kumoai 2.10.0.dev202509231831__cp313-cp313-macosx_11_0_arm64.whl → 2.14.0.dev202512161731__cp313-cp313-macosx_11_0_arm64.whl

kumoai/experimental/rfm/backend/sqlite/sampler.py

@@ -0,0 +1,353 @@
+import warnings
+from collections import defaultdict
+from typing import TYPE_CHECKING
+
+import numpy as np
+import pandas as pd
+import pyarrow as pa
+from kumoapi.pquery import ValidatedPredictiveQuery
+from kumoapi.typing import Stype
+
+from kumoai.experimental.rfm.backend.sqlite import SQLiteTable
+from kumoai.experimental.rfm.base import SQLSampler
+from kumoai.experimental.rfm.pquery import PQueryPandasExecutor
+from kumoai.utils import ProgressLogger, quote_ident
+
+if TYPE_CHECKING:
+    from kumoai.experimental.rfm import Graph
+
+
+class SQLiteSampler(SQLSampler):
+    def __init__(
+        self,
+        graph: 'Graph',
+        verbose: bool | ProgressLogger = True,
+        optimize: bool = False,
+    ) -> None:
+        super().__init__(graph=graph, verbose=verbose)
+
+        for table in graph.tables.values():
+            assert isinstance(table, SQLiteTable)
+            self._connection = table._connection
+
+        if optimize:
+            with self._connection.cursor() as cursor:
+                cursor.execute("PRAGMA temp_store = MEMORY")
+                cursor.execute("PRAGMA cache_size = -2000000")  # 2 GB
+
+        # Collect database indices to speed-up sampling:
+        index_dict: dict[str, set[tuple[str, ...]]] = defaultdict(set)
+        for table_name, primary_key in self.primary_key_dict.items():
+            source_table = self.source_table_dict[table_name]
+            if not source_table[primary_key].is_unique_key:
+                index_dict[table_name].add((primary_key, ))
+        for src_table_name, foreign_key, _ in graph.edges:
+            source_table = self.source_table_dict[src_table_name]
+            if source_table[foreign_key].is_unique_key:
+                pass
+            elif time_column := self.time_column_dict.get(src_table_name):
+                index_dict[src_table_name].add((foreign_key, time_column))
+            else:
+                index_dict[src_table_name].add((foreign_key, ))
+
+        # Only maintain missing indices:
+        with self._connection.cursor() as cursor:
+            for table_name in list(index_dict.keys()):
+                indices = index_dict[table_name]
+                sql = f"PRAGMA index_list({quote_ident(table_name)})"
+                cursor.execute(sql)
+                for _, index_name, *_ in cursor.fetchall():
+                    sql = f"PRAGMA index_info({quote_ident(index_name)})"
+                    cursor.execute(sql)
+                    index = tuple(info[2] for info in sorted(
+                        cursor.fetchall(), key=lambda x: x[0]))
+                    indices.discard(index)
+                if len(indices) == 0:
+                    del index_dict[table_name]
+
+        num = sum(len(indices) for indices in index_dict.values())
+        index_repr = '1 index' if num == 1 else f'{num} indices'
+        num = len(index_dict)
+        table_repr = '1 table' if num == 1 else f'{num} tables'
+
+        if optimize and len(index_dict) > 0:
+            if not isinstance(verbose, ProgressLogger):
+                verbose = ProgressLogger.default(
+                    msg="Optimizing SQLite database",
+                    verbose=verbose,
+                )
+
+            with verbose as logger, self._connection.cursor() as cursor:
+                for table_name, indices in index_dict.items():
+                    for index in indices:
+                        name = f"kumo_index_{table_name}_{'_'.join(index)}"
+                        columns = ', '.join(quote_ident(v) for v in index)
+                        columns += ' DESC' if len(index) > 1 else ''
+                        sql = (f"CREATE INDEX IF NOT EXISTS {name}\n"
+                               f"ON {quote_ident(table_name)}({columns})")
+                        cursor.execute(sql)
+                self._connection.commit()
+                logger.log(f"Created {index_repr} in {table_repr}")
+
+        elif len(index_dict) > 0:
+            warnings.warn(f"Missing {index_repr} in {table_repr} for optimal "
+                          f"database querying. For improving runtime, we "
+                          f"strongly suggest to create these indices by "
+                          f"instantiating KumoRFM via "
+                          f"`KumoRFM(graph, optimize=True)`.")
+
+    def _get_min_max_time_dict(
+        self,
+        table_names: list[str],
+    ) -> dict[str, tuple[pd.Timestamp, pd.Timestamp]]:
+        selects: list[str] = []
+        for table_name in table_names:
+            time_column = self.time_column_dict[table_name]
+            select = (f"SELECT\n"
+                      f"  ? as table_name,\n"
+                      f"  MIN({quote_ident(time_column)}) as min_date,\n"
+                      f"  MAX({quote_ident(time_column)}) as max_date\n"
+                      f"FROM {quote_ident(table_name)}")
+            selects.append(select)
+        sql = "\nUNION ALL\n".join(selects)
+
+        out_dict: dict[str, tuple[pd.Timestamp, pd.Timestamp]] = {}
+        with self._connection.cursor() as cursor:
+            cursor.execute(sql, table_names)
+            for table_name, _min, _max in cursor.fetchall():
+                out_dict[table_name] = (
+                    pd.Timestamp.max if _min is None else pd.Timestamp(_min),
+                    pd.Timestamp.min if _max is None else pd.Timestamp(_max),
+                )
+        return out_dict
+
+    def _sample_entity_table(
+        self,
+        table_name: str,
+        columns: set[str],
+        num_rows: int,
+        random_seed: int | None = None,
+    ) -> pd.DataFrame:
+        # NOTE SQLite does not natively support passing a `random_seed`.
+
+        filters: list[str] = []
+        primary_key = self.primary_key_dict[table_name]
+        if self.source_table_dict[table_name][primary_key].is_nullable:
+            filters.append(f" {quote_ident(primary_key)} IS NOT NULL")
+        time_column = self.time_column_dict.get(table_name)
+        if (time_column is not None and
+                self.source_table_dict[table_name][time_column].is_nullable):
+            filters.append(f" {quote_ident(time_column)} IS NOT NULL")
+
+        # TODO Make this query more efficient - it does full table scan.
+        sql = (f"SELECT {', '.join(quote_ident(col) for col in columns)}\n"
+               f"FROM {quote_ident(table_name)}")
+        if len(filters) > 0:
+            sql += f"\nWHERE{' AND'.join(filters)}"
+        sql += f"\nORDER BY RANDOM() LIMIT {num_rows}"
+
+        with self._connection.cursor() as cursor:
+            # NOTE This may return duplicate primary keys. This is okay.
+            cursor.execute(sql)
+            table = cursor.fetch_arrow_table()
+
+        return self._sanitize(table_name, table)
+
+    def _sample_target(
+        self,
+        query: ValidatedPredictiveQuery,
+        entity_df: pd.DataFrame,
+        train_index: np.ndarray,
+        train_time: pd.Series,
+        num_train_examples: int,
+        test_index: np.ndarray,
+        test_time: pd.Series,
+        num_test_examples: int,
+        columns_dict: dict[str, set[str]],
+        time_offset_dict: dict[
+            tuple[str, str, str],
+            tuple[pd.DateOffset | None, pd.DateOffset],
+        ],
+    ) -> tuple[pd.Series, np.ndarray, pd.Series, np.ndarray]:
+        train_y, train_mask = self._sample_target_set(
+            query=query,
+            entity_df=entity_df,
+            index=train_index,
+            anchor_time=train_time,
+            num_examples=num_train_examples,
+            columns_dict=columns_dict,
+            time_offset_dict=time_offset_dict,
+        )
+
+        test_y, test_mask = self._sample_target_set(
+            query=query,
+            entity_df=entity_df,
+            index=test_index,
+            anchor_time=test_time,
+            num_examples=num_test_examples,
+            columns_dict=columns_dict,
+            time_offset_dict=time_offset_dict,
+        )
+
+        return train_y, train_mask, test_y, test_mask
+
+    def _by_pkey(
+        self,
+        table_name: str,
+        pkey: pd.Series,
+        columns: set[str],
+    ) -> tuple[pd.DataFrame, np.ndarray]:
+        pkey_name = self.primary_key_dict[table_name]
+
+        tmp = pa.table([pa.array(pkey)], names=['id'])
+        tmp_name = f'tmp_{table_name}_{pkey_name}_{id(tmp)}'
+
+        if self.source_table_dict[table_name][pkey_name].is_unique_key:
+            sql = (f"SELECT tmp.rowid - 1 as __batch__, "
+                   f"{', '.join('ent.' + quote_ident(c) for c in columns)}\n"
+                   f"FROM {quote_ident(tmp_name)} tmp\n"
+                   f"JOIN {quote_ident(table_name)} ent\n"
+                   f"  ON ent.{quote_ident(pkey_name)} = tmp.id")
+        else:
+            sql = (f"SELECT tmp.rowid - 1 as __batch__, "
+                   f"{', '.join('ent.' + quote_ident(c) for c in columns)}\n"
+                   f"FROM {quote_ident(tmp_name)} tmp\n"
+                   f"JOIN {quote_ident(table_name)} ent\n"
+                   f"  ON ent.rowid = (\n"
+                   f"    SELECT rowid FROM {quote_ident(table_name)}\n"
+                   f"    WHERE {quote_ident(pkey_name)} == tmp.id\n"
+                   f"    LIMIT 1\n"
+                   f")")
+
+        with self._connection.cursor() as cursor:
+            cursor.adbc_ingest(tmp_name, tmp, mode='replace')
+            cursor.execute(sql)
+            table = cursor.fetch_arrow_table()
+
+        batch = table['__batch__'].to_numpy()
+        table = table.remove_column(table.schema.get_field_index('__batch__'))
+
+        return table.to_pandas(), batch  # TODO Use `self._sanitize`.
+
+    # Helper Methods ##########################################################
+
+    def _by_time(
+        self,
+        table_name: str,
+        fkey: str,
+        pkey: pd.Series,
+        anchor_time: pd.Series,
+        min_offset: pd.DateOffset | None,
+        max_offset: pd.DateOffset,
+        columns: set[str],
+    ) -> tuple[pd.DataFrame, np.ndarray]:
+        # NOTE SQLite does not have a native datetime format. Currently, we
+        # assume timestamps are given as `TEXT` in `ISO-8601 UTC`:
+        tmp = pa.table([pa.array(pkey)], names=['id'])
+        end_time = anchor_time + max_offset
+        end_time = end_time.dt.strftime("%Y-%m-%d %H:%M:%S")
+        tmp = tmp.append_column('end', pa.array(end_time))
+        if min_offset is not None:
+            start_time = anchor_time + min_offset
+            start_time = start_time.dt.strftime("%Y-%m-%d %H:%M:%S")
+            tmp = tmp.append_column('start', pa.array(start_time))
+        tmp_name = f'tmp_{table_name}_{fkey}_{id(tmp)}'
+
+        time_column = self.time_column_dict[table_name]
+        sql = (f"SELECT tmp.rowid - 1 as __batch__, "
+               f"{', '.join('fact.' + quote_ident(col) for col in columns)}\n"
+               f"FROM {quote_ident(tmp_name)} tmp\n"
+               f"JOIN {quote_ident(table_name)} fact\n"
+               f"  ON fact.{quote_ident(fkey)} = tmp.id\n"
+               f" AND fact.{quote_ident(time_column)} <= tmp.end")
+        if min_offset is not None:
+            sql += f"\n AND fact.{quote_ident(time_column)} > tmp.start"
+
+        with self._connection.cursor() as cursor:
+            cursor.adbc_ingest(tmp_name, tmp, mode='replace')
+            cursor.execute(sql)
+            table = cursor.fetch_arrow_table()
+
+        batch = table['__batch__'].to_numpy()
+        table = table.remove_column(table.schema.get_field_index('__batch__'))
+
+        return self._sanitize(table_name, table), batch
+
+    def _sample_target_set(
+        self,
+        query: ValidatedPredictiveQuery,
+        entity_df: pd.DataFrame,
+        index: np.ndarray,
+        anchor_time: pd.Series,
+        num_examples: int,
+        columns_dict: dict[str, set[str]],
+        time_offset_dict: dict[
+            tuple[str, str, str],
+            tuple[pd.DateOffset | None, pd.DateOffset],
+        ],
+        batch_size: int = 10_000,
+    ) -> tuple[pd.Series, np.ndarray]:
+
+        count = 0
+        ys: list[pd.Series] = []
+        mask = np.full(len(index), False, dtype=bool)
+        for start in range(0, len(index), batch_size):
+            df = entity_df.iloc[index[start:start + batch_size]]
+            time = anchor_time.iloc[start:start + batch_size]
+
+            feat_dict: dict[str, pd.DataFrame] = {query.entity_table: df}
+            time_dict: dict[str, pd.Series] = {}
+            time_column = self.time_column_dict.get(query.entity_table)
+            if time_column in columns_dict[query.entity_table]:
+                time_dict[query.entity_table] = df[time_column]
+            batch_dict: dict[str, np.ndarray] = {
+                query.entity_table: np.arange(len(df)),
+            }
+            for edge_type, (_min, _max) in time_offset_dict.items():
+                table_name, fkey, _ = edge_type
+                feat_dict[table_name], batch_dict[table_name] = self._by_time(
+                    table_name=table_name,
+                    fkey=fkey,
+                    pkey=df[self.primary_key_dict[query.entity_table]],
+                    anchor_time=time,
+                    min_offset=_min,
+                    max_offset=_max,
+                    columns=columns_dict[table_name],
+                )
+                time_column = self.time_column_dict.get(table_name)
+                if time_column in columns_dict[table_name]:
+                    time_dict[table_name] = feat_dict[table_name][time_column]
+
+            y, _mask = PQueryPandasExecutor().execute(
+                query=query,
+                feat_dict=feat_dict,
+                time_dict=time_dict,
+                batch_dict=batch_dict,
+                anchor_time=anchor_time,
+                num_forecasts=query.num_forecasts,
+            )
+            ys.append(y)
+            mask[start:start + batch_size] = _mask
+
+            count += len(y)
+            if count >= num_examples:
+                break
+
+        if len(ys) == 0:
+            y = pd.Series([], dtype=float)
+        elif len(ys) == 1:
+            y = ys[0]
+        else:
+            y = pd.concat(ys, axis=0, ignore_index=True)
+
+        return y, mask
+
+    def _sanitize(self, table_name: str, table: pa.table) -> pd.DataFrame:
+        df = table.to_pandas(types_mapper=pd.ArrowDtype)
+
+        stype_dict = self.table_stype_dict[table_name]
+        for column_name in df.columns:
+            if stype_dict.get(column_name) == Stype.timestamp:
+                df[column_name] = pd.to_datetime(df[column_name])
+
+        return df

kumoai/experimental/rfm/backend/sqlite/table.py

@@ -0,0 +1,126 @@
+import re
+import warnings
+from typing import List, Optional, Sequence, cast
+
+import pandas as pd
+from kumoapi.typing import Dtype
+
+from kumoai.experimental.rfm.backend.sqlite import Connection
+from kumoai.experimental.rfm.base import (
+    DataBackend,
+    SourceColumn,
+    SourceForeignKey,
+    Table,
+)
+from kumoai.experimental.rfm.infer import infer_dtype
+from kumoai.utils import quote_ident
+
+
+class SQLiteTable(Table):
+    r"""A table backed by a :class:`sqlite` database.
+
+    Args:
+        connection: The connection to a :class:`sqlite` database.
+        name: The name of this table.
+        columns: The selected columns of this table.
+        primary_key: The name of the primary key of this table, if it exists.
+        time_column: The name of the time column of this table, if it exists.
+        end_time_column: The name of the end time column of this table, if it
+            exists.
+    """
+    def __init__(
+        self,
+        connection: Connection,
+        name: str,
+        columns: Optional[Sequence[str]] = None,
+        primary_key: Optional[str] = None,
+        time_column: Optional[str] = None,
+        end_time_column: Optional[str] = None,
+    ) -> None:
+
+        self._connection = connection
+
+        super().__init__(
+            name=name,
+            columns=columns,
+            primary_key=primary_key,
+            time_column=time_column,
+            end_time_column=end_time_column,
+        )
+
+    @property
+    def backend(self) -> DataBackend:
+        return cast(DataBackend, DataBackend.SQLITE)
+
+    def _get_source_columns(self) -> List[SourceColumn]:
+        source_columns: List[SourceColumn] = []
+        with self._connection.cursor() as cursor:
+            sql = f"PRAGMA table_info({quote_ident(self.name)})"
+            cursor.execute(sql)
+            columns = cursor.fetchall()
+
+            if len(columns) == 0:
+                raise ValueError(f"Table '{self.name}' does not exist")
+
+            unique_keys: set[str] = set()
+            sql = f"PRAGMA index_list({quote_ident(self.name)})"
+            cursor.execute(sql)
+            for _, index_name, is_unique, *_ in cursor.fetchall():
+                if bool(is_unique):
+                    sql = f"PRAGMA index_info({quote_ident(index_name)})"
+                    cursor.execute(sql)
+                    index = cursor.fetchall()
+                    if len(index) == 1:
+                        unique_keys.add(index[0][2])
+
+            for _, column, type, notnull, _, is_pkey in columns:
+                # Determine column affinity:
+                type = type.strip().upper()
+                if re.search('INT', type):
+                    dtype = Dtype.int
+                elif re.search('TEXT|CHAR|CLOB', type):
+                    dtype = Dtype.string
+                elif re.search('REAL|FLOA|DOUB', type):
+                    dtype = Dtype.float
+                else:  # NUMERIC affinity.
+                    ser = self._sample_df[column]
+                    try:
+                        dtype = infer_dtype(ser)
+                    except Exception:
+                        warnings.warn(
+                            f"Data type inference for column '{column}' in "
+                            f"table '{self.name}' failed. Consider changing "
+                            f"the data type of the column to use it within "
+                            f"this table.")
+                        continue
+
+                source_column = SourceColumn(
+                    name=column,
+                    dtype=dtype,
+                    is_primary_key=bool(is_pkey),
+                    is_unique_key=column in unique_keys,
+                    is_nullable=not bool(is_pkey) and not bool(notnull),
+                )
+                source_columns.append(source_column)
+
+        return source_columns
+
+    def _get_source_foreign_keys(self) -> List[SourceForeignKey]:
+        source_fkeys: List[SourceForeignKey] = []
+        with self._connection.cursor() as cursor:
+            sql = f"PRAGMA foreign_key_list({quote_ident(self.name)})"
+            cursor.execute(sql)
+            for _, _, dst_table, fkey, pkey, *_ in cursor.fetchall():
+                source_fkeys.append(SourceForeignKey(fkey, dst_table, pkey))
+        return source_fkeys
+
+    def _get_sample_df(self) -> pd.DataFrame:
+        with self._connection.cursor() as cursor:
+            sql = (f"SELECT * FROM {quote_ident(self.name)} "
+                   f"ORDER BY rowid LIMIT 1000")
+            cursor.execute(sql)
+            table = cursor.fetch_arrow_table()
+            return table.to_pandas(types_mapper=pd.ArrowDtype)
+
+    def _get_num_rows(self) -> Optional[int]:
+        return None

kumoai/experimental/rfm/base/__init__.py

@@ -0,0 +1,25 @@
+from kumoapi.common import StrEnum
+
+
+class DataBackend(StrEnum):
+    LOCAL = 'local'
+    SQLITE = 'sqlite'
+    SNOWFLAKE = 'snowflake'
+
+
+from .source import SourceColumn, SourceForeignKey  # noqa: E402
+from .column import Column  # noqa: E402
+from .table import Table  # noqa: E402
+from .sampler import SamplerOutput, Sampler  # noqa: E402
+from .sql_sampler import SQLSampler  # noqa: E402
+
+__all__ = [
+    'DataBackend',
+    'SourceColumn',
+    'SourceForeignKey',
+    'Column',
+    'Table',
+    'SamplerOutput',
+    'Sampler',
+    'SQLSampler',
+]

kumoai/experimental/rfm/base/column.py

@@ -0,0 +1,66 @@
+from dataclasses import dataclass
+from typing import Any
+
+from kumoapi.typing import Dtype, Stype
+
+
+@dataclass(init=False, repr=False, eq=False)
+class Column:
+    stype: Stype
+
+    def __init__(
+        self,
+        name: str,
+        dtype: Dtype,
+        stype: Stype,
+        is_primary_key: bool = False,
+        is_time_column: bool = False,
+        is_end_time_column: bool = False,
+    ) -> None:
+        self._name = name
+        self._dtype = Dtype(dtype)
+        self._is_primary_key = is_primary_key
+        self._is_time_column = is_time_column
+        self._is_end_time_column = is_end_time_column
+        self.stype = Stype(stype)
+
+    @property
+    def name(self) -> str:
+        return self._name
+
+    @property
+    def dtype(self) -> Dtype:
+        return self._dtype
+
+    def __setattr__(self, key: str, val: Any) -> None:
+        if key == 'stype':
+            if isinstance(val, str):
+                val = Stype(val)
+            assert isinstance(val, Stype)
+            if not val.supports_dtype(self.dtype):
+                raise ValueError(f"Column '{self.name}' received an "
+                                 f"incompatible semantic type (got "
+                                 f"dtype='{self.dtype}' and stype='{val}')")
+            if self._is_primary_key and val != Stype.ID:
+                raise ValueError(f"Primary key '{self.name}' must have 'ID' "
+                                 f"semantic type (got '{val}')")
+            if self._is_time_column and val != Stype.timestamp:
+                raise ValueError(f"Time column '{self.name}' must have "
+                                 f"'timestamp' semantic type (got '{val}')")
+            if self._is_end_time_column and val != Stype.timestamp:
+                raise ValueError(f"End time column '{self.name}' must have "
+                                 f"'timestamp' semantic type (got '{val}')")
+
+        super().__setattr__(key, val)
+
+    def __hash__(self) -> int:
+        return hash((self.name, self.stype, self.dtype))
+
+    def __eq__(self, other: Any) -> bool:
+        if not isinstance(other, Column):
+            return False
+        return hash(self) == hash(other)
+
+    def __repr__(self) -> str:
+        return (f'{self.__class__.__name__}(name={self.name}, '
+                f'stype={self.stype}, dtype={self.dtype})')