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sql-first-import.py
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sql-first-import.py
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from __future__ import print_function
import codecs
import os
import fileinput
import sys
# Import XML parser
import xml.etree.ElementTree as ET
# Import Postgres connector
import psycopg2 as pgsql
# Portability
try:
register_namespace = ET.register_namespace
except AttributeError:
def register_namespace(prefix, uri):
ET._namespace_map[uri] = prefix
# Error printing
def warning(*objs):
print("WARN: ", *objs, file=sys.stderr)
# Get the name of a tag
def valueOf(tag):
return tag.split("}")[1][0:]
# Get the value of a term
def termOnly(term):
return term.split("#")[1][0:]
def lookup_db(db, table, var) :
# Try to select on the exact string we're inserting. If exists, then return that ID.
keys = []
values = []
for k in var.keys():
keys.append(k)
values.append(var[k])
selstr = ''.join(["SELECT id FROM ", table, " WHERE ", "=%s AND ".join(keys), "=%s LIMIT 1"])
db.execute(selstr, values)
tmp = db.fetchone()
if tmp is not None:
return tmp[0]
return insert_db(db, table, var);
# Insert into database
def insert_db(db, table, var) :
# Select didn't return any rows, so do the normal insert.
insstr = ''.join(["INSERT INTO ", table, " (", ",".join(var.keys()), ") values ( %(", ")s,%(".join(var.keys()), ")s ) RETURNING id;"])
db.execute(insstr, var)
return db.fetchone()[0]
# Update a table in the database
def update_db(db, table, var, where) :
insstr = ''.join(["UPDATE ", table, " SET (", ",".join(var.keys()), ") = ( %(", ")s,%(".join(var.keys()), ")s ) WHERE ", where, " RETURNING id;"])
db.execute(insstr, var)
return db.fetchone()[0]
# Define the namespaces to use
namespaces = { "snac" : "urn:isbn:1-931666-33-4" ,
"snac2" : "http://socialarchive.iath.virginia.edu/control/term#",
"schema" : "http://schema.org/",
"xlink" : "http://www.w3.org/1999/xlink",
"snac3" : "http://socialarchive.iath.virginia.edu/"}
# Register the namespaces
ET.register_namespace("eac-cpf", "urn:isbn:1-931666-33-4")
ET.register_namespace("snac2", "http://socialarchive.iath.virginia.edu/control/term#")
ET.register_namespace("snac", "http://socialarchive.iath.virginia.edu/")
ET.register_namespace("xlink", "http://www.w3.org/1999/xlink")
languages = {}
scripts = {}
# Connect to the postgres DB
db = pgsql.connect("host=localhost dbname=eaccpf user=snac password=snacsnac")
db_cur = db.cursor()
# Counter
i = 0
# For each file given on standard input, parse and look at
for filename in fileinput.input():
print("Parsing: ", filename.strip(), file=sys.stderr)
tree = ET.parse(filename.strip())
root = tree.getroot()
# Tables in SQL
cpf = {}
names = []
dates = []
sources = []
documents = []
occupations = []
places = []
subjects = []
nationalities = []
biogHists = []
cpf_otherids = []
cpf_history = []
cpf_relations = []
# Parse each known tag, in order. Any missing, report to the warning function.
# That way, we can keep track of all problematic or missing tags from the schema
for node in root:
tag = valueOf(node.tag)
if (tag == "control"):
# Handle control elements
for control in node:
ctag = valueOf(control.tag)
if (ctag == "recordId"):
cpf["ark_id"] = control.text
elif (ctag == "otherRecordId"):
cpf_otherids.append({'link_type': termOnly(control.get('localType')), 'other_id': control.text})
elif (ctag == "maintenanceStatus"):
cpf["maintenance_status"] = control.text
elif (ctag == "maintenanceAgency"):
cpf["maintenance_agency"] = control[0].text
elif (ctag == "languageDeclaration"):
cpf["language_code"] = control[0].get('languageCode')
languages[control[0].get('languageCode')] = control[0].text
cpf["script_code"] = control[1].get('scriptCode')
scripts[control[1].get('scriptCode')] = control[1].text
elif (ctag == "conventionDeclaration"):
cpf["conven_dec_citation"] = control[0].text
elif (ctag == "maintenanceHistory"):
for maint_event in control:
# handle each event individually
maint_history = {}
if (valueOf(maint_event.tag) == 'maintenanceEvent'):
#handle
for maint_part in maint_event:
if (valueOf(maint_part.tag) == 'eventType'):
maint_history["event_type"] = maint_part.text
elif (valueOf(maint_part.tag) == 'eventDateTime'):
maint_history["modified_time"] = maint_part.text
elif (valueOf(maint_part.tag) == 'agentType'):
maint_history["agent_type"] = maint_part.text
elif (valueOf(maint_part.tag) == 'agent'):
maint_history["agent"] = maint_part.text
elif (valueOf(maint_part.tag) == 'eventDescription'):
maint_history["description"] = maint_part.text
else:
warning("Unknown Tag: ", tag, ctag, valueOf(maint_event.tag), valueOf(maint_part.tag))
else:
warning("Unknown Tag: ", tag, ctag, valueOf(maint_event.tag))
cpf_history.append(maint_history)
elif (ctag == "sources"):
for source in control:
sources.append({'source_type': source.get('{http://www.w3.org/1999/xlink}type'), 'href': source.get('{http://www.w3.org/1999/xlink}href')});
# TODO: what about the full text of the source?
else:
warning("Unknown Tag: ", tag, ctag)
elif (tag == "cpfDescription"):
# Handle cpfDescription
for desc in node:
dtag = valueOf(desc.tag)
if (dtag == "identity"):
for ident in desc:
itag = valueOf(ident.tag)
if (itag == "entityType"):
cpf["entity_type"] = ident.text
elif(itag == "nameEntry"):
# convention: first name in the name table is the preferred name
# language, preference_score, authorized_form,original, corporate_name,
# contributor[{contributor, name_type}]
name = {}
name_contrib = []
name["preference_score"] = ident.get("{http://socialarchive.iath.virginia.edu/}preferenceScore")
for name_part in ident:
if (valueOf(name_part.tag) == "part"):
name["original"] = name_part.text
elif (valueOf(name_part.tag) == "alternativeForm" or
valueOf(name_part.tag) == "authorizedForm"):
name_contrib.append({"contributor":name_part.text, "name_type":valueOf(name_part.tag)})
else:
warning("Unknown Tag: ", tag, dtag, itag, valueOf(name_part.tag))
name["contributor"] = name_contrib
names.append(name)
else:
warning("Unknown Tag: ", tag, dtag, itag, valueOf(name_part.tag))
elif (dtag == "description"):
for description in desc:
d2tag = valueOf(description.tag)
if (d2tag == "existDates"):
for edates in description:
if (valueOf(edates.tag) == "dateRange"):
date = {}
date["is_range"] = True
if (valueOf(edates[0].tag) == "fromDate"):
if (edates[0].text is not None):
stddate = edates[0].get("standardDate")
if stddate[:1] == "-":
date["from_bc"] = True
stddate = stddate[1:]
date["from_date"] = stddate
date["from_original"] = edates[0].text
date["from_type"] = termOnly(edates[0].get("localType"))
if (len(edates) > 1 and valueOf(edates[1].tag) == "toDate" and edates[1].text is not None):
stddate = edates[1].get("standardDate")
if stddate[:1] == "-":
date["to_bc"] = True
stddate = stddate[1:]
date["to_date"] = stddate
date["to_original"] = edates[1].text
date["to_type"] = termOnly(edates[1].get("localType"))
elif (valueOf(edates[0].tag) == "toDate"):
if (edates[0].text is not None):
stddate = edates[0].get("standardDate")
if stddate[:1] == "-":
date["to_bc"] = True
stddate = stddate[1:]
date["to_date"] = stddate
date["to_original"] = edates[0].text
date["to_type"] = termOnly(edates[0].get("localType"))
else:
warning("Unknown Tag: ", tag, dtag, d2tag, valueOf(edates.tag), valueOf(edates[0].tag))
dates.append(date)
elif (valueOf(edates.tag) == "date"):
date = {}
date["is_range"] = False
date["from_date"] = edates.get("standardDate")
date["from_original"] = edates.text
date["from_type"] = termOnly(edates.get("localType"))
dates.append(date)
else:
warning("Unknown Tag: ", tag, dtag, d2tag, valueOf(edates.tag))
elif (d2tag == "place"):
#TODO Handle place tags and snac:placeEntry items
None
elif (d2tag == "localDescription"):
if (termOnly(description.get("localType")) == "AssociatedSubject"):
subjects.append(description[0].text)
if (len(description) > 1):
warning("Unknown Tag: ", tag, dtag, d2tag, description[1].tag)
elif (termOnly(description.get("localType")) == "nationalityOfEntity"):
nationalities.append(description[0].text)
if (len(description) > 1):
warning("Unknown Tag: ", tag, dtag, d2tag, description[1].tag)
elif (termOnly(description.get("localType")) == "gender"):
cpf["gender"] = description[0].text
if (len(description) > 1):
warning("Unknown Tag: ", tag, dtag, d2tag, description[1].tag)
else:
warning("Unknown Attribute: ", tag, dtag, d2tag, "localType = ", description.get("localType"))
elif (d2tag == "languageUsed"):
for lang in description:
if (valueOf(lang.tag) == "language"):
cpf["language_used"] = lang.get("languageCode")
elif (valueOf(lang.tag) == "script"):
cpf["script_used"] = lang.get("scriptCode")
else:
warning("Unknown Tag: ", tag, dtag, d2tag, lang.tag)
elif (d2tag == "occupation"):
occupations.append(description[0].text)
if (len(description) > 1):
warning("Unknown Tag: ", tag, dtag, d2tag, description[1].tag)
elif (d2tag == "biogHist"):
biogHists.append(ET.tostring(description, encoding="UTF-8"))
elif (dtag == "relations"):
for rel in desc:
rtag = valueOf(rel.tag)
if (rtag == "cpfRelation"):
relation = {}
if (len(rel) > 1):
warning("Unknown Tag: ", tag, dtag, d2tag, description[1].tag)
relation["relation_type"] = termOnly(rel.get("{http://www.w3.org/1999/xlink}arcrole"))
relation["relation_ark_id"] = rel.get("{http://www.w3.org/1999/xlink}href")
relation["relation_other_type"] = termOnly(rel.get("{http://www.w3.org/1999/xlink}role"))
if (len(rel) > 0):
relation["relation_entry"] = rel[0].text
else:
relation["relation_entry"] = ""
cpf_relations.append(relation)
elif (rtag == "resourceRelation"):
relation = {}
relation["document_role"] = termOnly(rel.get("{http://www.w3.org/1999/xlink}arcrole"))
relation["href"] = rel.get("{http://www.w3.org/1999/xlink}href")
relation["document_type"] = termOnly(rel.get("{http://www.w3.org/1999/xlink}role"))
relation["link_type"] = rel.get("{http://www.w3.org/1999/xlink}type")
for relitem in rel:
if (valueOf(relitem.tag) == "relationEntry"):
relation["name"] = relitem.text
elif (valueOf(relitem.tag) == "objectXMLWrap"):
relation["xml_source"] = ET.tostring(relitem, encoding="UTF-8")
elif (valueOf(relitem.tag) == "descriptiveNote"):
relation["notes"] = ET.tostring(relitem, encoding="UTF-8")
else:
warning("Unknown Tag: ", tag, dtag, rtag, relitem.tag)
documents.append(relation)
else:
warning("Unknown Tag: ", tag, dtag, rtag)
else:
warning("Unknown Tag: ", tag, dtag)
else:
warning("Unknown Tag: ", tag)
# DB interactions:
# db_cur.execute("SQL STATEMENT %(name)s", {name:"blah",...})
# db_cur.execute("SQL STATEMENT %s, %s", ("first", "second"))
# INSERT INTO table (var, var) VALUES (%s, %s);
# TODO Handle the following data
#print("PLACES", places)
#print("RELS", cpf_relations)
# Create CPF record in database and get ID, returns id
# Lookup the types that need to be changed
if "entity_type" in cpf:
cpf["entity_type"] = lookup_db(db_cur, "vocabulary", {'type':'entity_type','value':cpf["entity_type"]})
if "gender" in cpf:
cpf["gender"] = lookup_db(db_cur, "vocabulary", {'type':'gender','value':cpf["gender"]})
if "language_code" in cpf:
cpf["language_code"] = lookup_db(db_cur, "vocabulary", {'type':'language_code','value':cpf["language_code"]})
if "script_code" in cpf:
cpf["script_code"] = lookup_db(db_cur, "vocabulary", {'type':'script_code','value':cpf["script_code"]})
if "language_used" in cpf:
cpf["language_used"] = lookup_db(db_cur, "vocabulary", {'type':'language_code','value':cpf["language_used"]})
if "script_used" in cpf:
cpf["script_used"] = lookup_db(db_cur, "vocabulary", {'type':'script_code','value':cpf["script_used"]})
if "maintenance_status" in cpf:
cpf["maintenance_status"] = lookup_db(db_cur, "vocabulary", {'type':'script_code','value':cpf["maintenance_status"]})
cpfid = insert_db(db_cur, "cpf", cpf)
print(" This record given PostgreSQL CPF_ID: ", cpfid)
#cpfid = 0 # temporary
for date_entry in dates:
date_entry["cpf_id"] = cpfid
if "to_type" in date_entry:
date_entry["to_type"] = lookup_db(db_cur, "vocabulary", {'type':'date_type','value':date_entry["to_type"]})
if "from_type" in date_entry:
date_entry["from_type"] = lookup_db(db_cur, "vocabulary", {'type':'date_type','value':date_entry["from_type"]})
insert_db(db_cur, "dates", date_entry)
for source in sources:
if "source_type" in source:
source["source_type"] = lookup_db(db_cur, "vocabulary", {'type':'source_type','value':source["source_type"]})
s_id = lookup_db(db_cur, "source", {'href':source["href"]})
if s_id is None:
s_id = insert_db(db_cur, "source", source)
insert_db(db_cur, "cpf_sources", {'cpf_id':cpfid, 'source_id':s_id})
for occupation in occupations:
if occupation is not None:
o_id = lookup_db(db_cur, "vocabulary", {'type': 'occupation', 'value':occupation})
insert_db(db_cur, "cpf_occupation", {'cpf_id':cpfid, 'occupation_id':o_id})
for subject in subjects:
if subject is not None:
s_id = lookup_db(db_cur, "vocabulary", {'type':'subject', 'value':subject})
insert_db(db_cur, "cpf_subject", {'cpf_id':cpfid, 'subject_id':s_id})
for nationality in nationalities:
if nationality is not None:
n_id = lookup_db(db_cur, "vocabulary", {'type':'nationality', 'value':nationality})
insert_db(db_cur, "cpf_nationality", {'cpf_id':cpfid, 'nationality_id':n_id})
for history in cpf_history:
history["cpf_id"] = cpfid
if "event_type" in history:
history["event_type"] = lookup_db(db_cur, "vocabulary", {'type':'event_type','value':history["event_type"]})
if "agent_type" in history:
history["agent_type"] = lookup_db(db_cur, "vocabulary", {'type':'agent_type','value':history["agent_type"]})
insert_db(db_cur, "cpf_history", history)
for otherid in cpf_otherids:
otherid["cpf_id"] = cpfid
if "link_type" in otherid:
otherid["link_type"] = lookup_db(db_cur, "vocabulary", {'type':'record_type','value':otherid["link_type"]})
insert_db(db_cur, "cpf_otherids", otherid)
for document in documents:
if "document_type" in document:
document["document_type"] = lookup_db(db_cur, "vocabulary", {'type':'document_type','value':document["document_type"]})
if "document_role" in document:
document["document_role"] = lookup_db(db_cur, "vocabulary", {'type':'document_role','value':document["document_role"]})
doc_insert = {'name':document["name"],'href':document["href"],'document_type':document["document_type"]}
if document.has_key('xml_source'):
doc_insert['xml_source'] = document["xml_source"]
d_id = lookup_db(db_cur, "document", {'href':document["href"]})
insert_db(db_cur, "cpf_document", {'cpf_id':cpfid,'document_id':d_id,'document_role':document["document_role"],'link_type':document["link_type"]})
first_name = True
for name in names:
n_id = insert_db(db_cur, "name", {'cpf_id':cpfid, 'original': name["original"], 'preference_score':name["preference_score"]})
for contributor in name["contributor"]:
c_id = lookup_db(db_cur, "contributor", {'short_name': contributor["contributor"]})
if "name_type" in contributor:
contributor["name_type"] = lookup_db(db_cur, "vocabulary", {'type':'name_type','value':contributor["name_type"]})
insert_db(db_cur, "name_contributor", {'name_id':n_id, 'contributor_id':c_id, 'name_type': contributor["name_type"]})
if first_name:
# update the cpf table to have this name id
update_db(db_cur, "cpf", {'name_id':n_id}, "".join(['id=',str(cpfid)]))
first_name = False
# Handle merging biog hists to one cell
first_bh = True
bh = None
for biogHist in biogHists:
if first_bh:
bh = ET.fromstring(biogHist)
first_bh = False
else:
bh.extend(ET.fromstring(biogHist))
if bh is not None:
update_db(db_cur, "cpf", {'biog_hist': ET.tostring(bh)}, "".join(['id=',str(cpfid)]))
# Commit the changes every 1000
i = i + 1
if i % 100000 == 0:
db.commit()
print("** Completed 100000 inserts **")
db.commit()
print("====================\n", "Inserted ", i, " total records")
# Close the database connection
db_cur.close()
db.close()