linkml-store 0.2.2__py3-none-any.whl → 0.2.4__py3-none-any.whl

linkml_store/api/client.py

@@ -1,3 +1,4 @@
+import importlib
 import logging
 from pathlib import Path
 from typing import Dict, Optional, Union
@@ -7,23 +8,18 @@ from linkml_runtime import SchemaView
 
 from linkml_store.api import Database
 from linkml_store.api.config import ClientConfig
-from linkml_store.api.stores.chromadb.chromadb_database import ChromaDBDatabase
-from linkml_store.api.stores.duckdb.duckdb_database import DuckDBDatabase
-from linkml_store.api.stores.filesystem.filesystem_database import FileSystemDatabase
-from linkml_store.api.stores.mongodb.mongodb_database import MongoDBDatabase
-from linkml_store.api.stores.neo4j.neo4j_database import Neo4jDatabase
-from linkml_store.api.stores.solr.solr_database import SolrDatabase
 
 logger = logging.getLogger(__name__)
 
 
+
 HANDLE_MAP = {
-    "duckdb": DuckDBDatabase,
-    "solr": SolrDatabase,
-    "mongodb": MongoDBDatabase,
-    "chromadb": ChromaDBDatabase,
-    "neo4j": Neo4jDatabase,
-    "file": FileSystemDatabase,
+    "duckdb": "linkml_store.api.stores.duckdb.duckdb_database.DuckDBDatabase",
+    "solr": "linkml_store.api.stores.solr.solr_database.SolrDatabase",
+    "mongodb": "linkml_store.api.stores.mongodb.mongodb_database.MongoDBDatabase",
+    "chromadb": "linkml_store.api.stores.chromadb.chromadb_database.ChromaDBDatabase",
+    "neo4j": "linkml_store.api.stores.neo4j.neo4j_database.Neo4jDatabase",
+    "file": "linkml_store.api.stores.filesystem.filesystem_database.FileSystemDatabase",
 }
 
 
@@ -155,6 +151,9 @@ class Client:
             if auto_attach:
                 db = self.attach_database(handle, alias=name, **kwargs)
                 db.from_config(db_config)
+            if db_config.source:
+                db = self.get_database(name)
+                db.store(db_config.source.data)
 
     def _set_database_config(self, db: Database):
         """
@@ -207,7 +206,14 @@ class Client:
             scheme, _ = handle.split(":", 1)
         if scheme not in HANDLE_MAP:
             raise ValueError(f"Unknown scheme: {scheme}")
-        cls = HANDLE_MAP[scheme]
+        module_path, class_name = HANDLE_MAP[scheme].rsplit('.', 1)
+        try:
+            module = importlib.import_module(module_path)
+            cls = getattr(module, class_name)
+        except ImportError as e:
+            raise ImportError(f"Failed to import {scheme} database. Make sure the correct extras are installed: {e}")
+
+        #cls = HANDLE_MAP[scheme]
         db = cls(handle=handle, recreate_if_exists=recreate_if_exists, **kwargs)
         if schema_view:
             db.set_schema_view(schema_view)

linkml_store/api/collection.py

@@ -470,6 +470,7 @@ class Collection(Generic[DatabaseType]):
         where: Optional[Any] = None,
         index_name: Optional[str] = None,
         limit: Optional[int] = None,
+        select_cols: Optional[List[str]] = None,
         mmr_relevance_factor: Optional[float] = None,
         **kwargs,
     ) -> QueryResult:
@@ -503,6 +504,7 @@ class Collection(Generic[DatabaseType]):
         :param where:
         :param index_name:
         :param limit:
+        :param select_cols:
         :param kwargs:
         :return:
         """
@@ -538,6 +540,11 @@ class Collection(Generic[DatabaseType]):
         results = ix.search(query, vector_pairs, limit=limit, mmr_relevance_factor=mmr_relevance_factor, **kwargs)
         for r in results:
             del r[1][index_col]
+        if select_cols:
+            new_results = []
+            for r in results:
+                new_results.append((r[0], {k: v for k, v in r[1].items() if k in select_cols}))
+            results = new_results
         new_qr = QueryResult(num_rows=len(results))
         new_qr.ranked_rows = results
         new_qr.rows = [r[1] for r in results]
@@ -672,6 +679,7 @@ class Collection(Generic[DatabaseType]):
         """
         yield from self.find({}, limit=-1).rows
 
+    @property
     def rows(self) -> List[OBJECT]:
         """
         Return a list of objects in the collection.

linkml_store/api/config.py

@@ -91,7 +91,7 @@ class CollectionConfig(ConfiguredBaseModel):
     )
     source: Optional[CollectionSource] = Field(
         default=None,
-        description="Metadata about the source",
+        description="Source for the collection",
     )
     derived_from: Optional[List[DerivationConfiguration]] = Field(
         default=None,
@@ -154,6 +154,10 @@ class DatabaseConfig(ConfiguredBaseModel):
         default=False,
         description="Whether to ensure referential integrity",
     )
+    source: Optional[CollectionSource] = Field(
+        default=None,
+        description="Source for the database",
+    )
 
 
 class ClientConfig(ConfiguredBaseModel):

linkml_store/api/stores/filesystem/filesystem_database.py

@@ -3,7 +3,7 @@ from pathlib import Path
 from typing import Optional
 
 import yaml
-from linkml.utils.schema_builder import SchemaBuilder
+from linkml_runtime.utils.schema_builder import SchemaBuilder
 from linkml_runtime import SchemaView
 
 from linkml_store.api import Database

linkml_store/cli.py

@@ -135,12 +135,17 @@ def cli(ctx, verbose: int, quiet: bool, stacktrace: bool, database, collection,
         logger.setLevel(logging.ERROR)
     ctx.ensure_object(dict)
     if input:
-        stem = underscore(Path(input).stem)
-        database = "duckdb"
-        collection = stem
+        database = "duckdb" # default: store in duckdb
+        if input.startswith("http"):
+            parts = input.split("/")
+            collection = parts[-1]
+            collection = collection.split(".")[0]
+        else:
+            stem = underscore(Path(input).stem)
+            collection = stem
+        logger.info(f"Using input file: {input}, "
+                    f"default storage is {database} and collection is {collection}")
         config = ClientConfig(databases={"duckdb": {"collections": {stem: {"source": {"local_path": input}}}}})
-        # collection = Path(input).stem
-        # database = f"file:{Path(input).parent}"
     if config is None and DEFAULT_LOCAL_CONF_PATH.exists():
         config = DEFAULT_LOCAL_CONF_PATH
     if config is None and DEFAULT_GLOBAL_CONF_PATH.exists():
@@ -178,10 +183,11 @@ def cli(ctx, verbose: int, quiet: bool, stacktrace: bool, database, collection,
 
 @cli.command()
 @click.argument("files", type=click.Path(exists=True), nargs=-1)
+@click.option("--replace/--no-replace", default=False, show_default=True, help="Replace existing objects")
 @click.option("--format", "-f", type=format_choice, help="Input format")
 @click.option("--object", "-i", multiple=True, help="Input object as YAML")
 @click.pass_context
-def insert(ctx, files, object, format):
+def insert(ctx, files, replace, object, format):
     """Insert objects from files (JSON, YAML, TSV) into the specified collection.
 
     Using a configuration:
@@ -195,7 +201,6 @@ def insert(ctx, files, object, format):
     collection = settings.collection
     if not collection:
         raise ValueError("Collection must be specified.")
-    objects = []
     if not files and not object:
         files = ["-"]
     for file_path in files:
@@ -204,13 +209,19 @@ def insert(ctx, files, object, format):
         else:
             objects = load_objects(file_path)
         logger.info(f"Inserting {len(objects)} objects from {file_path} into collection '{collection.alias}'.")
-        collection.insert(objects)
+        if replace:
+            collection.replace(objects)
+        else:
+            collection.insert(objects)
         click.echo(f"Inserted {len(objects)} objects from {file_path} into collection '{collection.alias}'.")
     if object:
         for object_str in object:
             logger.info(f"Parsing: {object_str}")
             objects = yaml.safe_load(object_str)
-            collection.insert(objects)
+            if replace:
+                collection.replace(objects)
+            else:
+                collection.insert(objects)
             click.echo(f"Inserted {len(objects)} objects from {object_str} into collection '{collection.alias}'.")
     collection.commit()
 
@@ -534,10 +545,12 @@ def pivot(ctx, where, limit, index, columns, values, output_type, output):
 @click.option("--evaluation-count", "-n", type=click.INT, help="Number of examples to evaluate over")
 @click.option("--evaluation-match-function", help="Name of function to use for matching objects in eval")
 @click.option("--query", "-q", type=click.STRING, help="query term")
+@click.option("--where", "-w", type=click.STRING, help="query term")
 @click.pass_context
 def infer(
     ctx,
     inference_config_file,
+    where,
     query,
     evaluation_count,
     evaluation_match_function,
@@ -579,6 +592,7 @@ def infer(
         linkml-store -i tests/input/iris.csv inference -t sklearn \
            -q '{"sepal_length": 5.1, "sepal_width": 3.5, "petal_length": 1.4, "petal_width": 0.2}'
     """
+    where_clause = yaml.safe_load(where) if where else None
     if query:
         query_obj = yaml.safe_load(query)
     else:
@@ -681,6 +695,7 @@ def schema(ctx, output_type, output):
 @cli.command()
 @click.argument("search_term")
 @click.option("--where", "-w", type=click.STRING, help="WHERE clause for the search")
+@click.option("--select", "-s", type=click.STRING, help="SELECT clause for the query, as YAML")
 @click.option("--limit", "-l", type=click.INT, help="Maximum number of search results")
 @click.option("--output-type", "-O", type=format_choice, default="json", help="Output format")
 @click.option("--output", "-o", type=click.Path(), help="Output file path")
@@ -689,13 +704,14 @@ def schema(ctx, output_type, output):
 )
 @index_type_option
 @click.pass_context
-def search(ctx, search_term, where, limit, index_type, output_type, output, auto_index):
+def search(ctx, search_term, where, select, limit, index_type, output_type, output, auto_index):
     """Search objects in the specified collection."""
     collection = ctx.obj["settings"].collection
     ix = get_indexer(index_type)
     logger.info(f"Attaching index to collection {collection.alias}: {ix.model_dump()}")
     collection.attach_indexer(ix, auto_index=auto_index)
-    result = collection.search(search_term, where=where, limit=limit)
+    select_cols = yaml.safe_load(select) if select else None
+    result = collection.search(search_term, where=where, select_cols=select_cols, limit=limit)
     output_data = render_output([{"score": row[0], **row[1]} for row in result.ranked_rows], output_type)
     if output:
         with open(output, "w") as f:

linkml_store/index/implementations/llm_indexer.py

@@ -3,7 +3,6 @@ from pathlib import Path
 from typing import TYPE_CHECKING, List, Optional
 
 import numpy as np
-from tiktoken import encoding_for_model
 
 from linkml_store.api.config import CollectionConfig
 from linkml_store.index.indexer import INDEX_ITEM, Indexer
@@ -55,7 +54,7 @@ class LLMIndexer(Indexer):
 
     def texts_to_vectors(self, texts: List[str], cache: bool = None, **kwargs) -> List[INDEX_ITEM]:
         """
-        Use LLM to embed
+        Use LLM to embed.
 
         >>> indexer = LLMIndexer(cached_embeddings_database="tests/input/llm_cache.db")
         >>> vectors = indexer.texts_to_vectors(["hello", "goodbye"])
@@ -63,20 +62,24 @@ class LLMIndexer(Indexer):
         :param texts:
         :return:
         """
+        from tiktoken import encoding_for_model
         logging.info(f"Converting {len(texts)} texts to vectors")
         model = self.embedding_model
-        token_limit = get_token_limit(model.model_id)
+        # TODO: make this more accurate
+        token_limit = get_token_limit(model.model_id) - 200
         encoding = encoding_for_model("gpt-4o")
 
         def truncate_text(text: str) -> str:
             # split into tokens every 1000 chars:
             parts = [text[i : i + 1000] for i in range(0, len(text), 1000)]
-            return render_formatted_text(
+            truncated = render_formatted_text(
                 lambda x: "".join(x),
                 parts,
                 encoding,
                 token_limit,
             )
+            logger.debug(f"Truncated text from {len(text)} to {len(truncated)}")
+            return truncated
 
         texts = [truncate_text(text) for text in texts]
 

linkml_store/inference/inference_engine.py

@@ -4,7 +4,7 @@ from abc import ABC
 from dataclasses import dataclass
 from enum import Enum
 from pathlib import Path
-from typing import Optional, TextIO, Tuple, Union
+from typing import Optional, TextIO, Tuple, Union, Any
 
 import pandas as pd
 from pydantic import BaseModel, ConfigDict
@@ -67,13 +67,14 @@ class CollectionSlice(BaseModel):
     # slice: Tuple[Optional[int], Optional[int]] = Field(default=(None, None))
     indices: Optional[Tuple[int, ...]] = None
     _collection: Optional[Collection] = None
+    where: Any = None
 
     @property
     def collection(self) -> Collection:
         if not self._collection and not self.indices:
             return self.base_collection
         if not self._collection:
-            rows = self.base_collection.find({}, limit=-1).rows
+            rows = self.base_collection.rows
             subset = [rows[i] for i in self.indices]
             db = self.base_collection.parent
             subset_name = self.slice_alias
@@ -94,6 +95,7 @@ class CollectionSlice(BaseModel):
         """
         Return the slice of the collection as a dataframe.
 
+        :param flattened: flattned nested objects to give keys like foo.bar
         :return:
         """
         rs = self.collection.find({}, limit=-1)

linkml_store/utils/format_utils.py

@@ -12,9 +12,9 @@ from typing import IO, Any, Dict, List, Optional, TextIO, Type, Union
 
 import pandas as pd
 import pystow
+import xmltodict
 import yaml
 from pydantic import BaseModel
-from tabulate import tabulate
 
 logger = logging.getLogger(__name__)
 
@@ -30,6 +30,7 @@ class Format(Enum):
     YAMLL = "yamll"
     TSV = "tsv"
     CSV = "csv"
+    XML = "xml"
     PYTHON = "python"
     PARQUET = "parquet"
     FORMATTED = "formatted"
@@ -50,6 +51,7 @@ class Format(Enum):
             ".yamll": cls.YAMLL,
             ".tsv": cls.TSV,
             ".csv": cls.CSV,
+            ".xml": cls.XML,
             ".py": cls.PYTHON,
             ".parquet": cls.PARQUET,
             ".pq": cls.PARQUET,
@@ -124,6 +126,8 @@ def process_file(
         delimiter = "\t" if format == Format.TSV else ","
         reader = csv.DictReader(f, delimiter=delimiter)
         objs = list(reader)
+    elif format == Format.XML:
+        objs = xmltodict.parse(f.read())
     elif format == Format.PARQUET:
         import pyarrow.parquet as pq
 
@@ -284,6 +288,7 @@ def render_output(
     elif format == Format.PYTHON:
         return str(data)
     elif format == Format.TABLE:
+        from tabulate import tabulate
         return tabulate(pd.DataFrame(data), headers="keys", tablefmt="psql")
     elif format == Format.YAML:
         if isinstance(data, list):

linkml_store/utils/llm_utils.py

@@ -1,6 +1,10 @@
-from typing import Callable, List, Optional
+import logging
+from typing import Callable, List, Optional, TYPE_CHECKING
 
-from tiktoken import Encoding
+if TYPE_CHECKING:
+    import tiktoken
+
+logger = logging.getLogger(__name__)
 
 MODEL_TOKEN_MAPPING = {
     "gpt-4o-mini": 128_000,
@@ -40,7 +44,7 @@ MODEL_TOKEN_MAPPING = {
 def render_formatted_text(
     render_func: Callable,
     values: List[str],
-    encoding: Encoding,
+    encoding: "tiktoken.Encoding",
     token_limit: int,
     additional_text: Optional[str] = None,
 ) -> str:
@@ -67,6 +71,7 @@ def render_formatted_text(
     if additional_text:
         token_limit -= len(encoding.encode(additional_text))
     text_length = len(encoding.encode(text))
+    logger.debug(f"Encoding length: {text_length} (original: {len(text)})")
     if text_length <= token_limit:
         return text
     if not values:

{linkml_store-0.2.2.dist-info → linkml_store-0.2.4.dist-info}/METADATA

@@ -1,6 +1,6 @@
-Metadata-Version: 2.1
+Metadata-Version: 2.3
 Name: linkml-store
-Version: 0.2.2
+Version: 0.2.4
 Summary: linkml-store
 License: MIT
 Author: Author 1
@@ -12,9 +12,11 @@ Classifier: Programming Language :: Python :: 3.9
 Classifier: Programming Language :: Python :: 3.10
 Classifier: Programming Language :: Python :: 3.11
 Classifier: Programming Language :: Python :: 3.12
+Classifier: Programming Language :: Python :: 3.13
+Provides-Extra: all
 Provides-Extra: analytics
 Provides-Extra: app
-Provides-Extra: chromadb
+Provides-Extra: bigquery
 Provides-Extra: fastapi
 Provides-Extra: frictionless
 Provides-Extra: h5py
@@ -29,25 +31,26 @@ Provides-Extra: scipy
 Provides-Extra: tests
 Provides-Extra: validation
 Requires-Dist: black (>=24.0.0) ; extra == "tests"
-Requires-Dist: chromadb ; extra == "chromadb"
 Requires-Dist: click
 Requires-Dist: duckdb (>=0.10.1)
 Requires-Dist: duckdb-engine (>=0.11.2)
 Requires-Dist: fastapi ; extra == "fastapi"
 Requires-Dist: frictionless ; extra == "frictionless"
 Requires-Dist: gcsfs ; extra == "ibis"
+Requires-Dist: google-cloud-bigquery ; extra == "bigquery"
 Requires-Dist: h5py ; extra == "h5py"
 Requires-Dist: ibis-framework[duckdb,examples] (>=9.3.0) ; extra == "ibis"
 Requires-Dist: jinja2 (>=3.1.4,<4.0.0)
 Requires-Dist: jsonlines (>=4.0.0,<5.0.0)
+Requires-Dist: jsonpatch (>=1.33,<2.0)
 Requires-Dist: linkml (>=1.8.0) ; extra == "validation"
 Requires-Dist: linkml-runtime (>=1.8.0)
 Requires-Dist: linkml_map ; extra == "map"
 Requires-Dist: linkml_renderer ; extra == "renderer"
-Requires-Dist: llm ; extra == "llm"
+Requires-Dist: llm ; extra == "llm" or extra == "all"
 Requires-Dist: matplotlib ; extra == "analytics"
 Requires-Dist: multipledispatch ; extra == "ibis"
-Requires-Dist: neo4j ; extra == "neo4j"
+Requires-Dist: neo4j ; extra == "neo4j" or extra == "all"
 Requires-Dist: networkx ; extra == "neo4j"
 Requires-Dist: pandas (>=2.2.1) ; extra == "analytics"
 Requires-Dist: plotly ; extra == "analytics"
@@ -62,8 +65,10 @@ Requires-Dist: scipy ; extra == "scipy"
 Requires-Dist: seaborn ; extra == "analytics"
 Requires-Dist: sqlalchemy
 Requires-Dist: streamlit (>=1.32.2,<2.0.0) ; extra == "app"
+Requires-Dist: tabulate
 Requires-Dist: tiktoken ; extra == "llm"
 Requires-Dist: uvicorn ; extra == "fastapi"
+Requires-Dist: xmltodict (>=0.13.0,<0.14.0)
 Description-Content-Type: text/markdown
 
 # linkml-store

{linkml_store-0.2.2.dist-info → linkml_store-0.2.4.dist-info}/RECORD

@@ -1,8 +1,8 @@
 linkml_store/__init__.py,sha256=jlU6WOUAn8cKIhzbTULmBTWpW9gZdEt7q_RI6KZN1bY,118
 linkml_store/api/__init__.py,sha256=3CelcFEFz0y3MkQAzhQ9JxHIt1zFk6nYZxSmYTo8YZE,226
-linkml_store/api/client.py,sha256=3klBXenQVbLjNQF3WmYfjASt3zvKOfWaCNp5aJM81Ec,12034
-linkml_store/api/collection.py,sha256=YVmfqdZaWfLAw3yzho-GEknsAiV1h5Z3O6csB_8CTY0,39407
-linkml_store/api/config.py,sha256=71pxQ5jM-ETxJWU7CzmKjsH6IEJUMP5sml381u9TYVk,5654
+linkml_store/api/client.py,sha256=wFVgl1NUovaKLqNVUEt9dsnoIzjzqFvktJVncAupdE4,12362
+linkml_store/api/collection.py,sha256=CGvWxH7HRhjDt9Cp3SGdMqyhYx7Q4fRKUtAJV74_l0g,39711
+linkml_store/api/config.py,sha256=pOz210JIwkEEXtfjcsZBp1UEedkBu8RkH62Qa1b4exI,5777
 linkml_store/api/database.py,sha256=nvae8jnOZsQIFCsl_lRBnKcvrpJg4A10ujIKGeMyUS8,29350
 linkml_store/api/queries.py,sha256=tx9fgGY5fC_2ZbIvg4BqTK_MXJwA_DI4mxr8HdQ6Vos,2075
 linkml_store/api/stores/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
@@ -15,7 +15,7 @@ linkml_store/api/stores/duckdb/duckdb_database.py,sha256=GH9bcOfHpNp6r-Eu1C3W0xu
 linkml_store/api/stores/duckdb/mappings.py,sha256=tDce3W1Apwammhf4LS6cRJ0m4NiJ0eB7vOI_4U5ETY8,148
 linkml_store/api/stores/filesystem/__init__.py,sha256=KjvCjdttwqMHNeGyL-gr59zRz0--HFEWWUNNCJ5hITs,347
 linkml_store/api/stores/filesystem/filesystem_collection.py,sha256=9gqY2KRZsn_RWk4eKkxFd3_wcxs5YaXvcBI7GGJBMGE,6751
-linkml_store/api/stores/filesystem/filesystem_database.py,sha256=sV-lueyrh3R6edyWkwN6qKa7yjPc8PIcF1rxgox6oA4,2875
+linkml_store/api/stores/filesystem/filesystem_database.py,sha256=e9hSGoaOxr_sG_RhjgzV_yvdQ_xbHHXHJDtufWzAX4E,2883
 linkml_store/api/stores/hdf5/__init__.py,sha256=l4cIh3v7P0nPbwGIsfuCMD_serQ8q8c7iuUA9W2Jb4o,97
 linkml_store/api/stores/hdf5/hdf5_collection.py,sha256=mnpLMYehn3PuaIjp2dXrIWu8jh-bdQ84X2Ku83jMdEY,3805
 linkml_store/api/stores/hdf5/hdf5_database.py,sha256=EZbjrpaqiNDEFvoD5dZNcGBXA8z6HRNL81emueTZWNw,2714
@@ -30,13 +30,13 @@ linkml_store/api/stores/solr/solr_collection.py,sha256=ZlxC3JbVaHfSA4HuTeJTsp6qe
 linkml_store/api/stores/solr/solr_database.py,sha256=TFjqbY7jAkdrhAchbNg0E-mChSP7ogNwFExslbvX7Yo,2877
 linkml_store/api/stores/solr/solr_utils.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 linkml_store/api/types.py,sha256=3aIQtDFMvsSmjuN5qrR2vNK5sHa6yzD_rEOPA6tHwvg,176
-linkml_store/cli.py,sha256=wl8BhnPcSU6Lt-jsvN1o6086PpUAfu43n5GI6w9SGxw,29384
+linkml_store/cli.py,sha256=bWbWQita8KCBjzovBRzQqHtjbRrf7Ttxq0Fe8zrDuds,30235
 linkml_store/constants.py,sha256=x4ZmDsfE9rZcL5WpA93uTKrRWzCD6GodYXviVzIvR38,112
 linkml_store/graphs/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 linkml_store/graphs/graph_map.py,sha256=bYRxv8n1YPnFqE9d6JKNmRawb8EAhsPlHhBue0gvtZE,712
 linkml_store/index/__init__.py,sha256=6SQzDe-WZSSqbGNsbCDfyPTyz0s9ISDKw1dm9xgQuT4,1396
 linkml_store/index/implementations/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-linkml_store/index/implementations/llm_indexer.py,sha256=y1xvfUm_rl4UEiWJbsUsEnTCma98XRB9C1XOnuaAv5o,5474
+linkml_store/index/implementations/llm_indexer.py,sha256=ja7UXhQj7F0g6HiRIJ8EBPuM86nOgr49jkh7eh_nCHs,5644
 linkml_store/index/implementations/simple_indexer.py,sha256=KnkFJtXTHnwjhD_D6ZK2rFhBID1dgCedcOVPEWAY2NU,1282
 linkml_store/index/indexer.py,sha256=e5dsjh2wjOTDRsfClKJAFTbcK1UC7BOGkUCOfDg9omI,7635
 linkml_store/inference/__init__.py,sha256=b8NAFNZjOYU_8gOvxdyCyoiHOOl5Ai2ckKs1tv7ZkkY,342
@@ -46,14 +46,14 @@ linkml_store/inference/implementations/rag_inference_engine.py,sha256=mN7YQI-BeZ
 linkml_store/inference/implementations/rule_based_inference_engine.py,sha256=0IEY_fsHJPJy6QKbYQU_qE87RRnPOXQxPuJKXCQG8jU,6250
 linkml_store/inference/implementations/sklearn_inference_engine.py,sha256=Sdi7CoRK3qoLJu3prgLy1Ck_zQ1gHWRKFybHe7XQ4_g,13192
 linkml_store/inference/inference_config.py,sha256=EFGdigxWsfTPREbgqyJVRShN0JktCEmFLLoECrLfXSg,2282
-linkml_store/inference/inference_engine.py,sha256=l2UB6cA0rW7a9qyiv8JF5Nzj8nRHGX_yqMYbiDnY1Qc,7055
+linkml_store/inference/inference_engine.py,sha256=IxQIOgmXCDI8ilCGtoaVA_1wFROUg4uH1_yGbX78N2U,7139
 linkml_store/inference/inference_engine_registry.py,sha256=6o66gvBYBwdeAKm62zqqvfaBlcopVP_cla3L6uXGsHA,3015
 linkml_store/utils/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 linkml_store/utils/change_utils.py,sha256=O2rvSvgTKB60reLLz9mX5OWykAA_m93bwnUh5ZWa0EY,471
 linkml_store/utils/file_utils.py,sha256=rQ7-XpmI6_Kx_dhEnI98muFRr0MmgI_kZ_9cgJBf_0I,1411
-linkml_store/utils/format_utils.py,sha256=airJ2_tFsr0dTIbSHT5y0TZbDrvBBV4_qThFPFY5k8U,10925
+linkml_store/utils/format_utils.py,sha256=sjpdJJ8Ww2ilm03mQt_v4QkZvQMymqUeTiPS3U1ViKM,11067
 linkml_store/utils/io.py,sha256=JHUrWDtlZC2jtN_PQZ4ypdGIyYlftZEN3JaCvEPs44w,884
-linkml_store/utils/llm_utils.py,sha256=3jRFUtEywoKdomKb3aCH1GdI9hQJOQo8Udb3Jy4M-Xw,2885
+linkml_store/utils/llm_utils.py,sha256=0lvR_lBSDSuP-0Eum16QBUsSv8sWfDjZPz_MnDSPvn0,3048
 linkml_store/utils/mongodb_utils.py,sha256=Rl1YmMKs1IXwSsJIViSDChbi0Oer5cBnMmjka2TeQS8,4665
 linkml_store/utils/neo4j_utils.py,sha256=y3KPmDZ8mQmePgg0lUeKkeKqzEr2rV226xxEtHc5pRg,1266
 linkml_store/utils/object_utils.py,sha256=Vib-5Ip2DlRVKLZpU-008ZZI813-vfKVSCY0TksRenM,6293
@@ -73,8 +73,8 @@ linkml_store/webapi/html/database_details.html.j2,sha256=qtXdavbZb0mohiObI9dvJtk
 linkml_store/webapi/html/databases.html.j2,sha256=a9BCWQYfPeFhdUd31CWhB0yWhTIFXQayO08JgjyqKoc,294
 linkml_store/webapi/html/generic.html.j2,sha256=KtLaO2HUEF2Opq-OwHKgRKetNWe8IWc6JuIkxRPsywk,1018
 linkml_store/webapi/main.py,sha256=B0Da575kKR7X88N9ykm99Dem8FyBAW9f-w3A_JwUzfw,29165
-linkml_store-0.2.2.dist-info/LICENSE,sha256=77mDOslUnalYnuq9xQYZKtIoNEzcH9mIjvWHOKjamnE,1086
-linkml_store-0.2.2.dist-info/METADATA,sha256=_zde_tfX6AAw1ZvM1LnYOmzkQbiz6f3rQhVyBKODdnE,6977
-linkml_store-0.2.2.dist-info/WHEEL,sha256=sP946D7jFCHeNz5Iq4fL4Lu-PrWrFsgfLXbbkciIZwg,88
-linkml_store-0.2.2.dist-info/entry_points.txt,sha256=gWxVsHqx-t-UKWFHFzawQTvs4is4vC1rCF5AeKyqWWk,101
-linkml_store-0.2.2.dist-info/RECORD,,
+linkml_store-0.2.4.dist-info/LICENSE,sha256=77mDOslUnalYnuq9xQYZKtIoNEzcH9mIjvWHOKjamnE,1086
+linkml_store-0.2.4.dist-info/METADATA,sha256=PJX-_TSPk6WDXDCmvuFDUb5649ECQc2N6zP4pWqhBvU,7204
+linkml_store-0.2.4.dist-info/WHEEL,sha256=IYZQI976HJqqOpQU6PHkJ8fb3tMNBFjg-Cn-pwAbaFM,88
+linkml_store-0.2.4.dist-info/entry_points.txt,sha256=gWxVsHqx-t-UKWFHFzawQTvs4is4vC1rCF5AeKyqWWk,101
+linkml_store-0.2.4.dist-info/RECORD,,

{linkml_store-0.2.2.dist-info → linkml_store-0.2.4.dist-info}/WHEEL

@@ -1,4 +1,4 @@
 Wheel-Version: 1.0
-Generator: poetry-core 1.9.0
+Generator: poetry-core 2.0.1
 Root-Is-Purelib: true
 Tag: py3-none-any