84 lines
3.3 KiB
Python
84 lines
3.3 KiB
Python
"""Libpq service connections; credentials never belong in CLI arguments."""
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from collections.abc import Mapping
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import re
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SEARCH_VECTOR = "to_tsvector('english'::regconfig,coalesce(title,'') || ' ' || coalesce(abstract,''))"
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def driver():
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try:
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import psycopg
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except ImportError as error:
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raise RuntimeError('Install paper-atlas[postgres] on the approved remote runner') from error
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return psycopg
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def connect(service, *, readonly=False):
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if not re.fullmatch(r'[A-Za-z0-9_-]+', service):
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raise ValueError('Use a libpq service name, never a password or connection URL')
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connection = driver().connect(service=service, connect_timeout=15, autocommit=True,
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application_name='paper-atlas')
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connection.execute("SET timezone='UTC'")
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connection.execute("SET lock_timeout='5s'")
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connection.execute("SET work_mem='2MB'")
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connection.execute("SET maintenance_work_mem='16MB'")
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connection.execute('SET max_parallel_workers_per_gather=0')
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connection.execute('SET max_parallel_maintenance_workers=0')
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if readonly:
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connection.execute('BEGIN ISOLATION LEVEL REPEATABLE READ READ ONLY')
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return connection
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class Row(Mapping):
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"""The small mapping/positional interface used by existing query output."""
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def __init__(self, columns, values):
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self.columns, self.values = columns, values
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def __getitem__(self, key):
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return self.values[key if isinstance(key, int) else self.columns.index(key)]
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def __iter__(self):
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return iter(self.columns)
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def __len__(self):
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return len(self.columns)
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def row_factory(cursor):
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columns = [column.name for column in cursor.description] if cursor.description else []
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return lambda values: Row(columns, values)
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class ReadConnection:
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postgres = True
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def __init__(self, service, schema=None):
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if schema is not None and not re.fullmatch(r'[a-z][a-z0-9_]{0,35}', schema):
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raise ValueError('Invalid schema name')
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self.connection = connect(service, readonly=True)
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from paper_atlas.postgres.schema import quote
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if schema is not None:
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self.connection.execute('SET LOCAL search_path TO ' + quote(schema) + ',pg_catalog')
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self.connection.row_factory = row_factory
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if not self.has_table('papers'):
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self.close()
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raise RuntimeError('PostgreSQL publication is not ready in the configured search_path')
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def execute(self, query, params=()):
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# All caller SQL is static; user values are always bound parameters.
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if 'sqlite_master' in query:
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match = re.search(r"name='([a-z_]+)'", query)
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if not match or match[1] not in ('decision_sources', 'submission_sources', 'venue_aliases'):
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raise ValueError('Unsupported legacy table lookup')
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return self.connection.execute('''SELECT 1 FROM information_schema.tables
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WHERE table_schema=current_schema() AND table_name=%s''',
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(match[1],))
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return self.connection.execute(query.replace('?', '%s'), params)
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def has_table(self, name):
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return bool(self.connection.execute('''SELECT 1 FROM information_schema.tables
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WHERE table_schema=current_schema() AND table_name=%s''', (name,)).fetchone())
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def close(self):
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self.connection.close()
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