deriva-ml 1.14.32__py3-none-any.whl → 1.14.34__py3-none-any.whl

deriva_ml/core/base.py

@@ -117,7 +117,7 @@ class DerivaML(Dataset):
         cache_dir: str | Path | None = None,
         working_dir: str | Path | None = None,
         ml_schema: str = ML_SCHEMA,
-        logging_level=logging.INFO,
+        logging_level=logging.WARNING,
         credential=None,
         use_minid: bool = True,
     ):

deriva_ml/feature.py

@@ -52,6 +52,7 @@ class FeatureRecord(BaseModel):
 
     class Config:
         arbitrary_types_allowed = True
+        extra = "forbid"
 
     @classmethod
     def feature_columns(cls) -> set[Column]:

deriva_ml/run_notebook.py

@@ -95,7 +95,7 @@ class DerivaMLRunNotebookCLI(BaseCLI):
             exit(1)
 
         os.environ["DERIVA_HOST"] = args.host
-        os.environ["DERIVA_CATALOG_ID"] = args.catalog
+        os.environ["DERIVA_CATALOG"] = args.catalog
 
         # Create a workflow instance for this specific version of the script.
         # Return an existing workflow if one is found.
@@ -106,14 +106,14 @@ class DerivaMLRunNotebookCLI(BaseCLI):
             return
         else:
             notebook_parameters = (
-                {"host": args.host, "catalog_id": args.catalog, "catalog": args.catalog}
-                | {k: v["default"] for k, v in notebook_parameters.items()}
+                {k: v["default"] for k, v in notebook_parameters.items()}
+                | {"host": args.host, "hostname": args.host, "catalog_id": args.catalog, "catalog": args.catalog}
                 | parameters
             )
             print(f"Running notebook {notebook_file.name} with parameters:")
             for param, value in notebook_parameters.items():
                 print(f"  {param}:{value}")
-            self.run_notebook(notebook_file.resolve(), parameters, kernel=args.kernel, log=args.log_output)
+            self.run_notebook(notebook_file.resolve(), parameters, kernel=args.kernel[0], log=args.log_output)
 
     def run_notebook(self, notebook_file, parameters, kernel=None, log=False):
         url, checksum = Workflow.get_url_and_checksum(Path(notebook_file))

{deriva_ml-1.14.32.dist-info → deriva_ml-1.14.34.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: deriva-ml
-Version: 1.14.32
+Version: 1.14.34
 Summary: Utilities to simplify use of Dervia and Pandas to create reproducable ML pipelines
 Author-email: ISRD <isrd-dev@isi.edu>
 Requires-Python: >=3.10
@@ -25,10 +25,9 @@ Deriva-ML is a python library to simplify the process of creating and executing
 using a deriva catalog.
 
 
-## Installing the GitHub CLI
+Complete on-line documentation for DerivaML can be found [here](https://informatics-isi-edu.github.io/deriva-ml/)
 
-The script release.sh will create a new release tag in GitHub.  This script requires the 
-GitHUB CLI be installed. 
+To get started using DerivaML, you can clone the [model template repository](https://github.com/informatics-isi-edu/deriva-ml-model-template), and modify it to suite your requirements.
 
-See [https://cli.github.com](https://cli.github.com) for instructions on how to install and configure the CLI.
 
+## References

{deriva_ml-1.14.32.dist-info → deriva_ml-1.14.34.dist-info}/RECORD

@@ -1,9 +1,9 @@
 deriva_ml/__init__.py,sha256=_aMdxGG4mRTcXodLZLNpXqH8v5uqMbqFUryE9KqNSB8,1158
 deriva_ml/demo_catalog.py,sha256=JjPAIac_hKPh5krEhGJydjXquRnivi7kQoR8W4Khp-s,14928
-deriva_ml/feature.py,sha256=L1XUXLWGnUGCjkxX5KsGu0I8SaUTJG7eDs__yUCWuCY,8445
-deriva_ml/run_notebook.py,sha256=BvLtkD_uizukqkAYoSUb1teIfuBWtKKcHSyJoAnAC4c,6496
+deriva_ml/feature.py,sha256=6-aphkxdKjWa9oPSGFWxHcwAc_8hmWj-7I4M178YG5Y,8470
+deriva_ml/run_notebook.py,sha256=XPZPtGDLv0Ej6dcqIwA1dx_ya1Z9kzsP7um473WtLpU,6519
 deriva_ml/core/__init__.py,sha256=V_i90pc5PB1F4UdOO6DZWzpEFaZDTaPRU-EzKXQ19eI,787
-deriva_ml/core/base.py,sha256=-cV-mgADLwK2BAUxOauRB99GUDQpPS7qZP33DLXpRCY,61087
+deriva_ml/core/base.py,sha256=uG7xyVk12fXXWipusRmaBGplxbdlnN9sIOGAEHWD8i8,61090
 deriva_ml/core/constants.py,sha256=6wBJ8qMxe-dbCjRGrjUIX-RK0mTWrLDTeUpaVbLFoM8,888
 deriva_ml/core/definitions.py,sha256=uq_8uYFBVBVHS691Ri2kdQsN37z0GNYTaZskJIb_ocM,1385
 deriva_ml/core/enums.py,sha256=sSN4B4OynbB-AXwxRszoFr-KWIWIAfhVa06EzAEHwVc,7194
@@ -32,9 +32,9 @@ deriva_ml/schema/create_schema.py,sha256=0ydJSZEg3C3-m8hWPN6k2MoUvm-RWxAlKFzVChx
 deriva_ml/schema/deriva-ml-reference.json,sha256=AEOMIgwKO3dNMMWHb0lxaXyamvfAEbUPh8qw0aAtsUQ,242460
 deriva_ml/schema/policy.json,sha256=5ykB8nnZFl-oCHzlAwppCFKJHWJFIkYognUMVEanfY8,1826
 deriva_ml/schema/table_comments_utils.py,sha256=4flCqnZAaqg_uSZ9I18pNUWAZoLfmMCXbmI5uERY5vM,2007
-deriva_ml-1.14.32.dist-info/licenses/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
-deriva_ml-1.14.32.dist-info/METADATA,sha256=_asZgskBD4cnJX51XQZCe97TSTNswWzAREQSyCA1uLs,1065
-deriva_ml-1.14.32.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
-deriva_ml-1.14.32.dist-info/entry_points.txt,sha256=dkf_z7E4V6_3_5Xjsm0hcixNg6ASHDw6NfYQuBvF1Wc,363
-deriva_ml-1.14.32.dist-info/top_level.txt,sha256=I1Q1dkH96cRghdsFRVqwpa2M7IqJpR2QPUNNc5-Bnpw,10
-deriva_ml-1.14.32.dist-info/RECORD,,
+deriva_ml-1.14.34.dist-info/licenses/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
+deriva_ml-1.14.34.dist-info/METADATA,sha256=tfSeZzxb5yLv_hivz1uDVLqv2zQrXNjy4zsPS0iJW30,1122
+deriva_ml-1.14.34.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
+deriva_ml-1.14.34.dist-info/entry_points.txt,sha256=dkf_z7E4V6_3_5Xjsm0hcixNg6ASHDw6NfYQuBvF1Wc,363
+deriva_ml-1.14.34.dist-info/top_level.txt,sha256=I1Q1dkH96cRghdsFRVqwpa2M7IqJpR2QPUNNc5-Bnpw,10
+deriva_ml-1.14.34.dist-info/RECORD,,