workbench 0.8.177__tar.gz → 0.8.179__tar.gz

workbench-0.8.179/Dockerfile

@@ -0,0 +1,7 @@
+FROM python:3.12-slim
+
+ARG WORKBENCH_VERSION=
+RUN apt-get update && apt-get upgrade -y && \
+    apt-get install -y --no-install-recommends libexpat1 libnghttp2-dev && \
+    apt-get clean && rm -rf /var/lib/apt/lists/* && \
+    pip install --no-cache-dir workbench${WORKBENCH_VERSION:+==$WORKBENCH_VERSION}

{workbench-0.8.177 → workbench-0.8.179}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: workbench
-Version: 0.8.177
+Version: 0.8.179
 Summary: Workbench: A Dashboard and Python API for creating and deploying AWS SageMaker Model Pipelines
 Author-email: SuperCowPowers LLC <support@supercowpowers.com>
 License-Expression: MIT

{workbench-0.8.177 → workbench-0.8.179}/model_docker_images/ml_pipelines/Dockerfile

@@ -29,7 +29,7 @@ COPY --from=builder /usr/local/lib/python3.12/site-packages /usr/local/lib/pytho
 COPY --from=builder /usr/local/bin /usr/local/bin
 
 # Install workbench only
-RUN pip install --no-cache-dir workbench==0.8.167
+RUN pip install --no-cache-dir workbench==0.8.177
 
 # Add the script runner
 COPY ml_pipeline_runner.py /app/ml_pipeline_runner.py

{workbench-0.8.177 → workbench-0.8.179}/src/workbench/api/endpoint.py

@@ -4,6 +4,7 @@ Endpoints can be viewed in the AWS Sagemaker interfaces or in the Workbench
 Dashboard UI, which provides additional model details and performance metrics"""
 
 import pandas as pd
+from typing import Tuple
 
 # Workbench Imports
 from workbench.core.artifacts.endpoint_core import EndpointCore
@@ -70,14 +71,14 @@ class Endpoint(EndpointCore):
         """
         return super().fast_inference(eval_df, threads=threads)
 
-    def cross_fold_inference(self, nfolds: int = 5) -> dict:
+    def cross_fold_inference(self, nfolds: int = 5) -> Tuple[dict, pd.DataFrame]:
         """Run cross-fold inference (only works for XGBoost models)
 
         Args:
             nfolds (int): The number of folds to use for cross-validation (default: 5)
 
         Returns:
-            dict: A dictionary with fold results
+            Tuple(dict, pd.DataFrame): A tuple containing a dictionary of metrics and a DataFrame with predictions
         """
         return super().cross_fold_inference(nfolds)
 

{workbench-0.8.177 → workbench-0.8.179}/src/workbench/core/artifacts/endpoint_core.py

@@ -8,7 +8,7 @@ import pandas as pd
 import numpy as np
 from io import StringIO
 import awswrangler as wr
-from typing import Union, Optional
+from typing import Union, Optional, Tuple
 import hashlib
 
 # Model Performance Scores
@@ -436,24 +436,24 @@ class EndpointCore(Artifact):
         # Return the prediction DataFrame
         return prediction_df
 
-    def cross_fold_inference(self, nfolds: int = 5) -> dict:
+    def cross_fold_inference(self, nfolds: int = 5) -> Tuple[dict, pd.DataFrame]:
         """Run cross-fold inference (only works for XGBoost models)
 
         Args:
             nfolds (int): Number of folds to use for cross-fold (default: 5)
 
         Returns:
-            dict: Dictionary with the cross-fold inference results
+            Tuple[dict, pd.DataFrame]: Tuple of (cross_fold_metrics, out_of_fold_df)
         """
 
         # Grab our model
         model = ModelCore(self.model_name)
 
         # Compute CrossFold Metrics
-        cross_fold_metrics = cross_fold_inference(model, nfolds=nfolds)
+        cross_fold_metrics, out_of_fold_df = cross_fold_inference(model, nfolds=nfolds)
         if cross_fold_metrics:
             self.param_store.upsert(f"/workbench/models/{model.name}/inference/cross_fold", cross_fold_metrics)
-        return cross_fold_metrics
+        return cross_fold_metrics, out_of_fold_df
 
     def fast_inference(self, eval_df: pd.DataFrame, threads: int = 4) -> pd.DataFrame:
         """Run inference on the Endpoint using the provided DataFrame

{workbench-0.8.177 → workbench-0.8.179}/src/workbench/core/artifacts/feature_set_core.py

@@ -17,7 +17,7 @@ from workbench.core.artifacts.artifact import Artifact
 from workbench.core.artifacts.data_source_factory import DataSourceFactory
 from workbench.core.artifacts.athena_source import AthenaSource
 
-from typing import TYPE_CHECKING
+from typing import TYPE_CHECKING, Optional, List, Union
 
 from workbench.utils.aws_utils import aws_throttle
 
@@ -509,6 +509,48 @@ class FeatureSetCore(Artifact):
         ].tolist()
         return hold_out_ids
 
+    def set_training_filter(self, filter_expression: Optional[str] = None):
+        """Set a filter expression for the training view for this FeatureSet
+
+        Args:
+            filter_expression (Optional[str]): A SQL filter expression (e.g., "age > 25 AND status = 'active'")
+                If None or empty string, will reset to training view with no filter
+                (default: None)
+        """
+        from workbench.core.views import TrainingView
+
+        # Grab the existing holdout ids
+        holdout_ids = self.get_training_holdouts()
+
+        # Create a NEW training view
+        self.log.important(f"Setting Training Filter: {filter_expression}")
+        TrainingView.create(
+            self, id_column=self.id_column, holdout_ids=holdout_ids, filter_expression=filter_expression
+        )
+
+    def exclude_ids_from_training(self, ids: List[Union[str, int]], column_name: Optional[str] = None):
+        """Exclude a list of IDs from the training view
+
+        Args:
+            ids (List[Union[str, int]],): List of IDs to exclude from training
+            column_name (Optional[str]): Column name to filter on.
+                If None, uses self.id_column (default: None)
+        """
+        # Use the default id_column if not specified
+        column = column_name or self.id_column
+
+        # Handle empty list case
+        if not ids:
+            self.log.warning("No IDs provided to exclude")
+            return
+
+        # Build the filter expression with proper SQL quoting
+        quoted_ids = ", ".join([repr(id) for id in ids])
+        filter_expression = f"{column} NOT IN ({quoted_ids})"
+
+        # Apply the filter
+        self.set_training_filter(filter_expression)
+
     @classmethod
     def delete_views(cls, table: str, database: str):
         """Delete any views associated with this FeatureSet
@@ -707,7 +749,7 @@ if __name__ == "__main__":
 
     # Test getting the holdout ids
     print("Getting the hold out ids...")
-    holdout_ids = my_features.get_training_holdouts("id")
+    holdout_ids = my_features.get_training_holdouts()
     print(f"Holdout IDs: {holdout_ids}")
 
     # Get a sample of the data
@@ -729,16 +771,33 @@ if __name__ == "__main__":
     table = my_features.view("training").table
     df = my_features.query(f'SELECT id, name FROM "{table}"')
     my_holdout_ids = [id for id in df["id"] if id < 20]
-    my_features.set_training_holdouts("id", my_holdout_ids)
-
-    # Test the hold out set functionality with strings
-    print("Setting hold out ids (strings)...")
-    my_holdout_ids = [name for name in df["name"] if int(name.split(" ")[1]) > 80]
-    my_features.set_training_holdouts("name", my_holdout_ids)
+    my_features.set_training_holdouts(my_holdout_ids)
 
     # Get the training data
     print("Getting the training data...")
     training_data = my_features.get_training_data()
+    print(f"Training Data: {training_data.shape}")
+
+    # Test the filter expression functionality
+    print("Setting a filter expression...")
+    my_features.set_training_filter("id < 50 AND height > 65.0")
+    training_data = my_features.get_training_data()
+    print(f"Training Data: {training_data.shape}")
+    print(training_data)
+
+    # Remove training filter
+    print("Removing the filter expression...")
+    my_features.set_training_filter(None)
+    training_data = my_features.get_training_data()
+    print(f"Training Data: {training_data.shape}")
+    print(training_data)
+
+    # Test excluding ids from training
+    print("Excluding ids from training...")
+    my_features.exclude_ids_from_training([1, 2, 3, 4, 5])
+    training_data = my_features.get_training_data()
+    print(f"Training Data: {training_data.shape}")
+    print(training_data)
 
     # Now delete the AWS artifacts associated with this Feature Set
     # print("Deleting Workbench Feature Set...")

{workbench-0.8.177 → workbench-0.8.179}/src/workbench/core/views/training_view.py

@@ -3,7 +3,7 @@
 from typing import Union
 
 # Workbench Imports
-from workbench.api import DataSource, FeatureSet
+from workbench.api import FeatureSet
 from workbench.core.views.view import View
 from workbench.core.views.create_view import CreateView
 from workbench.core.views.view_utils import get_column_list
@@ -34,6 +34,7 @@ class TrainingView(CreateView):
         source_table: str = None,
         id_column: str = None,
         holdout_ids: Union[list[str], list[int], None] = None,
+        filter_expression: str = None,
     ) -> Union[View, None]:
         """Factory method to create and return a TrainingView instance.
 
@@ -42,6 +43,8 @@ class TrainingView(CreateView):
             source_table (str, optional): The table/view to create the view from. Defaults to None.
             id_column (str, optional): The name of the id column. Defaults to None.
             holdout_ids (Union[list[str], list[int], None], optional): A list of holdout ids. Defaults to None.
+            filter_expression (str, optional): SQL filter expression (e.g., "age > 25 AND status = 'active'").
+                                               Defaults to None.
 
         Returns:
             Union[View, None]: The created View object (or None if failed to create the view)
@@ -69,28 +72,36 @@ class TrainingView(CreateView):
                 else:
                     id_column = instance.auto_id_column
 
-        # If we don't have holdout ids, create a default training view
-        if not holdout_ids:
-            instance._default_training_view(instance.data_source, id_column)
-            return View(instance.data_source, instance.view_name, auto_create_view=False)
+        # Enclose each column name in double quotes
+        sql_columns = ", ".join([f'"{column}"' for column in column_list])
+
+        # Build the training assignment logic
+        if holdout_ids:
+            # Format the list of holdout ids for SQL IN clause
+            if all(isinstance(id, str) for id in holdout_ids):
+                formatted_holdout_ids = ", ".join(f"'{id}'" for id in holdout_ids)
+            else:
+                formatted_holdout_ids = ", ".join(map(str, holdout_ids))
 
-        # Format the list of holdout ids for SQL IN clause
-        if holdout_ids and all(isinstance(id, str) for id in holdout_ids):
-            formatted_holdout_ids = ", ".join(f"'{id}'" for id in holdout_ids)
+            training_logic = f"""CASE
+                WHEN {id_column} IN ({formatted_holdout_ids}) THEN False
+                ELSE True
+            END AS training"""
         else:
-            formatted_holdout_ids = ", ".join(map(str, holdout_ids))
+            # Default 80/20 split using modulo
+            training_logic = f"""CASE
+                WHEN MOD(ROW_NUMBER() OVER (ORDER BY {id_column}), 10) < 8 THEN True
+                ELSE False
+            END AS training"""
 
-        # Enclose each column name in double quotes
-        sql_columns = ", ".join([f'"{column}"' for column in column_list])
+        # Build WHERE clause if filter_expression is provided
+        where_clause = f"\nWHERE {filter_expression}" if filter_expression else ""
 
         # Construct the CREATE VIEW query
         create_view_query = f"""
         CREATE OR REPLACE VIEW {instance.table} AS
-        SELECT {sql_columns}, CASE
-            WHEN {id_column} IN ({formatted_holdout_ids}) THEN False
-            ELSE True
-        END AS training
-        FROM {instance.source_table}
+        SELECT {sql_columns}, {training_logic}
+        FROM {instance.source_table}{where_clause}
         """
 
         # Execute the CREATE VIEW query
@@ -99,43 +110,13 @@ class TrainingView(CreateView):
         # Return the View
         return View(instance.data_source, instance.view_name, auto_create_view=False)
 
-    # This is an internal method that's used to create a default training view
-    def _default_training_view(self, data_source: DataSource, id_column: str):
-        """Create a default view in Athena that assigns roughly 80% of the data to training
-
-        Args:
-            data_source (DataSource): The Workbench DataSource object
-            id_column (str): The name of the id column
-        """
-        self.log.important(f"Creating default Training View {self.table}...")
-
-        # Drop any columns generated from AWS
-        aws_cols = ["write_time", "api_invocation_time", "is_deleted", "event_time"]
-        column_list = [col for col in data_source.columns if col not in aws_cols]
-
-        # Enclose each column name in double quotes
-        sql_columns = ", ".join([f'"{column}"' for column in column_list])
-
-        # Construct the CREATE VIEW query with a simple modulo operation for the 80/20 split
-        create_view_query = f"""
-        CREATE OR REPLACE VIEW "{self.table}" AS
-        SELECT {sql_columns}, CASE
-            WHEN MOD(ROW_NUMBER() OVER (ORDER BY {id_column}), 10) < 8 THEN True  -- Assign 80% to training
-            ELSE False  -- Assign roughly 20% to validation/test
-        END AS training
-        FROM {self.base_table_name}
-        """
-
-        # Execute the CREATE VIEW query
-        data_source.execute_statement(create_view_query)
-
 
 if __name__ == "__main__":
     """Exercise the Training View functionality"""
     from workbench.api import FeatureSet
 
     # Get the FeatureSet
-    fs = FeatureSet("test_features")
+    fs = FeatureSet("abalone_features")
 
     # Delete the existing training view
     training_view = TrainingView.create(fs)
@@ -152,9 +133,18 @@ if __name__ == "__main__":
 
     # Create a TrainingView with holdout ids
     my_holdout_ids = list(range(10))
-    training_view = TrainingView.create(fs, id_column="id", holdout_ids=my_holdout_ids)
+    training_view = TrainingView.create(fs, id_column="auto_id", holdout_ids=my_holdout_ids)
 
     # Pull the training data
     df = training_view.pull_dataframe()
     print(df.head())
     print(df["training"].value_counts())
+    print(f"Shape: {df.shape}")
+    print(f"Diameter min: {df['diameter'].min()}, max: {df['diameter'].max()}")
+
+    # Test the filter expression
+    training_view = TrainingView.create(fs, id_column="auto_id", filter_expression="diameter > 0.5")
+    df = training_view.pull_dataframe()
+    print(df.head())
+    print(f"Shape with filter: {df.shape}")
+    print(f"Diameter min: {df['diameter'].min()}, max: {df['diameter'].max()}")

{workbench-0.8.177 → workbench-0.8.179}/src/workbench/model_scripts/custom_models/proximity/feature_space_proximity.template

@@ -8,7 +8,7 @@ TEMPLATE_PARAMS = {
     "id_column": "{{id_column}}",
     "features": "{{feature_list}}",
     "target": "{{target_column}}",
-    "track_columns": "{{track_columns}}"
+    "track_columns": "{{track_columns}}",
 }
 
 from io import StringIO
@@ -73,10 +73,7 @@ if __name__ == "__main__":
     args = parser.parse_args()
 
     # Load training data from the specified directory
-    training_files = [
-        os.path.join(args.train, file)
-        for file in os.listdir(args.train) if file.endswith(".csv")
-    ]
+    training_files = [os.path.join(args.train, file) for file in os.listdir(args.train) if file.endswith(".csv")]
     all_df = pd.concat([pd.read_csv(file, engine="python") for file in training_files])
 
     # Check if the DataFrame is empty
@@ -88,6 +85,7 @@ if __name__ == "__main__":
     # Now serialize the model
     model.serialize(args.model_dir)
 
+
 # Model loading and prediction functions
 def model_fn(model_dir):
 

{workbench-0.8.177 → workbench-0.8.179}/src/workbench/model_scripts/custom_models/uq_models/bayesian_ridge.template

@@ -14,7 +14,7 @@ import pandas as pd
 TEMPLATE_PARAMS = {
     "features": "{{feature_list}}",
     "target": "{{target_column}}",
-    "train_all_data": "{{train_all_data}}"
+    "train_all_data": "{{train_all_data}}",
 }
 
 
@@ -37,7 +37,7 @@ def match_features_case_insensitive(df: pd.DataFrame, model_features: list) -> p
     """
     Matches and renames DataFrame columns to match model feature names (case-insensitive).
     Prioritizes exact matches, then case-insensitive matches.
-    
+
     Raises ValueError if any model features cannot be matched.
     """
     df_columns_lower = {col.lower(): col for col in df.columns}
@@ -81,10 +81,7 @@ if __name__ == "__main__":
     args = parser.parse_args()
 
     # Load training data from the specified directory
-    training_files = [
-        os.path.join(args.train, file)
-        for file in os.listdir(args.train) if file.endswith(".csv")
-    ]
+    training_files = [os.path.join(args.train, file) for file in os.listdir(args.train) if file.endswith(".csv")]
     df = pd.concat([pd.read_csv(file, engine="python") for file in training_files])
 
     # Check if the DataFrame is empty
@@ -109,8 +106,10 @@ if __name__ == "__main__":
     # Create and train the Regression/Confidence model
     # model = BayesianRidge()
     model = BayesianRidge(
-        alpha_1=1e-6, alpha_2=1e-6,  # Noise precision
-        lambda_1=1e-6, lambda_2=1e-6,  # Weight precision
+        alpha_1=1e-6,
+        alpha_2=1e-6,  # Noise precision
+        lambda_1=1e-6,
+        lambda_2=1e-6,  # Weight precision
         fit_intercept=True,
     )
 

{workbench-0.8.177 → workbench-0.8.179}/src/workbench/model_scripts/custom_models/uq_models/ensemble_xgb.template

@@ -4,11 +4,7 @@ import awswrangler as wr
 import numpy as np
 
 # Model Performance Scores
-from sklearn.metrics import (
-    mean_absolute_error,
-    r2_score,
-    root_mean_squared_error
-)
+from sklearn.metrics import mean_absolute_error, r2_score, root_mean_squared_error
 from sklearn.model_selection import KFold
 from scipy.optimize import minimize
 
@@ -23,7 +19,7 @@ TEMPLATE_PARAMS = {
     "features": "{{feature_list}}",
     "target": "{{target_column}}",
     "train_all_data": "{{train_all_data}}",
-    "model_metrics_s3_path": "{{model_metrics_s3_path}}"
+    "model_metrics_s3_path": "{{model_metrics_s3_path}}",
 }
 
 
@@ -47,7 +43,7 @@ def match_features_case_insensitive(df: pd.DataFrame, model_features: list) -> p
     """
     Matches and renames DataFrame columns to match model feature names (case-insensitive).
     Prioritizes exact matches, then case-insensitive matches.
-    
+
     Raises ValueError if any model features cannot be matched.
     """
     df_columns_lower = {col.lower(): col for col in df.columns}
@@ -90,10 +86,7 @@ if __name__ == "__main__":
     args = parser.parse_args()
 
     # Load training data from the specified directory
-    training_files = [
-        os.path.join(args.train, file)
-        for file in os.listdir(args.train) if file.endswith(".csv")
-    ]
+    training_files = [os.path.join(args.train, file) for file in os.listdir(args.train) if file.endswith(".csv")]
     df = pd.concat([pd.read_csv(file, engine="python") for file in training_files])
 
     # Check if the DataFrame is empty
@@ -172,16 +165,14 @@ if __name__ == "__main__":
     cv_residuals = np.array(cv_residuals)
     cv_uncertainties = np.array(cv_uncertainties)
 
-
     # Optimize calibration parameters: σ_cal = a * σ_uc + b
     def neg_log_likelihood(params):
         a, b = params
         sigma_cal = a * cv_uncertainties + b
         sigma_cal = np.maximum(sigma_cal, 1e-8)  # Prevent division by zero
-        return np.sum(0.5 * np.log(2 * np.pi * sigma_cal ** 2) + 0.5 * (cv_residuals ** 2) / (sigma_cal ** 2))
+        return np.sum(0.5 * np.log(2 * np.pi * sigma_cal**2) + 0.5 * (cv_residuals**2) / (sigma_cal**2))
 
-
-    result = minimize(neg_log_likelihood, x0=[1.0, 0.1], method='Nelder-Mead')
+    result = minimize(neg_log_likelihood, x0=[1.0, 0.1], method="Nelder-Mead")
     cal_a, cal_b = result.x
 
     print(f"Calibration parameters: a={cal_a:.4f}, b={cal_b:.4f}")
@@ -205,7 +196,9 @@ if __name__ == "__main__":
     result_df["prediction"] = result_df[[name for name in result_df.columns if name.startswith("m_")]].mean(axis=1)
 
     # Compute uncalibrated uncertainty
-    result_df["prediction_std_uc"] = result_df[[name for name in result_df.columns if name.startswith("m_")]].std(axis=1)
+    result_df["prediction_std_uc"] = result_df[[name for name in result_df.columns if name.startswith("m_")]].std(
+        axis=1
+    )
 
     # Apply calibration to uncertainty
     result_df["prediction_std"] = cal_a * result_df["prediction_std_uc"] + cal_b
@@ -352,4 +345,4 @@ def predict_fn(df, models) -> pd.DataFrame:
     df = df.reindex(sorted(df.columns), axis=1)
 
     # All done, return the DataFrame
-    return df
+    return df

{workbench-0.8.177 → workbench-0.8.179}/src/workbench/model_scripts/custom_models/uq_models/gaussian_process.template

@@ -9,7 +9,7 @@ from sklearn.model_selection import train_test_split
 TEMPLATE_PARAMS = {
     "features": "{{feature_list}}",
     "target": "{{target_column}}",
-    "train_all_data": "{{train_all_data}}"
+    "train_all_data": "{{train_all_data}}",
 }
 
 from io import StringIO
@@ -33,7 +33,7 @@ def match_features_case_insensitive(df: pd.DataFrame, model_features: list) -> p
     """
     Matches and renames DataFrame columns to match model feature names (case-insensitive).
     Prioritizes exact matches, then case-insensitive matches.
-    
+
     Raises ValueError if any model features cannot be matched.
     """
     df_columns_lower = {col.lower(): col for col in df.columns}
@@ -46,7 +46,7 @@ def match_features_case_insensitive(df: pd.DataFrame, model_features: list) -> p
             rename_dict[df_columns_lower[feature.lower()]] = feature
         else:
             missing.append(feature)
-    
+
     if missing:
         raise ValueError(f"Features not found: {missing}")
 
@@ -76,10 +76,7 @@ if __name__ == "__main__":
     args = parser.parse_args()
 
     # Load training data from the specified directory
-    training_files = [
-        os.path.join(args.train, file)
-        for file in os.listdir(args.train) if file.endswith(".csv")
-    ]
+    training_files = [os.path.join(args.train, file) for file in os.listdir(args.train) if file.endswith(".csv")]
     df = pd.concat([pd.read_csv(file, engine="python") for file in training_files])
 
     # Check if the DataFrame is empty
@@ -112,10 +109,7 @@ if __name__ == "__main__":
     )
 
     # Create a Pipeline with StandardScaler
-    model = Pipeline([
-        ("scaler", StandardScaler()),
-        ("model", model)
-    ])
+    model = Pipeline([("scaler", StandardScaler()), ("model", model)])
 
     # Prepare features and targets for training
     X_train = df_train[features]