first pass on generating new metadata from local
This commit is contained in:
John Krauss
parent
827104756e
commit
2a1598d491
@ -1,40 +1,67 @@
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import os
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import psycopg2
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import subprocess
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DB_CONN = psycopg2.connect('postgres://{user}:{password}@{host}:{port}/{database}'.format(
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user=os.environ.get('PGUSER', 'postgres'),
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password=os.environ.get('PGPASSWORD', ''),
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host=os.environ.get('PGHOST', 'localhost'),
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port=os.environ.get('PGPORT', '5432'),
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database=os.environ.get('PGDATABASE', 'postgres'),
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))
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CURSOR = DB_CONN.cursor()
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def query(q):
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'''
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Query the database.
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'''
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try:
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CURSOR.execute(q)
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return CURSOR
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except:
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DB_CONN.rollback()
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raise
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def commit():
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try:
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DB_CONN.commit()
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except:
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DB_CONN.rollback()
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raise
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from sqldumpr import Dumpr
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def get_tablename_query(column_id, boundary_id, timespan):
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"""
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given a column_id, boundary-id (us.census.tiger.block_group), and
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timespan, give back the current table hash from the data observatory
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"""
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q = """
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return """
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SELECT t.tablename, geoid_ct.colname colname
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FROM obs_table t,
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obs_column_table geoid_ct,
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obs_column_table data_ct
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FROM observatory.obs_table t,
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observatory.obs_column_table geoid_ct,
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observatory.obs_column_table data_ct
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WHERE
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t.id = geoid_ct.table_id AND
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t.id = data_ct.table_id AND
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geoid_ct.column_id =
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(SELECT source_id
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FROM obs_column_to_column
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FROM observatory.obs_column_to_column
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WHERE target_id = '{boundary_id}'
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AND reltype = 'geom_ref'
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) AND
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data_ct.column_id = '{column_id}' AND
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timespan = '{timespan}'
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""".replace('\n','')
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return q.format(column_id=column_id,
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""".format(column_id=column_id,
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boundary_id=boundary_id,
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timespan=timespan)
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def select_star(tablename):
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return "SELECT * FROM {}".format(tablename)
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cdb = Dumpr('observatory.cartodb.com','')
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metadata = ['obs_table', 'obs_column_table', 'obs_column', 'obs_column_tag',
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'obs_tag', 'obs_column_to_column', 'obs_dump_version', ]
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METADATA_TABLES = ['obs_table', 'obs_column_table', 'obs_column', 'obs_column_tag',
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'obs_tag', 'obs_column_to_column', 'obs_dump_version', 'obs_meta',
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'obs_meta_numer', 'obs_meta_denom', 'obs_meta_geom',
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'obs_meta_timespan', ]
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fixtures = [
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('us.census.tiger.census_tract', 'us.census.tiger.census_tract', '2014'),
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@ -52,29 +79,115 @@ fixtures = [
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('us.census.tiger.block_group_clipped', 'us.census.tiger.block_group_clipped', '2014'),
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]
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OUTFILE_PATH = 'src/pg/test/fixtures/load_fixtures.sql'
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DROPFILE_PATH = 'src/pg/test/fixtures/drop_fixtures.sql'
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def dump(cols, tablename, where=''):
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with open(DROPFILE_PATH, 'a') as dropfile:
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dropfile.write('DROP TABLE IF EXISTS observatory.{tablename};\n'.format(
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tablename=tablename,
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))
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subprocess.check_call('pg_dump -x --section=pre-data -t observatory.{tablename} '
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' | sed "s:, pg_catalog::" '
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' | sed "s:CREATE TABLE :CREATE TABLE observatory.:" '
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' | sed "s:ALTER TABLE.*OWNER.*::" '
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' >> {outfile}'.format(
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tablename=tablename,
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outfile=OUTFILE_PATH,
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), shell=True)
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with open(OUTFILE_PATH, 'a') as outfile:
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outfile.write('COPY observatory."{}" FROM stdin WITH CSV HEADER;\n'.format(tablename))
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subprocess.check_call('''
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psql -c "COPY (SELECT {cols} \
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FROM observatory.{tablename} {where}) \
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TO STDOUT WITH CSV HEADER" >> {outfile}'''.format(
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cols=cols,
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tablename=tablename,
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where=where,
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outfile=OUTFILE_PATH,
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), shell=True)
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with open(OUTFILE_PATH, 'a') as outfile:
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outfile.write('\\.\n\n')
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def main():
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unique_tables = set()
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for f in fixtures:
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column_id, boundary_id, timespan = f
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tablename_query = get_tablename_query(*f)
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resp = cdb.query(tablename_query).json()['rows'][0]
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tablename = resp['tablename']
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colname = resp['colname']
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tablename_query = get_tablename_query(column_id, boundary_id, timespan)
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tablename, colname = query(tablename_query).fetchone()
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table_colname = (tablename, colname, boundary_id, )
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if table_colname not in unique_tables:
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print table_colname
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print(table_colname)
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unique_tables.add(table_colname)
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print unique_tables
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with open('src/pg/test/fixtures/load_fixtures.sql', 'w') as outfile:
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with open('src/pg/test/fixtures/drop_fixtures.sql', 'w') as dropfiles:
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outfile.write('SET client_min_messages TO WARNING;\n\set ECHO none\n')
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dropfiles.write('SET client_min_messages TO WARNING;\n\set ECHO none\n')
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for tablename in metadata:
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cdb.dump(select_star(tablename), tablename, outfile, schema='observatory')
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dropfiles.write('DROP TABLE IF EXISTS observatory.{};\n'.format(tablename))
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print tablename
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with open(OUTFILE_PATH, 'w') as outfile:
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outfile.write('SET client_min_messages TO WARNING;\n\\set ECHO none\n')
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outfile.write('CREATE SCHEMA IF NOT EXISTS observatory;\n\n')
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with open(DROPFILE_PATH, 'w') as dropfile:
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dropfile.write('SET client_min_messages TO WARNING;\n\\set ECHO none\n')
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for tablename in METADATA_TABLES:
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print(tablename)
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if tablename == 'obs_meta':
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where = "WHERE " + " OR ".join([
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"(numer_id, geom_id, numer_timespan) = ('{}', '{}', '{}')".format(
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numer_id, geom_id, timespan)
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for numer_id, geom_id, timespan in fixtures
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])
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elif tablename == 'obs_meta_numer':
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where = "WHERE " + " OR ".join([
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"numer_id IN ('{}', '{}')".format(numer_id, geom_id)
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for numer_id, geom_id, timespan in fixtures
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])
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elif tablename == 'obs_meta_denom':
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where = "WHERE " + " OR ".join([
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"denom_id IN ('{}', '{}')".format(numer_id, geom_id)
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for numer_id, geom_id, timespan in fixtures
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])
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elif tablename == 'obs_meta_geom':
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where = "WHERE " + " OR ".join([
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"geom_id IN ('{}', '{}')".format(numer_id, geom_id)
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for numer_id, geom_id, timespan in fixtures
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])
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elif tablename == 'obs_meta_timespan':
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where = "WHERE " + " OR ".join([
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"timespan_id = ('{}')".format(timespan)
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for numer_id, geom_id, timespan in fixtures
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])
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elif tablename == 'obs_column':
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where = "WHERE " + " OR ".join([
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"id IN ('{}', '{}')".format(numer_id, geom_id)
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for numer_id, geom_id, timespan in fixtures
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])
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elif tablename in ('obs_column_table', 'obs_column_tag'):
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where = "WHERE " + " OR ".join([
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"column_id IN ('{}', '{}')".format(numer_id, geom_id)
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for numer_id, geom_id, timespan in fixtures
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])
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elif tablename == 'obs_column_to_column':
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where = "WHERE " + " OR ".join([
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"source_id IN ('{}', '{}') OR target_id IN ('{}', '{}')".format(
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numer_id, geom_id, numer_id, geom_id)
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for numer_id, geom_id, timespan in fixtures
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])
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elif tablename == 'obs_table':
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where = "WHERE " + " OR ".join([
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"timespan = '{}'".format(timespan)
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for numer_id, geom_id, timespan in fixtures
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])
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else:
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where = ''
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dump('*', tablename, where)
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for tablename, colname, boundary_id in unique_tables:
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if 'zcta5' in boundary_id:
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@ -86,128 +199,11 @@ with open('src/pg/test/fixtures/load_fixtures.sql', 'w') as outfile:
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else:
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where = '\'36047%\''
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compare = 'LIKE'
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print ' '.join([select_star(tablename), "WHERE {}::text {} {}".format(colname, compare, where)])
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cdb.dump(' '.join([select_star(tablename), "WHERE {}::text {} {}".format(colname, compare, where)]),
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tablename, outfile, schema='observatory')
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dropfiles.write('DROP TABLE IF EXISTS observatory.{};\n'.format(tablename))
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print ' '.join(['*', tablename, "WHERE {}::text {} {}".format(colname, compare, where)])
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dump('*', tablename, "WHERE {}::text {} {}".format(colname, compare, where))
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#cdb.dump(' '.join([select_star(tablename), "WHERE {}::text {} {}".format(colname, compare, where)]),
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# tablename, outfile, schema='observatory')
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#dropfiles.write('DROP TABLE IF EXISTS observatory.{};\n'.format(tablename))
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outfile.write('''
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ALTER TABLE observatory.obs_table
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ADD PRIMARY KEY (id);
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ALTER TABLE observatory.obs_column_table
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ADD PRIMARY KEY (column_id, table_id);
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CREATE UNIQUE INDEX ON observatory.obs_column_table (table_id, column_id);
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CREATE UNIQUE INDEX ON observatory.obs_column_table (table_id, colname);
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ALTER TABLE observatory.obs_column
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ADD PRIMARY KEY (id);
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ALTER TABLE observatory.obs_column_to_column
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ADD PRIMARY KEY (source_id, target_id, reltype);
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CREATE UNIQUE INDEX ON observatory.obs_column_to_column (target_id, source_id, reltype);
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CREATE INDEX ON observatory.obs_column_to_column (reltype);
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ALTER TABLE observatory.obs_column_tag
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ADD PRIMARY KEY (column_id, tag_id);
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CREATE UNIQUE INDEX ON observatory.obs_column_tag (tag_id, column_id);
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ALTER TABLE observatory.obs_tag
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ADD PRIMARY KEY (id);
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CREATE INDEX ON observatory.obs_tag (type);
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VACUUM ANALYZE observatory.obs_table;
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VACUUM ANALYZE observatory.obs_column_table;
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VACUUM ANALYZE observatory.obs_column;
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VACUUM ANALYZE observatory.obs_column_to_column;
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VACUUM ANALYZE observatory.obs_column_tag;
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VACUUM ANALYZE observatory.obs_tag;
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CREATE TABLE observatory.obs_meta AS
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SELECT numer_c.id numer_id,
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denom_c.id denom_id,
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geom_c.id geom_id,
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MAX(numer_c.name) numer_name,
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MAX(denom_c.name) denom_name,
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MAX(geom_c.name) geom_name,
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MAX(numer_c.description) numer_description,
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MAX(denom_c.description) denom_description,
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MAX(geom_c.description) geom_description,
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MAX(numer_c.aggregate) numer_aggregate,
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MAX(denom_c.aggregate) denom_aggregate,
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MAX(geom_c.aggregate) geom_aggregate,
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MAX(numer_c.type) numer_type,
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MAX(denom_c.type) denom_type,
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MAX(geom_c.type) geom_type,
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MAX(numer_data_ct.colname) numer_colname,
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MAX(denom_data_ct.colname) denom_colname,
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MAX(geom_geom_ct.colname) geom_colname,
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MAX(numer_geomref_ct.colname) numer_geomref_colname,
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MAX(denom_geomref_ct.colname) denom_geomref_colname,
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MAX(geom_geomref_ct.colname) geom_geomref_colname,
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MAX(numer_t.tablename) numer_tablename,
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MAX(denom_t.tablename) denom_tablename,
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MAX(geom_t.tablename) geom_tablename,
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MAX(numer_t.timespan) numer_timespan,
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MAX(denom_t.timespan) denom_timespan,
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MAX(numer_c.weight) numer_weight,
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MAX(denom_c.weight) denom_weight,
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MAX(geom_c.weight) geom_weight,
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MAX(geom_t.timespan) geom_timespan,
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MAX(geom_t.the_geom_webmercator)::geometry AS the_geom_webmercator,
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ARRAY_AGG(DISTINCT s_tag.id) section_tags,
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ARRAY_AGG(DISTINCT ss_tag.id) subsection_tags,
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ARRAY_AGG(DISTINCT unit_tag.id) unit_tags
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FROM observatory.obs_column_table numer_data_ct,
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observatory.obs_table numer_t,
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observatory.obs_column_table numer_geomref_ct,
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observatory.obs_column geomref_c,
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observatory.obs_column_to_column geomref_c2c,
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observatory.obs_column geom_c,
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observatory.obs_column_table geom_geom_ct,
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observatory.obs_column_table geom_geomref_ct,
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observatory.obs_table geom_t,
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observatory.obs_column_tag ss_ctag,
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observatory.obs_tag ss_tag,
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observatory.obs_column_tag s_ctag,
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observatory.obs_tag s_tag,
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observatory.obs_column_tag unit_ctag,
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observatory.obs_tag unit_tag,
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observatory.obs_column numer_c
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LEFT JOIN (
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observatory.obs_column_to_column denom_c2c
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JOIN observatory.obs_column denom_c ON denom_c2c.target_id = denom_c.id
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JOIN observatory.obs_column_table denom_data_ct ON denom_data_ct.column_id = denom_c.id
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JOIN observatory.obs_table denom_t ON denom_data_ct.table_id = denom_t.id
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JOIN observatory.obs_column_table denom_geomref_ct ON denom_geomref_ct.table_id = denom_t.id
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) ON denom_c2c.source_id = numer_c.id
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WHERE numer_c.id = numer_data_ct.column_id
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AND numer_data_ct.table_id = numer_t.id
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AND numer_t.id = numer_geomref_ct.table_id
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AND numer_geomref_ct.column_id = geomref_c.id
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AND geomref_c2c.reltype = 'geom_ref'
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AND geomref_c.id = geomref_c2c.source_id
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AND geom_c.id = geomref_c2c.target_id
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AND geom_geomref_ct.column_id = geomref_c.id
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AND geom_geomref_ct.table_id = geom_t.id
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AND geom_geom_ct.column_id = geom_c.id
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AND geom_geom_ct.table_id = geom_t.id
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AND geom_c.type ILIKE 'geometry'
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AND numer_c.type NOT ILIKE 'geometry'
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AND numer_t.id != geom_t.id
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AND numer_c.id != geomref_c.id
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AND unit_tag.type = 'unit'
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AND ss_tag.type = 'subsection'
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AND s_tag.type = 'section'
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AND unit_ctag.column_id = numer_c.id
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AND unit_ctag.tag_id = unit_tag.id
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AND ss_ctag.column_id = numer_c.id
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AND ss_ctag.tag_id = ss_tag.id
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AND s_ctag.column_id = numer_c.id
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AND s_ctag.tag_id = s_tag.id
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AND (denom_c2c.reltype = 'denominator' OR denom_c2c.reltype IS NULL)
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AND (denom_geomref_ct.column_id = geomref_c.id OR denom_geomref_ct.column_id IS NULL)
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AND (denom_t.timespan = numer_t.timespan OR denom_t.timespan IS NULL)
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GROUP BY numer_c.id, denom_c.id, geom_c.id,
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numer_t.id, denom_t.id, geom_t.id;
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''')
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dropfiles.write('''
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DROP TABLE IF EXISTS observatory.obs_meta;
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''')
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if __name__ == '__main__':
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main()
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7
src/pg/test/fixtures/drop_fixtures.sql
vendored
7
src/pg/test/fixtures/drop_fixtures.sql
vendored
@ -7,6 +7,11 @@ DROP TABLE IF EXISTS observatory.obs_column_tag;
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DROP TABLE IF EXISTS observatory.obs_tag;
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DROP TABLE IF EXISTS observatory.obs_column_to_column;
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DROP TABLE IF EXISTS observatory.obs_dump_version;
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DROP TABLE IF EXISTS observatory.obs_meta;
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DROP TABLE IF EXISTS observatory.obs_meta_numer;
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DROP TABLE IF EXISTS observatory.obs_meta_denom;
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DROP TABLE IF EXISTS observatory.obs_meta_geom;
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DROP TABLE IF EXISTS observatory.obs_meta_timespan;
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DROP TABLE IF EXISTS observatory.obs_65f29658e096ca1485bf683f65fdbc9f05ec3c5d;
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DROP TABLE IF EXISTS observatory.obs_1746e37b7cd28cb131971ea4187d42d71f09c5f3;
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DROP TABLE IF EXISTS observatory.obs_1a098da56badf5f32e336002b0a81708c40d29cd;
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@ -20,5 +25,3 @@ DROP TABLE IF EXISTS observatory.obs_6c1309a64d8f3e6986061f4d1ca7b57743e75e74;
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DROP TABLE IF EXISTS observatory.obs_d39f7fe5959891c8296490d83c22ded31c54af13;
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DROP TABLE IF EXISTS observatory.obs_144e8b4f906885b2e057ac4842644a553ae49c6e;
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DROP TABLE IF EXISTS observatory.obs_c6fb99c47d61289fbb8e561ff7773799d3fcc308;
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DROP TABLE IF EXISTS observatory.obs_meta;
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37678
src/pg/test/fixtures/load_fixtures.sql
vendored
37678
src/pg/test/fixtures/load_fixtures.sql
vendored
File diff suppressed because one or more lines are too long
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