Dev madina

app/config/params.ini

@@ -1,34 +1,13 @@
-[llm_preview]
-id = gpt-5.4
-temperature = 0.3
-max_retries = 3
-
 [llm_o]
 id = gpt-5.5
 temperature = 0
 max_retries = 3
 
-
 [llm_mini]
 id = gpt-5.4-mini
 temperature = 0
 max_retries = 3
 
-[llm_o3_mini]
-id = gpt-5.4-mini
-temperature = 1
-max_retries = 3
-
-[llm_gpt_5]
-id = gpt-5.5
-temperature = 1
-max_retries = 3
-
-[llm_o1]
-id = gpt-5.5
-temperature = 1
-max_retries = 3
-
 [deepseek_deepseek-chat]
 id = deepseek-v4-flash
 temperature = 0
@@ -48,8 +27,8 @@ max_retries = 3
 base_url = https://oai.endpoints.kepler.ai.cloud.ovh.net/v1
 
 [llm_litellm_openai]
-id = gpt-5.4
-temperature = 0
+id = gpt-5.5
+temperature = 1
 
 
 [llm_litellm_deepseek]
@@ -60,7 +39,7 @@ id = deepseek/deepseek-v4-flash
 id = claude-opus-4-7
 
 [llm_litellm_gemini]
-id = gemini/gemini-2.5-pro
+id = gemini/gemini-3-pro-preview
 
 [llm_litellm_mistral]
-id = mistral/mistral-small-latest
+id = mistral/mistral-large-latest

app/core/agents/sparql/tool_sparql.py

@@ -250,7 +250,7 @@ def __init__(
                 # verbose=True,  #### FOR debugging
             )
             self.sparql_improvement_chain = LLMChain(
-                llm=llm["llm_o3_mini"],
+                llm=llm["llm_mini"],
                 prompt=SPARQL_IMPROVEMENT_PROMPT,
             )
         except KeyError as e:

app/core/llm_handler.py

@@ -22,7 +22,7 @@ def llm_creation(api_key: Optional[str] = None) -> Dict[str, ChatOpenAI]:
     logger.info(f"Loading configuration from {config_path}")
     config.read(config_path)
 
-    sections = ["llm", "llm_preview", "llm_o", "llm_mini", "llm_o3_mini", "llm_o1"]
+    sections = ["llm_o", "llm_mini"]
     models = {}
 
     # Get the OpenAI API key from the argument or environment variables

app/core/tests/test_sparql_tool.py

@@ -112,7 +112,7 @@ def fake_load_local(path, embeddings, allow_dangerous_deserialization=False):
     monkeypatch.setattr(tool_sparql.FAISS, "load_local", fake_load_local)
 
     tool = tool_sparql.GraphSparqlQAChain(
-        llm={"llm_o": object(), "llm_o3_mini": object()},
+        llm={"llm_o": object(), "llm_mini": object()},
         graph=object(),
         session_id="session-123",
         openai_key=None,

docs/api-reference/agents.md

@@ -327,7 +327,7 @@ Modify the supervisor prompt (see [supervisor prompt](https://github.com/holobio
 ### Configuration Updates
 Update [`app/config/langgraph.json`](https://github.com/HolobiomicsLab/MetaboT/blob/main/app/config/langgraph.json) to include your agent in the workflow and specify `llm_choice` based on the models defined in [`app/config/params.ini`](https://github.com/HolobiomicsLab/MetaboT/blob/main/app/config/params.ini). Available models include:
 
-- OpenAI models: `llm_preview`, `llm_o`, `llm_mini`
+- OpenAI models: `llm_o`, `llm_mini`
 - OVH models: `ovh_Meta-Llama-3_1-70B-Instruct`
 - Deepseek models: `deepseek_deepseek-chat`, `deepseek_deepseek-reasoner`
 - LiteLLM compatible models: `llm_litellm_openai`, `llm_litellm_deepseek`, `llm_litellm_claude`, `llm_litellm_gemini`

docs/user-guide/configuration.md

@@ -21,12 +21,8 @@ MetaboT reads language model definitions from `app/config/params.ini`.
 
 | Section | Purpose |
 | --- | --- |
-| `llm_preview` | GPT-4o preview-style configuration |
 | `llm_o` | primary OpenAI model configuration |
-| `llm_mini` | lower-cost GPT-4o mini option |
-| `llm_o3_mini` | reasoning-oriented OpenAI configuration |
-| `llm_gpt_5` | GPT-5 configuration example |
-| `llm_o1` | O1 configuration example |
+| `llm_mini` | secondary OpenAI model used for the SPARQL improvement chain |
 | `deepseek_deepseek-chat` | DeepSeek chat endpoint |
 | `deepseek_deepseek-reasoner` | DeepSeek reasoner endpoint |
 | `ovh_Meta-Llama-3_1-70B-Instruct` | OVH-hosted Llama endpoint |

mkdocs.yml

@@ -170,6 +170,7 @@ nav:
     - Graph Management: api-reference/graph-management.md
   - Examples:
     - Basic Usage: examples/basic-usage.md
+    - LangSmith Evaluation: examples/langsmith-evaluation.md
 
   - Contributing: contributing.md