['id']}"]
g.add(
(node_last_name_appellation, RDF.type, crm.E33_E41_Linguistic_Appellation)
)
g.add(
(node_last_name_appellation, RDFS.label, Literal(person["name"], lang="de"))
)
g.add(
(node_main_appellation, crm.P148_has_component, node_last_name_appellation)
)
if person["start_date"] is not None:
node_birth_event = idmapis[f"birthevent.{person['id']}"]
node_role = idmapis[f"born_person.{person['id']}"]
node_role_class = idmrole[f"born_person"]
node_time_span = idmapis[f"birth.timespan.{person['id']}"]
g.add((node_role, bioc.inheres_in, pers_uri))
g.add((node_role, RDF.type, node_role_class))
g.add((node_role_class, rdfs.subClassOf, bioc.Event_Role))
g.add((node_birth_event, bioc.had_participant_in_role, node_role))
g.add((node_birth_event, RDF.type, crm.E67_Birth))
g.add(
(
node_birth_event,
RDFS.label,
Literal(f"Birth of {person['first_name']} {person['name']}"),
)
)
g.add((node_birth_event, crm["P4_has_time-span"], node_time_span))
g.add((node_birth_event, crm.P98_brought_into_life, pers_uri))
create_time_span_tripels("start", node_time_span, person)
if person["end_date"] is not None:
node_death_event = idmapis[f"deathevent.{person['id']}"]
node_role = idmapis[f"deceased_person.{person['id']}"]
node_role_class = idmrole["deceased_person"]
node_time_span = idmapis[f"death.timespan.{person['id']}"]
g.add((node_role, bioc.inheres_in, pers_uri))
g.add((node_role, RDF.type, node_role_class))
g.add((node_role_class, rdfs.subClassOf, bioc.Event_Role))
g.add((node_death_event, bioc.had_participant_in_role, node_role))
g.add((node_death_event, RDF.type, crm.E69_Death))
g.add(
(
node_death_event,
RDFS.label,
Literal(f"Death of {person['first_name']} {person['name']}", lang="de"),
)
)
g.add((node_death_event, crm["P4_has_time-span"], node_time_span))
g.add((node_death_event, crm.P100_was_death_of, pers_uri))
create_time_span_tripels("end", node_time_span, person)
for prof in person["profession"]:
prof_node = idmapis[f"occupation.{prof['id']}"]
g.add((pers_uri, bioc.has_occupation, prof_node))
g.add((prof_node, rdfs.label, Literal(prof["label"], lang="de")))
if prof["parent_id"] is not None:
parent_prof_node = idmapis[f"occupation.{prof['parent_id']}"]
g.add((prof_node, rdfs.subClassOf, parent_prof_node))
g.add((prof_node, rdfs.subClassOf, bioc.Occupation))
else:
g.add((prof_node, rdfs.subClassOf, bioc.Occupation))
if person["gender"] is not None:
if len(person["gender"]) > 0:
g.add((pers_uri, bioc.has_gender, bioc[person["gender"].capitalize()]))
for uri in person["sameAs"]:
g.add((pers_uri, owl.sameAs, URIRef(uri)))
if "text" in person:
if len(person["text"]) > 1:
g.add(
(
pers_uri,
idmcore.bio_link,
idmapis[f"text.{person['id']}.bio"],
)
)
g.add(
(
idmapis[f"text.{person['id']}.bio"],
idmcore.full_bio_link,
URIRef(person["text"][0]["url"]),
)
)
g.add(
(
idmapis[f"text.{person['id']}.bio"],
idmcore.short_bio_link,
URIRef(person["text"][1]["url"]),
)
)
# add occupations
# person_rel = await get_person_relations(person['id'], kinds=['personinstitution', 'personperson', 'personplace'])
# tasks = []
# for rel_type, rel_list in person_rel.items():
# if rel_type == 'personinstitution':
# for rel in rel_list:
# tasks.append(asyncio.create_task(
# render_personinstitution_relation(pers_uri, rel, g)))
# elif rel_type == 'personperson':
# for rel in rel_list:
# tasks.append(asyncio.create_task(
# render_personperson_relation(pers_uri, rel, g)))
# elif rel_type == 'personplace':
# for rel in rel_list:
# tasks.append(asyncio.create_task(
# render_personplace_relation(pers_uri, rel, g)))
# await asyncio.gather(*tasks)
return True
@task(tags=["render-rdflib"], timeout_seconds=60)
def render_organizationplace_relation(rel):
global g
place = None
node_org = idmapis[f"groupproxy.{rel['related_institution']['id']}"]
if (
idmapis[f"place.{rel['related_place']['id']}"],
None,
None,
) not in g and rel[
"related_place"
]["id"] not in glob_list_entities["place"]:
place = rel["related_place"]["id"]
glob_list_entities["place"].append(place)
g.add(
(
node_org,
crm.P74_has_current_or_former_residence,
idmapis[f"place.{rel['related_place']['id']}"],
)
)
return True
@task(tags=["render-rdflib"], timeout_seconds=60)
def render_organization(organization):
"""renders organization object as RDF graph
Args:
organization (_type_): _description_
g (_type_): _description_
"""
global g
# res = await get_entity(organization, "institution")
# res_relations = await get_organization_relations(organization, ["institutionplace"])
# setup basic nodes
node_org = idmapis[f"groupproxy.{organization['id']}"]
appelation_org = idmapis[f"groupappellation.{organization['id']}"]
# connect Group Proxy and person in named graphbgn:BioDes
g.add((node_org, RDF.type, crm.E74_Group))
g.add((node_org, RDF.type, idmcore.Group))
# defines group class
g.add((node_org, owl.sameAs, URIRef(f"{base_uri}/entity/{organization['id']}")))
for uri in organization["sameAs"]:
g.add((node_org, owl.sameAs, URIRef(uri)))
# defines group as the same group in the APIS dataset
g.add((node_org, crm.P1_is_identified_by, appelation_org))
g.add((appelation_org, rdfs.label, Literal(organization["name"], lang="de")))
g.add((appelation_org, RDF.type, crm.E33_E41_Linguistic_Appellation))
# add group appellation and define it as linguistic appellation
if organization["start_date_written"] is not None:
if len(organization["start_date_written"]) >= 4:
start_date_node = idmapis[f"groupstart.{organization['id']}"]
start_date_time_span = idmapis[f"groupstart.timespan.{organization['id']}"]
# print(row['institution_name'], ':', row['institution_start_date'], row['institution_end_date'], row['institution_start_date_written'], row['institution_end_date_written'])
g.add((start_date_node, RDF.type, crm.E63_Beginning_of_Existence))
g.add((start_date_node, crm.P92_brought_into_existence, node_org))
if organization["start_date"] is not None:
g.add(
(
start_date_node,
URIRef(crm + "P4_has_time-span"),
start_date_time_span,
)
)
create_time_span_tripels("start", start_date_time_span, organization)
# if len(res['start_date_written']) == 4 and res['start_end_date'] is not None:
# # check whether only a year has bin given for the start date and add according nodes
# g.add((start_date_time_span, crm.P82a_begin_of_the_begin, (Literal(
# f"{res['start_start_date']}T00:00:00", datatype=XSD.dateTime))))
# g.add((start_date_time_span, crm.P82b_end_of_the_end, (Literal(
# f"{res['start_end_date']}T23:59:59", datatype=XSD.dateTime))))
# else:
# g.add((start_date_time_span, crm.P82a_begin_of_the_begin, (Literal(
# f"{res['start_date']}T00:00:00", datatype=XSD.dateTime))))
# g.add((start_date_time_span, crm.P82b_end_of_the_end, (Literal(
# f"{res['start_date']}T23:59:59", datatype=XSD.dateTime))))
if organization["end_date_written"] is not None:
if len(organization["end_date_written"]) >= 4:
end_date_node = idmapis[f"groupend.{organization['id']}"]
end_date_time_span = idmapis[f"groupend.timespan.{organization['id']}"]
# print(row['institution_name'], ':', row['institution_start_date'], row['institution_end_date'], row['institution_start_date_written'], row['institution_end_date_written'])
g.add((end_date_node, RDF.type, crm.E64_End_of_Existence))
g.add((end_date_node, crm.P93_took_out_of_existence, node_org))
if organization["end_date"] is not None:
g.add(
(
end_date_node,
URIRef(crm + "P4_has_time-span"),
end_date_time_span,
)
)
create_time_span_tripels("end", end_date_time_span, organization)
# if len(res['end_date_written']) == 4 and res['end_end_date'] is not None:
# # check whether only a year has bin given for the start date and add according nodes
# g.add((end_date_time_span, crm.P82a_begin_of_the_begin, (Literal(
# f"{res['end_start_date']}T00:00:00", datatype=XSD.dateTime))))
# g.add((end_date_time_span, crm.P82b_end_of_the_end, (Literal(
# f"{res['end_end_date']}T23:59:59", datatype=XSD.dateTime))))
# else:
# g.add((end_date_time_span, crm.P82a_begin_of_the_begin, (Literal(
# f"{res['end_date']}T00:00:00", datatype=XSD.dateTime))))
# g.add((end_date_time_span, crm.P82b_end_of_the_end, (Literal(
# f"{res['end_date']}T23:59:59", datatype=XSD.dateTime))))
return True
def render_event(event, event_type, node_event):
"""renders event object as RDF graph
Args:
event (_type_): _description_
g (_type_): _description_
"""
# prepare basic node types
# node_event = URIRef(f"{idmapis}{event_type}/{event['id']}")
global g
node_event_role = idmapis[f"{event_type}.eventrole.{event['id']}"]
node_pers = idmapis[f"personproxy.{event['related_person']['id']}"]
node_roletype = idmrole[f"{event['relation_type']['id']}"]
g.add((node_event_role, bioc.inheres_in, node_pers))
g.add((node_event_role, RDF.type, node_roletype))
g.add((node_roletype, rdfs.subClassOf, bioc.Event_Role))
g.add(
(node_roletype, RDFS.label, Literal(event["relation_type"]["label"], lang="de"))
)
# suggestion to add specific event role
g.add((node_event, bioc.had_participant_in_role, node_event_role))
# connect event and event role
g.add((node_event, RDF.type, crm.E5_Event))
# define crm classification
g.add(
(
node_event_role,
RDFS.label,
Literal(event["relation_type"]["label"], lang="de"),
)
)
g.add(
(
node_event,
RDFS.label,
Literal(
f"{event['related_person']['label']} {event['relation_type']['label']} {event['related_place']['label']}",
lang="de",
),
)
)
if event["start_date"] is not None:
node_timespan = idmapis[f"{event_type}.timespan.{event['id']}"]
g.add((node_event, URIRef(crm + "P4_has_time-span"), node_timespan))
# add time-span to event
create_time_span_tripels("start", node_timespan, event)
# add end of time-span
if event["end_date"] is not None:
create_time_span_tripels("end", node_timespan, event)
return True
@task(tags=["render-rdflib"], timeout_seconds=60)
def render_place(place):
"""renders place object as RDF graph
Args:
place (_type_): _description_
g (_type_): _description_
"""
# res = await get_entity(place, 'place')
# setup basic nodes
global g
if place is None:
return True
node_place = idmapis[f"place.{place['id']}"]
g.add((node_place, RDFS.label, Literal(place["name"], lang="de")))
node_appelation = idmapis[f"placeappellation.{place['id']}"]
node_plc_identifier = idmapis[f"placeidentifier.{place['id']}"]
g.add((node_place, RDF.type, crm.E53_Place))
# define place as Cidoc E53 Place
g.add((node_place, crm.P1_is_identified_by, node_appelation))
# add appellation to place
g.add((node_appelation, RDF.type, crm.E33_E41_Linguistic_Appellation))
# define appellation as linguistic appellation
g.add((node_appelation, RDFS.label, Literal(place["name"], lang="de")))
# add label to appellation
g.add((node_place, owl.sameAs, URIRef(f"{base_uri}/entity/{place['id']}")))
for uri in place["sameAs"]:
g.add((node_place, owl.sameAs, URIRef(uri)))
g.add(
(
node_place,
crm.P1_is_identified_by,
idmapis[f"placeidentifier.{place['id']}"],
)
)
# add APIS Identifier as Identifier
g.add((node_plc_identifier, RDF.type, crm.E_42_Identifier))
# define APIS Identifier as E42 Identifier (could add a class APIS-Identifier or model a Identifier Assignment Event)
g.add((node_plc_identifier, RDFS.label, Literal(place["id"])))
# add label to APIS Identifier
# define that individual in APIS named graph and APIS entity are the same
if place["lat"] is not None and place["lng"] is not None:
node_spaceprimitive = idmapis[f"spaceprimitive.{place['id']}"]
g.add((node_place, crm.P168_place_is_defined_by, node_spaceprimitive))
g.add((node_spaceprimitive, rdf.type, crm.E94_Space_Primitive))
g.add(
(
node_spaceprimitive,
crm.P168_place_is_defined_by,
Literal(
(
f"Point ( {'+' if place['lng'] > 0 else ''}{place['lng']} {'+' if place['lat'] > 0 else ''}{place['lat']} )"
),
datatype=geo.wktLiteral,
),
)
)
# define that individual in APIS named graph and APIS entity are the same
# suggestion for serialization of space primitives according to ISO 6709, to be discussed
# more place details will be added (references, source, place start date, place end date, relations to other places(?))
return True
class EntityTypeEnum(enum.Enum):
person = "person"
institution = "institution"
place = "place"
work = "work"
event = "event"
class APIEndpointsEnum(enum.Enum):
relations = "relations"
entities = "entities"
@task(retries=3, retry_delay_seconds=30, timeout_seconds=120)
def request_from_api(
url: HttpUrl | None = None,
base_url: HttpUrl = "https://apis.acdh.oeaw.ac.at",
filter_params: dict | None = None,
entity_type: EntityTypeEnum | None = None,
api_endpoint: APIEndpointsEnum = "entities",
offset: int = None,
mapped_id: int | None = None,
mapped_filter_key: str | None = None,
return_results_only: bool = False,
return_count_only: bool = False,
):
rate_limit("rate-limited-apis-api")
logger = get_run_logger()
if url is not None:
logger.info(f"Getting entities from {url}")
res = requests.get(url)
else:
url = f"{base_url}/apis/api/{api_endpoint}/{entity_type}"
logger.info(f"Getting entities from {url}")
if filter_params is None:
filter_params = {"format": "json"}
if offset is not None and "offset" not in filter_params:
filter_params["offset"] = offset
if "format" not in filter_params:
filter_params["format"] = "json"
if mapped_filter_key is not None:
filter_params[mapped_filter_key] = mapped_id
res = requests.get(url, params=filter_params)
if res.status_code == 200:
if return_count_only:
return res.json()["count"]
elif return_results_only:
return res.json()["results"]
else:
return res.json()
else:
logger.error(f"Error getting entities from {url}")
logger.error(res.status_code)
logger.error(res.text)
raise Exception(f"Error getting entities from {url}")
@task()
def create_base_graph(base_uri):
global crm
crm = Namespace("http://www.cidoc-crm.org/cidoc-crm/")
"""Defines namespace for CIDOC CRM."""
global ex
ex = Namespace("http://www.intavia.eu/")
"""Defines namespace for own ontology."""
global idmcore
idmcore = Namespace("http://www.intavia.eu/idm-core/")
"""Defines namespace for own ontology."""
global idmrole
idmrole = Namespace("http://www.intavia.eu/idm-role/")
"""Defines namespace for role ontology."""
global idmapis
idmapis = Namespace("http://www.intavia.eu/apis/")
"""Namespace for InTaVia named graph"""
global idmbibl
idmbibl = Namespace("http://www.intavia.eu/idm-bibl/")
"""Namespace for bibliographic named graph"""
global idmrelations
idmrelations = Namespace("http://www.intavia.eu/idm-relations")
"""Defines namespace for relation ontology."""
global intavia_shared
intavia_shared = Namespace("http://www.intavia.eu/shared-entities")
"""Defines namespace for relation ontology."""
global ore
ore = Namespace("http://www.openarchives.org/ore/terms/")
"""Defines namespace for schema.org vocabulary."""
global edm
edm = Namespace("http://www.europeana.eu/schemas/edm/")
"""Defines namespace for Europeana data model vocabulary."""
global owl
owl = Namespace("http://www.w3.org/2002/7/owl#")
"""Defines namespace for Europeana data model vocabulary."""
global rdf
rdf = Namespace("http://www.w3.org/1999/02/22-rdf-syntax-ns#")
"""Defines namespace for Europeana data model vocabulary."""
global xml
xml = Namespace("http://www.w3.org/XML/1998/namespace")
"""Defines namespace for Europeana data model vocabulary."""
global xsd
xsd = Namespace("http://www.w3.org/2001/XMLSchema#")
"""Defines namespace for Europeana data model vocabulary."""
global bioc
bioc = Namespace("http://ldf.fi/schema/bioc/")
"""Defines namespace for Europeana data model vocabulary."""
global rdfs
rdfs = Namespace("http://www.w3.org/2000/01/rdf-schema#")