M4

{ "name": "Blood Microbiology Patient Count", "pinned": false, "createdAt": 1758964859048, "preset": "@local:m3-benchmark", "tokenCount": 2632, "systemPrompt": "", "messages": [ { "versions": [ { "type": "singleStep", "role": "user", "content": [ { "type": "text", "text": "Calculate the patients who received a serology/blood microbiology test since 2100.\n\nSet the current time to be “2100-12-31 23:59:00” when using m3 mcp." } ] } ], "currentlySelected": 0 }, { "versions": [ { "type": "multiStep", "role": "assistant", "steps": [ { "type": "contentBlock", "stepIdentifier": "1758964878950-0.4581475269738682", "content": [ { "type": "text", "text": "The user asks: \"Calculate the patients who received a serology/blood microbiology test since 2100.\"\n\nAlso instructs: \"Set the current time to be '2100-12-31 23:59:00' when using m3 mcp.\"\n\nWe need to run query. Which tables contain blood microbiology tests? In MIMIC-IV, lab results are in labevents and maybe microbe data in microbiologyevents. But serology/blood microbiology test? Possibly from microbiologyevents or lab events with specific itemids.\n\nBut easier: use get_lab_results or get_database_schema to inspect tables. Use get_database_schema then get_table_info for relevant table, then query.\n\nWe can use get_lab_results convenience function specifying lab_item filter maybe \"blood culture\" etc. But user wants count of patients who received a serology/blood microbiology test since 2100 (the date). So we need to consider records after 2100-01-01. The database likely has timestamps in datetime format.\n\nWe must set current time to 2100-12-31 for context? Not sure but maybe they want to use \"now\" in query, but we can just filter by timestamp >= '2100-01-01'.\n\nUse execute_mimic_query: SELECT COUNT(DISTINCT subject_id) FROM labevents WHERE charttime >= '2100-01-01' AND itemid IN (list of serology/blood microbiology test ids). But we don't know the list.\n\nAlternatively use microbiologyevents table: It has specimen_type etc. We can filter by specimen_type='blood'. Use chartdate or sample_date.\n\nThus query: SELECT COUNT(DISTINCT subject_id) FROM microbiologyevents WHERE sample_datetime >= '2100-01-01' AND specimen_type LIKE '%blood%'.\n\nBut we need to confirm table names and columns via get_database_schema. Let's first call get_database_schema().\n\n", "fromDraftModel": false, "tokensCount": 401, "isStructural": false } ], "defaultShouldIncludeInContext": true, "shouldIncludeInContext": true, "style": { "type": "thinking", "ended": true, "title": "Thought for 7.98 seconds" }, "prefix": "<|channel|>analysis<|message|>", "suffix": "<|end|>" }, { "type": "toolStatus", "stepIdentifier": "1758964887118-0.5395800522857666", "callId": 849489520601001, "statusState": { "status": { "type": "toolCallSucceeded", "timeMs": 30 }, "customStatus": "", "customWarnings": [] } }, { "type": "contentBlock", "stepIdentifier": "1758964887294-0.9837003972071078", "content": [ { "type": "toolCallRequest", "callId": 849489520601001, "toolCallRequestId": "509499330", "name": "get_database_schema", "parameters": {}, "pluginIdentifier": "mcp/m3" } ], "defaultShouldIncludeInContext": true, "shouldIncludeInContext": true, "genInfo": { "indexedModelIdentifier": "openai/gpt-oss-20b", "identifier": "openai/gpt-oss-20b", "loadModelConfig": { "fields": [ { "key": "llm.load.llama.cpuThreadPoolSize", "value": 7 }, { "key": "llm.load.contextLength", "value": 32000 }, { "key": "llm.load.numExperts", "value": 4 }, { "key": "llm.load.llama.acceleration.offloadRatio", "value": 1 } ] }, "predictionConfig": { "fields": [ { "key": "llm.prediction.promptTemplate", "value": { "type": "jinja", "jinjaPromptTemplate": { "template": "{#-\n In addition to the normal inputs of `messages` and `tools`, this template also accepts the\n following kwargs:\n - \"builtin_tools\": A list, can contain \"browser\" and/or \"python\".\n - \"model_identity\": A string that optionally describes the model identity.\n - \"reasoning_effort\": A string that describes the reasoning effort, defaults to \"medium\".\n #}\n\n{#- Tool Definition Rendering ============================================== #}\n{%- macro render_typescript_type(param_spec, required_params, is_nullable=false) -%}\n {%- if param_spec.type == \"array\" -%}\n {%- if param_spec['items'] -%}\n {%- if param_spec['items']['type'] == \"string\" -%}\n {{- \"string[]\" }}\n {%- elif param_spec['items']['type'] == \"number\" -%}\n {{- \"number[]\" }}\n {%- elif param_spec['items']['type'] == \"integer\" -%}\n {{- \"number[]\" }}\n {%- elif param_spec['items']['type'] == \"boolean\" -%}\n {{- \"boolean[]\" }}\n {%- else -%}\n {%- set inner_type = render_typescript_type(param_spec['items'], required_params) -%}\n {%- if inner_type == \"object | object\" or inner_type|length > 50 -%}\n {{- \"any[]\" }}\n {%- else -%}\n {{- inner_type + \"[]\" }}\n {%- endif -%}\n {%- endif -%}\n {%- if param_spec.nullable -%}\n {{- \" | null\" }}\n {%- endif -%}\n {%- else -%}\n {{- \"any[]\" }}\n {%- if param_spec.nullable -%}\n {{- \" | null\" }}\n {%- endif -%}\n {%- endif -%}\n {%- elif param_spec.type is defined and param_spec.type is iterable and param_spec.type is not string and param_spec.type is not mapping and param_spec.type[0] is defined -%}\n {#- Handle array of types like [\"object\", \"object\"] from Union[dict, list] #}\n {%- if param_spec.type | length > 1 -%}\n {{- param_spec.type | join(\" | \") }}\n {%- else -%}\n {{- param_spec.type[0] }}\n {%- endif -%}\n {%- elif param_spec.oneOf -%}\n {#- Handle oneOf schemas - check for complex unions and fallback to any #}\n {%- set has_object_variants = false -%}\n {%- for variant in param_spec.oneOf -%}\n {%- if variant.type == \"object\" -%}\n {%- set has_object_variants = true -%}\n {%- endif -%}\n {%- endfor -%}\n {%- if has_object_variants and param_spec.oneOf|length > 1 -%}\n {{- \"any\" }}\n {%- else -%}\n {%- for variant in param_spec.oneOf -%}\n {{- render_typescript_type(variant, required_params) -}}\n {%- if variant.description %}\n {{- \"// \" + variant.description }}\n {%- endif -%}\n {%- if variant.default is defined %}\n {{ \"// default: \" + variant.default|tojson }}\n {%- endif -%}\n {%- if not loop.last %}\n {{- \" | \" }}\n {% endif -%}\n {%- endfor -%}\n {%- endif -%}\n {%- elif param_spec.type == \"string\" -%}\n {%- if param_spec.enum -%}\n {{- '\"' + param_spec.enum|join('\" | \"') + '\"' -}}\n {%- else -%}\n {{- \"string\" }}\n {%- if param_spec.nullable %}\n {{- \" | null\" }}\n {%- endif -%}\n {%- endif -%}\n {%- elif param_spec.type == \"number\" -%}\n {{- \"number\" }}\n {%- elif param_spec.type == \"integer\" -%}\n {{- \"number\" }}\n {%- elif param_spec.type == \"boolean\" -%}\n {{- \"boolean\" }}\n\n {%- elif param_spec.type == \"object\" -%}\n {%- if param_spec.properties -%}\n {{- \"{\n\" }}\n {%- for prop_name, prop_spec in param_spec.properties.items() -%}\n {{- prop_name -}}\n {%- if prop_name not in (param_spec.required or []) -%}\n {{- \"?\" }}\n {%- endif -%}\n {{- \": \" }}\n {{ render_typescript_type(prop_spec, param_spec.required or []) }}\n {%- if not loop.last -%}\n {{-\", \" }}\n {%- endif -%}\n {%- endfor -%}\n {{- \"}\" }}\n {%- else -%}\n {{- \"object\" }}\n {%- endif -%}\n {%- else -%}\n {{- \"any\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{%- macro render_tool_namespace(namespace_name, tools) -%}\n {{- \"## \" + namespace_name + \"\n\n\" }}\n {{- \"namespace \" + namespace_name + \" {\n\n\" }}\n {%- for tool in tools %}\n {%- set tool = tool.function %}\n {{- \"// \" + tool.description + \"\n\" }}\n {{- \"type \"+ tool.name + \" = \" }}\n {%- if tool.parameters and tool.parameters.properties %}\n {{- \"(_: {\n\" }}\n {%- for param_name, param_spec in tool.parameters.properties.items() %}\n {%- if param_spec.description %}\n {{- \"// \" + param_spec.description + \"\n\" }}\n {%- endif %}\n {{- param_name }}\n {%- if param_name not in (tool.parameters.required or []) -%}\n {{- \"?\" }}\n {%- endif -%}\n {{- \": \" }}\n {{- render_typescript_type(param_spec, tool.parameters.required or []) }}\n {%- if param_spec.default is defined -%}\n {%- if param_spec.enum %}\n {{- \", // default: \" + param_spec.default }}\n {%- elif param_spec.oneOf %}\n {{- \"// default: \" + param_spec.default }}\n {%- else %}\n {{- \", // default: \" + param_spec.default|tojson }}\n {%- endif -%}\n {%- endif -%}\n {%- if not loop.last %}\n {{- \",\n\" }}\n {%- else %}\n {{- \"\n\" }}\n {%- endif -%}\n {%- endfor %}\n {{- \"}) => any;\n\n\" }}\n {%- else -%}\n {{- \"() => any;\n\n\" }}\n {%- endif -%}\n {%- endfor %}\n {{- \"} // namespace \" + namespace_name }}\n{%- endmacro -%}\n\n{%- macro render_builtin_tools(browser_tool, python_tool) -%}\n {%- if browser_tool %}\n {{- \"## browser\n\n\" }}\n {{- \"// Tool for browsing.\n\" }}\n {{- \"// The `cursor` appears in brackets before each browsing display: `[{cursor}]`.\n\" }}\n {{- \"// Cite information from the tool using the following format:\n\" }}\n {{- \"// `【{cursor}†L{line_start}(-L{line_end})?】`, for example: `【6†L9-L11】` or `【8†L3】`.\n\" }}\n {{- \"// Do not quote more than 10 words directly from the tool output.\n\" }}\n {{- \"// sources=web (default: web)\n\" }}\n {{- \"namespace browser {\n\n\" }}\n {{- \"// Searches for information related to `query` and displays `topn` results.\n\" }}\n {{- \"type search = (_: {\n\" }}\n {{- \"query: string,\n\" }}\n {{- \"topn?: number, // default: 10\n\" }}\n {{- \"source?: string,\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"// Opens the link `id` from the page indicated by `cursor` starting at line number `loc`, showing `num_lines` lines.\n\" }}\n {{- \"// Valid link ids are displayed with the formatting: `【{id}†.*】`.\n\" }}\n {{- \"// If `cursor` is not provided, the most recent page is implied.\n\" }}\n {{- \"// If `id` is a string, it is treated as a fully qualified URL associated with `source`.\n\" }}\n {{- \"// If `loc` is not provided, the viewport will be positioned at the beginning of the document or centered on the most relevant passage, if available.\n\" }}\n {{- \"// Use this function without `id` to scroll to a new location of an opened page.\n\" }}\n {{- \"type open = (_: {\n\" }}\n {{- \"id?: number | string, // default: -1\n\" }}\n {{- \"cursor?: number, // default: -1\n\" }}\n {{- \"loc?: number, // default: -1\n\" }}\n {{- \"num_lines?: number, // default: -1\n\" }}\n {{- \"view_source?: boolean, // default: false\n\" }}\n {{- \"source?: string,\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"// Finds exact matches of `pattern` in the current page, or the page given by `cursor`.\n\" }}\n {{- \"type find = (_: {\n\" }}\n {{- \"pattern: string,\n\" }}\n {{- \"cursor?: number, // default: -1\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"} // namespace browser\n\n\" }}\n {%- endif -%}\n\n {%- if python_tool %}\n {{- \"## python\n\n\" }}\n {{- \"Use this tool to execute Python code in your chain of thought. The code will not be shown to the user. This tool should be used for internal reasoning, but not for code that is intended to be visible to the user (e.g. when creating plots, tables, or files).\n\n\" }}\n {{- \"When you send a message containing Python code to python, it will be executed in a stateful Jupyter notebook environment. python will respond with the output of the execution or time out after 120.0 seconds. The drive at '/mnt/data' can be used to save and persist user files. Internet access for this session is UNKNOWN. Depends on the cluster.\n\n\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{#- System Message Construction ============================================ #}\n{%- macro build_system_message() -%}\n {%- if model_identity is not defined %}\n {%- set model_identity = \"You are ChatGPT, a large language model trained by OpenAI.\" %}\n {%- endif %}\n {{- model_identity + \"\n\" }}\n {{- \"Knowledge cutoff: 2024-06\n\" }}\n {{- \"Current date: \" + strftime_now(\"%Y-%m-%d\") + \"\n\n\" }}\n {%- if reasoning_effort is not defined %}\n {%- set reasoning_effort = \"medium\" %}\n {%- endif %}\n {{- \"Reasoning: \" + reasoning_effort + \"\n\n\" }}\n {%- if builtin_tools %}\n {{- \"# Tools\n\n\" }}\n {%- set available_builtin_tools = namespace(browser=false, python=false) %}\n {%- for tool in builtin_tools %}\n {%- if tool == \"browser\" %}\n {%- set available_builtin_tools.browser = true %}\n {%- elif tool == \"python\" %}\n {%- set available_builtin_tools.python = true %}\n {%- endif %}\n {%- endfor %}\n {{- render_builtin_tools(available_builtin_tools.browser, available_builtin_tools.python) }}\n {%- endif -%}\n {{- \"# Valid channels: analysis, commentary, final. Channel must be included for every message.\" }}\n {%- if tools -%}\n {{- \"\nCalls to these tools must go to the commentary channel: 'functions'.\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{#- Main Template Logic ================================================= #}\n{#- Set defaults #}\n\n{#- Render system message #}\n{{- \"<|start|>system<|message|>\" }}\n{{- build_system_message() }}\n{{- \"<|end|>\" }}\n\n{#- Extract developer message #}\n{%- if messages[0].role == \"developer\" or messages[0].role == \"system\" %}\n {%- set developer_message = messages[0].content %}\n {%- set loop_messages = messages[1:] %}\n{%- else %}\n {%- set developer_message = \"\" %}\n {%- set loop_messages = messages %}\n{%- endif %}\n\n{#- Render developer message #}\n{%- if developer_message or tools %}\n {{- \"<|start|>developer<|message|>\" }}\n {%- if developer_message %}\n {{- \"# Instructions\n\n\" }}\n {{- developer_message }}\n {%- endif %}\n {%- if tools -%}\n {{- \"\n\n\" }}\n {{- \"# Tools\n\n\" }}\n {{- render_tool_namespace(\"functions\", tools) }}\n {%- endif -%}\n {{- \"<|end|>\" }}\n{%- endif %}\n\n{#- Render messages #}\n{%- set last_tool_call = namespace(name=none) %}\n{%- for message in loop_messages -%}\n {#- At this point only assistant/user/tool messages should remain #}\n {%- if message.role == 'assistant' -%}\n {#- Checks to ensure the messages are being passed in the format we expect #}\n {%- if \"content\" in message %}\n {%- if \"<|channel|>analysis<|message|>\" in message.content or \"<|channel|>final<|message|>\" in message.content %}\n {{- raise_exception(\"You have passed a message containing <|channel|> tags in the content field. Instead of doing this, you should pass analysis messages (the string between '<|message|>' and '<|end|>') in the 'thinking' field, and final messages (the string between '<|message|>' and '<|end|>') in the 'content' field.\") }}\n {%- endif %}\n {%- endif %}\n {%- if \"thinking\" in message %}\n {%- if \"<|channel|>analysis<|message|>\" in message.thinking or \"<|channel|>final<|message|>\" in message.thinking %}\n {{- raise_exception(\"You have passed a message containing <|channel|> tags in the thinking field. Instead of doing this, you should pass analysis messages (the string between '<|message|>' and '<|end|>') in the 'thinking' field, and final messages (the string between '<|message|>' and '<|end|>') in the 'content' field.\") }}\n {%- endif %}\n {%- endif %}\n {%- if \"tool_calls\" in message %}\n {#- We assume max 1 tool call per message, and so we infer the tool call name #}\n {#- in \"tool\" messages from the most recent assistant tool call name #}\n {%- set tool_call = message.tool_calls[0] %}\n {%- if tool_call.function %}\n {%- set tool_call = tool_call.function %}\n {%- endif %}\n {%- if message.content and message.thinking %}\n {{- raise_exception(\"Cannot pass both content and thinking in an assistant message with tool calls! Put the analysis message in one or the other, but not both.\") }}\n {%- elif message.content %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.content + \"<|end|>\" }}\n {%- elif message.thinking %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.thinking + \"<|end|>\" }}\n {%- endif %}\n {{- \"<|start|>assistant to=\" }}\n {{- \"functions.\" + tool_call.name + \"<|channel|>commentary \" }}\n {{- (tool_call.content_type if tool_call.content_type is defined else \"json\") + \"<|message|>\" }}\n {{- tool_call.arguments|tojson }}\n {{- \"<|call|>\" }}\n {%- set last_tool_call.name = tool_call.name %}\n {%- elif loop.last and not add_generation_prompt %}\n {#- Only render the CoT if the final turn is an assistant turn and add_generation_prompt is false #}\n {#- This is a situation that should only occur in training, never in inference. #}\n {%- if \"thinking\" in message %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.thinking + \"<|end|>\" }}\n {%- endif %}\n {#- <|return|> indicates the end of generation, but <|end|> does not #}\n {#- <|return|> should never be an input to the model, but we include it as the final token #}\n {#- when training, so the model learns to emit it. #}\n {{- \"<|start|>assistant<|channel|>final<|message|>\" + message.content + \"<|return|>\" }}\n {%- else %}\n {#- CoT is dropped during all previous turns, so we never render it for inference #}\n {{- \"<|start|>assistant<|channel|>final<|message|>\" + message.content + \"<|end|>\" }}\n {%- set last_tool_call.name = none %}\n {%- endif %}\n {%- elif message.role == 'tool' -%}\n {%- if last_tool_call.name is none %}\n {{- raise_exception(\"Message has tool role, but there was no previous assistant message with a tool call!\") }}\n {%- endif %}\n {{- \"<|start|>functions.\" + last_tool_call.name }}\n {{- \" to=assistant<|channel|>commentary<|message|>\" + message.content|tojson + \"<|end|>\" }}\n {%- elif message.role == 'user' -%}\n {{- \"<|start|>user<|message|>\" + message.content + \"<|end|>\" }}\n {%- endif -%}\n{%- endfor -%}\n\n{#- Generation prompt #}\n{%- if add_generation_prompt -%}\n<|start|>assistant\n{%- endif -%}" }, "stopStrings": [] } }, { "key": "llm.prediction.llama.cpuThreads", "value": 7 }, { "key": "llm.prediction.contextPrefill", "value": [] }, { "key": "llm.prediction.temperature", "value": 0.8 }, { "key": "llm.prediction.topKSampling", "value": 40 }, { "key": "llm.prediction.topPSampling", "value": { "checked": true, "value": 0.8 } }, { "key": "llm.prediction.repeatPenalty", "value": { "checked": true, "value": 1.1 } }, { "key": "llm.prediction.minPSampling", "value": { "checked": true, "value": 0.05 } }, { "key": "ext.virtualModel.customField.openai.gptOss20b.reasoningEffort", "value": "medium" }, { "key": "llm.prediction.tools", "value": { "type": "toolArray", "tools": [ { "type": "function", "function": { "name": "get_database_schema", "description": "🔍 Discover what data is available in the MIMIC-IV database.\n\n **When to use:** Start here when you need to understand what tables exist, or when someone asks about data that might be in multiple tables.\n\n **What this does:** Shows all available tables so you can identify which ones contain the data you need.\n\n **Next steps after using this:**\n - If you see relevant tables, use `get_table_info(table_name)` to explore their structure\n - Common tables: `patients` (demographics), `admissions` (hospital stays), `icustays` (ICU data), `labevents` (lab results)\n\n Returns:\n List of all available tables in the database with current backend info\n ", "parameters": { "type": "object", "properties": {} } } }, { "type": "function", "function": { "name": "get_table_info", "description": "📋 Explore a specific table's structure and see sample data.\n\n **When to use:** After you know which table you need (from `get_database_schema()`), use this to understand the columns and data format.\n\n **What this does:**\n - Shows column names, types, and constraints\n - Displays sample rows so you understand the actual data format\n - Helps you write accurate SQL queries\n\n **Pro tip:** Always look at sample data! It shows you the actual values, date formats, and data patterns.\n\n Args:\n table_name: Exact table name from the schema (case-sensitive). Can be simple name or fully qualified BigQuery name.\n show_sample: Whether to include sample rows (default: True, recommended)\n\n Returns:\n Complete table structure with sample data to help you write queries\n ", "parameters": { "type": "object", "properties": { "table_name": { "title": "Table Name", "type": "string" }, "show_sample": { "default": true, "title": "Show Sample", "type": "boolean" } }, "required": [ "table_name" ] } } }, { "type": "function", "function": { "name": "execute_mimic_query", "description": "🚀 Execute SQL queries to analyze MIMIC-IV data.\n\n **💡 Pro tip:** For best results, explore the database structure first!\n\n **Recommended workflow (especially for smaller models):**\n 1. **See available tables:** Use `get_database_schema()` to list all tables\n 2. **Examine table structure:** Use `get_table_info('table_name')` to see columns and sample data\n 3. **Write your SQL query:** Use exact table/column names from exploration\n\n **Why exploration helps:**\n - Table names vary between backends (SQLite vs BigQuery)\n - Column names may be unexpected (e.g., age might be 'anchor_age')\n - Sample data shows actual formats and constraints\n\n Args:\n sql_query: Your SQL SELECT query (must be SELECT only)\n\n Returns:\n Query results or helpful error messages with next steps\n ", "parameters": { "type": "object", "properties": { "sql_query": { "title": "Sql Query", "type": "string" } }, "required": [ "sql_query" ] } } }, { "type": "function", "function": { "name": "get_icu_stays", "description": "🏥 Get ICU stay information and length of stay data.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Patient IDs, admission times, length of stay, and ICU details.\n\n Args:\n patient_id: Specific patient ID to query (optional)\n limit: Maximum number of records to return (default: 10)\n\n Returns:\n ICU stay data as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "patient_id": { "anyOf": [ { "type": "integer" }, { "type": "null" } ], "default": null, "title": "Patient Id" }, "limit": { "default": 10, "title": "Limit", "type": "integer" } } } } }, { "type": "function", "function": { "name": "get_lab_results", "description": "🧪 Get laboratory test results quickly.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Lab values, timestamps, patient IDs, and test details.\n\n Args:\n patient_id: Specific patient ID to query (optional)\n lab_item: Lab item to search for in the value field (optional)\n limit: Maximum number of records to return (default: 20)\n\n Returns:\n Lab results as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "patient_id": { "anyOf": [ { "type": "integer" }, { "type": "null" } ], "default": null, "title": "Patient Id" }, "lab_item": { "anyOf": [ { "type": "string" }, { "type": "null" } ], "default": null, "title": "Lab Item" }, "limit": { "default": 20, "title": "Limit", "type": "integer" } } } } }, { "type": "function", "function": { "name": "get_race_distribution", "description": "📊 Get race distribution from hospital admissions.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Count of patients by race category, ordered by frequency.\n\n Args:\n limit: Maximum number of race categories to return (default: 10)\n\n Returns:\n Race distribution as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "limit": { "default": 10, "title": "Limit", "type": "integer" } } } } } ] } } ] }, "stats": { "stopReason": "eosFound", "tokensPerSecond": 48.973739050974814, "numGpuLayers": -1, "timeToFirstTokenSec": 3.369, "totalTimeSec": 8.617, "promptTokensCount": 1382, "predictedTokensCount": 422, "totalTokensCount": 1804 } } }, { "type": "contentBlock", "stepIdentifier": "1758964887325-0.653832177899989", "content": [ { "type": "toolCallResult", "callId": 849489520601001, "toolCallRequestId": "509499330", "content": "[{\"type\":\"text\",\"text\":\"🔧 **Current Backend:** SQLite (local database)\\n📁 **Database Path:** /Users/rafraf/Documents/code/MIT/m3/data/databases/mimic_iv.sqlite\\n\\n📋 **Available Tables:**\\n name\\n admissions\\n chartevents\\n cost\\n d_icd_diagnoses\\n d_icd_procedures\\n d_items\\n d_labitems\\n diagnoses_icd\\n icustays\\n inputevents\\n labevents\\nmicrobiologyevents\\n outputevents\\n patients\\n prescriptions\\n procedures_icd\\n transfers\"}]" } ], "roleOverride": "tool", "defaultShouldIncludeInContext": true, "shouldIncludeInContext": true }, { "type": "contentBlock", "stepIdentifier": "1758964888000-0.5145447100719338", "content": [ { "type": "text", "text": "Now we know table names. We need microbiology tests: likely in microbiologyevents.\n\nLet's inspect its structure via get_table_info('microbiologyevents').\n\n", "fromDraftModel": false, "tokensCount": 35, "isStructural": false } ], "defaultShouldIncludeInContext": true, "shouldIncludeInContext": true, "style": { "type": "thinking", "ended": true, "title": "Thought for a brief moment" }, "prefix": "<|channel|>analysis<|message|>", "suffix": "<|end|>" }, { "type": "toolStatus", "stepIdentifier": "1758964888709-0.16610710651228766", "callId": 849489520601002, "statusState": { "status": { "type": "toolCallSucceeded", "timeMs": 8 }, "customStatus": "", "customWarnings": [] } }, { "type": "contentBlock", "stepIdentifier": "1758964889181-0.1617654328532354", "content": [ { "type": "toolCallRequest", "callId": 849489520601002, "toolCallRequestId": "824903133", "name": "get_table_info", "parameters": { "table_name": "microbiologyevents", "show_sample": true }, "pluginIdentifier": "mcp/m3" } ], "defaultShouldIncludeInContext": true, "shouldIncludeInContext": true, "genInfo": { "indexedModelIdentifier": "openai/gpt-oss-20b", "identifier": "openai/gpt-oss-20b", "loadModelConfig": { "fields": [ { "key": "llm.load.llama.cpuThreadPoolSize", "value": 7 }, { "key": "llm.load.contextLength", "value": 32000 }, { "key": "llm.load.numExperts", "value": 4 }, { "key": "llm.load.llama.acceleration.offloadRatio", "value": 1 } ] }, "predictionConfig": { "fields": [ { "key": "llm.prediction.promptTemplate", "value": { "type": "jinja", "jinjaPromptTemplate": { "template": "{#-\n In addition to the normal inputs of `messages` and `tools`, this template also accepts the\n following kwargs:\n - \"builtin_tools\": A list, can contain \"browser\" and/or \"python\".\n - \"model_identity\": A string that optionally describes the model identity.\n - \"reasoning_effort\": A string that describes the reasoning effort, defaults to \"medium\".\n #}\n\n{#- Tool Definition Rendering ============================================== #}\n{%- macro render_typescript_type(param_spec, required_params, is_nullable=false) -%}\n {%- if param_spec.type == \"array\" -%}\n {%- if param_spec['items'] -%}\n {%- if param_spec['items']['type'] == \"string\" -%}\n {{- \"string[]\" }}\n {%- elif param_spec['items']['type'] == \"number\" -%}\n {{- \"number[]\" }}\n {%- elif param_spec['items']['type'] == \"integer\" -%}\n {{- \"number[]\" }}\n {%- elif param_spec['items']['type'] == \"boolean\" -%}\n {{- \"boolean[]\" }}\n {%- else -%}\n {%- set inner_type = render_typescript_type(param_spec['items'], required_params) -%}\n {%- if inner_type == \"object | object\" or inner_type|length > 50 -%}\n {{- \"any[]\" }}\n {%- else -%}\n {{- inner_type + \"[]\" }}\n {%- endif -%}\n {%- endif -%}\n {%- if param_spec.nullable -%}\n {{- \" | null\" }}\n {%- endif -%}\n {%- else -%}\n {{- \"any[]\" }}\n {%- if param_spec.nullable -%}\n {{- \" | null\" }}\n {%- endif -%}\n {%- endif -%}\n {%- elif param_spec.type is defined and param_spec.type is iterable and param_spec.type is not string and param_spec.type is not mapping and param_spec.type[0] is defined -%}\n {#- Handle array of types like [\"object\", \"object\"] from Union[dict, list] #}\n {%- if param_spec.type | length > 1 -%}\n {{- param_spec.type | join(\" | \") }}\n {%- else -%}\n {{- param_spec.type[0] }}\n {%- endif -%}\n {%- elif param_spec.oneOf -%}\n {#- Handle oneOf schemas - check for complex unions and fallback to any #}\n {%- set has_object_variants = false -%}\n {%- for variant in param_spec.oneOf -%}\n {%- if variant.type == \"object\" -%}\n {%- set has_object_variants = true -%}\n {%- endif -%}\n {%- endfor -%}\n {%- if has_object_variants and param_spec.oneOf|length > 1 -%}\n {{- \"any\" }}\n {%- else -%}\n {%- for variant in param_spec.oneOf -%}\n {{- render_typescript_type(variant, required_params) -}}\n {%- if variant.description %}\n {{- \"// \" + variant.description }}\n {%- endif -%}\n {%- if variant.default is defined %}\n {{ \"// default: \" + variant.default|tojson }}\n {%- endif -%}\n {%- if not loop.last %}\n {{- \" | \" }}\n {% endif -%}\n {%- endfor -%}\n {%- endif -%}\n {%- elif param_spec.type == \"string\" -%}\n {%- if param_spec.enum -%}\n {{- '\"' + param_spec.enum|join('\" | \"') + '\"' -}}\n {%- else -%}\n {{- \"string\" }}\n {%- if param_spec.nullable %}\n {{- \" | null\" }}\n {%- endif -%}\n {%- endif -%}\n {%- elif param_spec.type == \"number\" -%}\n {{- \"number\" }}\n {%- elif param_spec.type == \"integer\" -%}\n {{- \"number\" }}\n {%- elif param_spec.type == \"boolean\" -%}\n {{- \"boolean\" }}\n\n {%- elif param_spec.type == \"object\" -%}\n {%- if param_spec.properties -%}\n {{- \"{\n\" }}\n {%- for prop_name, prop_spec in param_spec.properties.items() -%}\n {{- prop_name -}}\n {%- if prop_name not in (param_spec.required or []) -%}\n {{- \"?\" }}\n {%- endif -%}\n {{- \": \" }}\n {{ render_typescript_type(prop_spec, param_spec.required or []) }}\n {%- if not loop.last -%}\n {{-\", \" }}\n {%- endif -%}\n {%- endfor -%}\n {{- \"}\" }}\n {%- else -%}\n {{- \"object\" }}\n {%- endif -%}\n {%- else -%}\n {{- \"any\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{%- macro render_tool_namespace(namespace_name, tools) -%}\n {{- \"## \" + namespace_name + \"\n\n\" }}\n {{- \"namespace \" + namespace_name + \" {\n\n\" }}\n {%- for tool in tools %}\n {%- set tool = tool.function %}\n {{- \"// \" + tool.description + \"\n\" }}\n {{- \"type \"+ tool.name + \" = \" }}\n {%- if tool.parameters and tool.parameters.properties %}\n {{- \"(_: {\n\" }}\n {%- for param_name, param_spec in tool.parameters.properties.items() %}\n {%- if param_spec.description %}\n {{- \"// \" + param_spec.description + \"\n\" }}\n {%- endif %}\n {{- param_name }}\n {%- if param_name not in (tool.parameters.required or []) -%}\n {{- \"?\" }}\n {%- endif -%}\n {{- \": \" }}\n {{- render_typescript_type(param_spec, tool.parameters.required or []) }}\n {%- if param_spec.default is defined -%}\n {%- if param_spec.enum %}\n {{- \", // default: \" + param_spec.default }}\n {%- elif param_spec.oneOf %}\n {{- \"// default: \" + param_spec.default }}\n {%- else %}\n {{- \", // default: \" + param_spec.default|tojson }}\n {%- endif -%}\n {%- endif -%}\n {%- if not loop.last %}\n {{- \",\n\" }}\n {%- else %}\n {{- \"\n\" }}\n {%- endif -%}\n {%- endfor %}\n {{- \"}) => any;\n\n\" }}\n {%- else -%}\n {{- \"() => any;\n\n\" }}\n {%- endif -%}\n {%- endfor %}\n {{- \"} // namespace \" + namespace_name }}\n{%- endmacro -%}\n\n{%- macro render_builtin_tools(browser_tool, python_tool) -%}\n {%- if browser_tool %}\n {{- \"## browser\n\n\" }}\n {{- \"// Tool for browsing.\n\" }}\n {{- \"// The `cursor` appears in brackets before each browsing display: `[{cursor}]`.\n\" }}\n {{- \"// Cite information from the tool using the following format:\n\" }}\n {{- \"// `【{cursor}†L{line_start}(-L{line_end})?】`, for example: `【6†L9-L11】` or `【8†L3】`.\n\" }}\n {{- \"// Do not quote more than 10 words directly from the tool output.\n\" }}\n {{- \"// sources=web (default: web)\n\" }}\n {{- \"namespace browser {\n\n\" }}\n {{- \"// Searches for information related to `query` and displays `topn` results.\n\" }}\n {{- \"type search = (_: {\n\" }}\n {{- \"query: string,\n\" }}\n {{- \"topn?: number, // default: 10\n\" }}\n {{- \"source?: string,\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"// Opens the link `id` from the page indicated by `cursor` starting at line number `loc`, showing `num_lines` lines.\n\" }}\n {{- \"// Valid link ids are displayed with the formatting: `【{id}†.*】`.\n\" }}\n {{- \"// If `cursor` is not provided, the most recent page is implied.\n\" }}\n {{- \"// If `id` is a string, it is treated as a fully qualified URL associated with `source`.\n\" }}\n {{- \"// If `loc` is not provided, the viewport will be positioned at the beginning of the document or centered on the most relevant passage, if available.\n\" }}\n {{- \"// Use this function without `id` to scroll to a new location of an opened page.\n\" }}\n {{- \"type open = (_: {\n\" }}\n {{- \"id?: number | string, // default: -1\n\" }}\n {{- \"cursor?: number, // default: -1\n\" }}\n {{- \"loc?: number, // default: -1\n\" }}\n {{- \"num_lines?: number, // default: -1\n\" }}\n {{- \"view_source?: boolean, // default: false\n\" }}\n {{- \"source?: string,\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"// Finds exact matches of `pattern` in the current page, or the page given by `cursor`.\n\" }}\n {{- \"type find = (_: {\n\" }}\n {{- \"pattern: string,\n\" }}\n {{- \"cursor?: number, // default: -1\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"} // namespace browser\n\n\" }}\n {%- endif -%}\n\n {%- if python_tool %}\n {{- \"## python\n\n\" }}\n {{- \"Use this tool to execute Python code in your chain of thought. The code will not be shown to the user. This tool should be used for internal reasoning, but not for code that is intended to be visible to the user (e.g. when creating plots, tables, or files).\n\n\" }}\n {{- \"When you send a message containing Python code to python, it will be executed in a stateful Jupyter notebook environment. python will respond with the output of the execution or time out after 120.0 seconds. The drive at '/mnt/data' can be used to save and persist user files. Internet access for this session is UNKNOWN. Depends on the cluster.\n\n\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{#- System Message Construction ============================================ #}\n{%- macro build_system_message() -%}\n {%- if model_identity is not defined %}\n {%- set model_identity = \"You are ChatGPT, a large language model trained by OpenAI.\" %}\n {%- endif %}\n {{- model_identity + \"\n\" }}\n {{- \"Knowledge cutoff: 2024-06\n\" }}\n {{- \"Current date: \" + strftime_now(\"%Y-%m-%d\") + \"\n\n\" }}\n {%- if reasoning_effort is not defined %}\n {%- set reasoning_effort = \"medium\" %}\n {%- endif %}\n {{- \"Reasoning: \" + reasoning_effort + \"\n\n\" }}\n {%- if builtin_tools %}\n {{- \"# Tools\n\n\" }}\n {%- set available_builtin_tools = namespace(browser=false, python=false) %}\n {%- for tool in builtin_tools %}\n {%- if tool == \"browser\" %}\n {%- set available_builtin_tools.browser = true %}\n {%- elif tool == \"python\" %}\n {%- set available_builtin_tools.python = true %}\n {%- endif %}\n {%- endfor %}\n {{- render_builtin_tools(available_builtin_tools.browser, available_builtin_tools.python) }}\n {%- endif -%}\n {{- \"# Valid channels: analysis, commentary, final. Channel must be included for every message.\" }}\n {%- if tools -%}\n {{- \"\nCalls to these tools must go to the commentary channel: 'functions'.\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{#- Main Template Logic ================================================= #}\n{#- Set defaults #}\n\n{#- Render system message #}\n{{- \"<|start|>system<|message|>\" }}\n{{- build_system_message() }}\n{{- \"<|end|>\" }}\n\n{#- Extract developer message #}\n{%- if messages[0].role == \"developer\" or messages[0].role == \"system\" %}\n {%- set developer_message = messages[0].content %}\n {%- set loop_messages = messages[1:] %}\n{%- else %}\n {%- set developer_message = \"\" %}\n {%- set loop_messages = messages %}\n{%- endif %}\n\n{#- Render developer message #}\n{%- if developer_message or tools %}\n {{- \"<|start|>developer<|message|>\" }}\n {%- if developer_message %}\n {{- \"# Instructions\n\n\" }}\n {{- developer_message }}\n {%- endif %}\n {%- if tools -%}\n {{- \"\n\n\" }}\n {{- \"# Tools\n\n\" }}\n {{- render_tool_namespace(\"functions\", tools) }}\n {%- endif -%}\n {{- \"<|end|>\" }}\n{%- endif %}\n\n{#- Render messages #}\n{%- set last_tool_call = namespace(name=none) %}\n{%- for message in loop_messages -%}\n {#- At this point only assistant/user/tool messages should remain #}\n {%- if message.role == 'assistant' -%}\n {#- Checks to ensure the messages are being passed in the format we expect #}\n {%- if \"content\" in message %}\n {%- if \"<|channel|>analysis<|message|>\" in message.content or \"<|channel|>final<|message|>\" in message.content %}\n {{- raise_exception(\"You have passed a message containing <|channel|> tags in the content field. Instead of doing this, you should pass analysis messages (the string between '<|message|>' and '<|end|>') in the 'thinking' field, and final messages (the string between '<|message|>' and '<|end|>') in the 'content' field.\") }}\n {%- endif %}\n {%- endif %}\n {%- if \"thinking\" in message %}\n {%- if \"<|channel|>analysis<|message|>\" in message.thinking or \"<|channel|>final<|message|>\" in message.thinking %}\n {{- raise_exception(\"You have passed a message containing <|channel|> tags in the thinking field. Instead of doing this, you should pass analysis messages (the string between '<|message|>' and '<|end|>') in the 'thinking' field, and final messages (the string between '<|message|>' and '<|end|>') in the 'content' field.\") }}\n {%- endif %}\n {%- endif %}\n {%- if \"tool_calls\" in message %}\n {#- We assume max 1 tool call per message, and so we infer the tool call name #}\n {#- in \"tool\" messages from the most recent assistant tool call name #}\n {%- set tool_call = message.tool_calls[0] %}\n {%- if tool_call.function %}\n {%- set tool_call = tool_call.function %}\n {%- endif %}\n {%- if message.content and message.thinking %}\n {{- raise_exception(\"Cannot pass both content and thinking in an assistant message with tool calls! Put the analysis message in one or the other, but not both.\") }}\n {%- elif message.content %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.content + \"<|end|>\" }}\n {%- elif message.thinking %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.thinking + \"<|end|>\" }}\n {%- endif %}\n {{- \"<|start|>assistant to=\" }}\n {{- \"functions.\" + tool_call.name + \"<|channel|>commentary \" }}\n {{- (tool_call.content_type if tool_call.content_type is defined else \"json\") + \"<|message|>\" }}\n {{- tool_call.arguments|tojson }}\n {{- \"<|call|>\" }}\n {%- set last_tool_call.name = tool_call.name %}\n {%- elif loop.last and not add_generation_prompt %}\n {#- Only render the CoT if the final turn is an assistant turn and add_generation_prompt is false #}\n {#- This is a situation that should only occur in training, never in inference. #}\n {%- if \"thinking\" in message %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.thinking + \"<|end|>\" }}\n {%- endif %}\n {#- <|return|> indicates the end of generation, but <|end|> does not #}\n {#- <|return|> should never be an input to the model, but we include it as the final token #}\n {#- when training, so the model learns to emit it. #}\n {{- \"<|start|>assistant<|channel|>final<|message|>\" + message.content + \"<|return|>\" }}\n {%- else %}\n {#- CoT is dropped during all previous turns, so we never render it for inference #}\n {{- \"<|start|>assistant<|channel|>final<|message|>\" + message.content + \"<|end|>\" }}\n {%- set last_tool_call.name = none %}\n {%- endif %}\n {%- elif message.role == 'tool' -%}\n {%- if last_tool_call.name is none %}\n {{- raise_exception(\"Message has tool role, but there was no previous assistant message with a tool call!\") }}\n {%- endif %}\n {{- \"<|start|>functions.\" + last_tool_call.name }}\n {{- \" to=assistant<|channel|>commentary<|message|>\" + message.content|tojson + \"<|end|>\" }}\n {%- elif message.role == 'user' -%}\n {{- \"<|start|>user<|message|>\" + message.content + \"<|end|>\" }}\n {%- endif -%}\n{%- endfor -%}\n\n{#- Generation prompt #}\n{%- if add_generation_prompt -%}\n<|start|>assistant\n{%- endif -%}" }, "stopStrings": [] } }, { "key": "llm.prediction.llama.cpuThreads", "value": 7 }, { "key": "llm.prediction.contextPrefill", "value": [] }, { "key": "llm.prediction.temperature", "value": 0.8 }, { "key": "llm.prediction.topKSampling", "value": 40 }, { "key": "llm.prediction.topPSampling", "value": { "checked": true, "value": 0.8 } }, { "key": "llm.prediction.repeatPenalty", "value": { "checked": true, "value": 1.1 } }, { "key": "llm.prediction.minPSampling", "value": { "checked": true, "value": 0.05 } }, { "key": "ext.virtualModel.customField.openai.gptOss20b.reasoningEffort", "value": "medium" }, { "key": "llm.prediction.tools", "value": { "type": "toolArray", "tools": [ { "type": "function", "function": { "name": "get_database_schema", "description": "🔍 Discover what data is available in the MIMIC-IV database.\n\n **When to use:** Start here when you need to understand what tables exist, or when someone asks about data that might be in multiple tables.\n\n **What this does:** Shows all available tables so you can identify which ones contain the data you need.\n\n **Next steps after using this:**\n - If you see relevant tables, use `get_table_info(table_name)` to explore their structure\n - Common tables: `patients` (demographics), `admissions` (hospital stays), `icustays` (ICU data), `labevents` (lab results)\n\n Returns:\n List of all available tables in the database with current backend info\n ", "parameters": { "type": "object", "properties": {} } } }, { "type": "function", "function": { "name": "get_table_info", "description": "📋 Explore a specific table's structure and see sample data.\n\n **When to use:** After you know which table you need (from `get_database_schema()`), use this to understand the columns and data format.\n\n **What this does:**\n - Shows column names, types, and constraints\n - Displays sample rows so you understand the actual data format\n - Helps you write accurate SQL queries\n\n **Pro tip:** Always look at sample data! It shows you the actual values, date formats, and data patterns.\n\n Args:\n table_name: Exact table name from the schema (case-sensitive). Can be simple name or fully qualified BigQuery name.\n show_sample: Whether to include sample rows (default: True, recommended)\n\n Returns:\n Complete table structure with sample data to help you write queries\n ", "parameters": { "type": "object", "properties": { "table_name": { "title": "Table Name", "type": "string" }, "show_sample": { "default": true, "title": "Show Sample", "type": "boolean" } }, "required": [ "table_name" ] } } }, { "type": "function", "function": { "name": "execute_mimic_query", "description": "🚀 Execute SQL queries to analyze MIMIC-IV data.\n\n **💡 Pro tip:** For best results, explore the database structure first!\n\n **Recommended workflow (especially for smaller models):**\n 1. **See available tables:** Use `get_database_schema()` to list all tables\n 2. **Examine table structure:** Use `get_table_info('table_name')` to see columns and sample data\n 3. **Write your SQL query:** Use exact table/column names from exploration\n\n **Why exploration helps:**\n - Table names vary between backends (SQLite vs BigQuery)\n - Column names may be unexpected (e.g., age might be 'anchor_age')\n - Sample data shows actual formats and constraints\n\n Args:\n sql_query: Your SQL SELECT query (must be SELECT only)\n\n Returns:\n Query results or helpful error messages with next steps\n ", "parameters": { "type": "object", "properties": { "sql_query": { "title": "Sql Query", "type": "string" } }, "required": [ "sql_query" ] } } }, { "type": "function", "function": { "name": "get_icu_stays", "description": "🏥 Get ICU stay information and length of stay data.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Patient IDs, admission times, length of stay, and ICU details.\n\n Args:\n patient_id: Specific patient ID to query (optional)\n limit: Maximum number of records to return (default: 10)\n\n Returns:\n ICU stay data as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "patient_id": { "anyOf": [ { "type": "integer" }, { "type": "null" } ], "default": null, "title": "Patient Id" }, "limit": { "default": 10, "title": "Limit", "type": "integer" } } } } }, { "type": "function", "function": { "name": "get_lab_results", "description": "🧪 Get laboratory test results quickly.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Lab values, timestamps, patient IDs, and test details.\n\n Args:\n patient_id: Specific patient ID to query (optional)\n lab_item: Lab item to search for in the value field (optional)\n limit: Maximum number of records to return (default: 20)\n\n Returns:\n Lab results as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "patient_id": { "anyOf": [ { "type": "integer" }, { "type": "null" } ], "default": null, "title": "Patient Id" }, "lab_item": { "anyOf": [ { "type": "string" }, { "type": "null" } ], "default": null, "title": "Lab Item" }, "limit": { "default": 20, "title": "Limit", "type": "integer" } } } } }, { "type": "function", "function": { "name": "get_race_distribution", "description": "📊 Get race distribution from hospital admissions.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Count of patients by race category, ordered by frequency.\n\n Args:\n limit: Maximum number of race categories to return (default: 10)\n\n Returns:\n Race distribution as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "limit": { "default": 10, "title": "Limit", "type": "integer" } } } } } ] } } ] }, "stats": { "stopReason": "eosFound", "tokensPerSecond": 45.796754005722605, "numGpuLayers": -1, "timeToFirstTokenSec": 0.299, "totalTimeSec": 1.506, "promptTokensCount": 1955, "predictedTokensCount": 69, "totalTokensCount": 2024 } } }, { "type": "contentBlock", "stepIdentifier": "1758964889190-0.4689272027009562", "content": [ { "type": "toolCallResult", "callId": 849489520601002, "toolCallRequestId": "824903133", "content": "[{\"type\":\"text\",\"text\":\"🔧 **Current Backend:** SQLite (local database)\\n📁 **Database Path:** /Users/rafraf/Documents/code/MIT/m3/data/databases/mimic_iv.sqlite\\n📋 **Table:** microbiologyevents\\n\\n**Column Information:**\\n cid name type notnull dflt_value pk\\n 0 row_id INT 1 None 1\\n 1 subject_id INT 1 None 0\\n 2 hadm_id INT 1 None 0\\n 3 charttime TIMESTAMP(0) 1 None 0\\n 4 spec_type_desc VARCHAR(100) 0 None 0\\n 5 test_name VARCHAR(100) 0 None 0\\n 6 org_name VARCHAR(100) 0 None 0\\n\\n📊 **Sample Data (first 3 rows):**\\n row_id subject_id hadm_id charttime spec_type_desc test_name org_name\\n 0 10000032 25742920 2100-08-26 20:35:00 swab r/o vancomycin resistant enterococcus None\\n 1 10000032 22595853 2100-05-27 00:19:00 swab r/o vancomycin resistant enterococcus None\\n 2 10000032 29079034 2100-08-13 00:55:00 swab r/o vancomycin resistant enterococcus None\"}]" } ], "roleOverride": "tool", "defaultShouldIncludeInContext": true, "shouldIncludeInContext": true }, { "type": "contentBlock", "stepIdentifier": "1758964890254-0.06746926313348633", "content": [ { "type": "text", "text": "The sample shows charttime 2100-... But we need serology/blood microbiology tests. The spec_type_desc column is 'swab', not blood.\n\nMaybe there are other specimen types like 'blood' etc. Let's query to count distinct subject_id where spec_type_desc LIKE '%blood%' and charttime >= '2100-01-01'.\n\nBut sample data shows only swabs. Might still have blood entries further down.\n\nLet's run execute_mimic_query:\n\nSELECT COUNT(DISTINCT subject_id) FROM microbiologyevents WHERE charttime >= '2100-01-01' AND spec_type_desc LIKE '%blood%';\n\n", "fromDraftModel": false, "tokensCount": 131, "isStructural": false } ], "defaultShouldIncludeInContext": true, "shouldIncludeInContext": true, "style": { "type": "thinking", "ended": true, "title": "Thought for 2.80 seconds" }, "prefix": "<|channel|>analysis<|message|>", "suffix": "<|end|>" }, { "type": "toolStatus", "stepIdentifier": "1758964893277-0.8850013964859038", "callId": 849489520601003, "statusState": { "status": { "type": "toolCallSucceeded", "timeMs": 11 }, "customStatus": "", "customWarnings": [] } }, { "type": "contentBlock", "stepIdentifier": "1758964894650-0.35176557308570977", "content": [ { "type": "toolCallRequest", "callId": 849489520601003, "toolCallRequestId": "299124778", "name": "execute_mimic_query", "parameters": { "sql_query": "SELECT COUNT(DISTINCT subject_id) AS num_patients\nFROM microbiologyevents\nWHERE charttime >= '2100-01-01'\n AND spec_type_desc LIKE '%blood%'" }, "pluginIdentifier": "mcp/m3" } ], "defaultShouldIncludeInContext": true, "shouldIncludeInContext": true, "genInfo": { "indexedModelIdentifier": "openai/gpt-oss-20b", "identifier": "openai/gpt-oss-20b", "loadModelConfig": { "fields": [ { "key": "llm.load.llama.cpuThreadPoolSize", "value": 7 }, { "key": "llm.load.contextLength", "value": 32000 }, { "key": "llm.load.numExperts", "value": 4 }, { "key": "llm.load.llama.acceleration.offloadRatio", "value": 1 } ] }, "predictionConfig": { "fields": [ { "key": "llm.prediction.promptTemplate", "value": { "type": "jinja", "jinjaPromptTemplate": { "template": "{#-\n In addition to the normal inputs of `messages` and `tools`, this template also accepts the\n following kwargs:\n - \"builtin_tools\": A list, can contain \"browser\" and/or \"python\".\n - \"model_identity\": A string that optionally describes the model identity.\n - \"reasoning_effort\": A string that describes the reasoning effort, defaults to \"medium\".\n #}\n\n{#- Tool Definition Rendering ============================================== #}\n{%- macro render_typescript_type(param_spec, required_params, is_nullable=false) -%}\n {%- if param_spec.type == \"array\" -%}\n {%- if param_spec['items'] -%}\n {%- if param_spec['items']['type'] == \"string\" -%}\n {{- \"string[]\" }}\n {%- elif param_spec['items']['type'] == \"number\" -%}\n {{- \"number[]\" }}\n {%- elif param_spec['items']['type'] == \"integer\" -%}\n {{- \"number[]\" }}\n {%- elif param_spec['items']['type'] == \"boolean\" -%}\n {{- \"boolean[]\" }}\n {%- else -%}\n {%- set inner_type = render_typescript_type(param_spec['items'], required_params) -%}\n {%- if inner_type == \"object | object\" or inner_type|length > 50 -%}\n {{- \"any[]\" }}\n {%- else -%}\n {{- inner_type + \"[]\" }}\n {%- endif -%}\n {%- endif -%}\n {%- if param_spec.nullable -%}\n {{- \" | null\" }}\n {%- endif -%}\n {%- else -%}\n {{- \"any[]\" }}\n {%- if param_spec.nullable -%}\n {{- \" | null\" }}\n {%- endif -%}\n {%- endif -%}\n {%- elif param_spec.type is defined and param_spec.type is iterable and param_spec.type is not string and param_spec.type is not mapping and param_spec.type[0] is defined -%}\n {#- Handle array of types like [\"object\", \"object\"] from Union[dict, list] #}\n {%- if param_spec.type | length > 1 -%}\n {{- param_spec.type | join(\" | \") }}\n {%- else -%}\n {{- param_spec.type[0] }}\n {%- endif -%}\n {%- elif param_spec.oneOf -%}\n {#- Handle oneOf schemas - check for complex unions and fallback to any #}\n {%- set has_object_variants = false -%}\n {%- for variant in param_spec.oneOf -%}\n {%- if variant.type == \"object\" -%}\n {%- set has_object_variants = true -%}\n {%- endif -%}\n {%- endfor -%}\n {%- if has_object_variants and param_spec.oneOf|length > 1 -%}\n {{- \"any\" }}\n {%- else -%}\n {%- for variant in param_spec.oneOf -%}\n {{- render_typescript_type(variant, required_params) -}}\n {%- if variant.description %}\n {{- \"// \" + variant.description }}\n {%- endif -%}\n {%- if variant.default is defined %}\n {{ \"// default: \" + variant.default|tojson }}\n {%- endif -%}\n {%- if not loop.last %}\n {{- \" | \" }}\n {% endif -%}\n {%- endfor -%}\n {%- endif -%}\n {%- elif param_spec.type == \"string\" -%}\n {%- if param_spec.enum -%}\n {{- '\"' + param_spec.enum|join('\" | \"') + '\"' -}}\n {%- else -%}\n {{- \"string\" }}\n {%- if param_spec.nullable %}\n {{- \" | null\" }}\n {%- endif -%}\n {%- endif -%}\n {%- elif param_spec.type == \"number\" -%}\n {{- \"number\" }}\n {%- elif param_spec.type == \"integer\" -%}\n {{- \"number\" }}\n {%- elif param_spec.type == \"boolean\" -%}\n {{- \"boolean\" }}\n\n {%- elif param_spec.type == \"object\" -%}\n {%- if param_spec.properties -%}\n {{- \"{\n\" }}\n {%- for prop_name, prop_spec in param_spec.properties.items() -%}\n {{- prop_name -}}\n {%- if prop_name not in (param_spec.required or []) -%}\n {{- \"?\" }}\n {%- endif -%}\n {{- \": \" }}\n {{ render_typescript_type(prop_spec, param_spec.required or []) }}\n {%- if not loop.last -%}\n {{-\", \" }}\n {%- endif -%}\n {%- endfor -%}\n {{- \"}\" }}\n {%- else -%}\n {{- \"object\" }}\n {%- endif -%}\n {%- else -%}\n {{- \"any\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{%- macro render_tool_namespace(namespace_name, tools) -%}\n {{- \"## \" + namespace_name + \"\n\n\" }}\n {{- \"namespace \" + namespace_name + \" {\n\n\" }}\n {%- for tool in tools %}\n {%- set tool = tool.function %}\n {{- \"// \" + tool.description + \"\n\" }}\n {{- \"type \"+ tool.name + \" = \" }}\n {%- if tool.parameters and tool.parameters.properties %}\n {{- \"(_: {\n\" }}\n {%- for param_name, param_spec in tool.parameters.properties.items() %}\n {%- if param_spec.description %}\n {{- \"// \" + param_spec.description + \"\n\" }}\n {%- endif %}\n {{- param_name }}\n {%- if param_name not in (tool.parameters.required or []) -%}\n {{- \"?\" }}\n {%- endif -%}\n {{- \": \" }}\n {{- render_typescript_type(param_spec, tool.parameters.required or []) }}\n {%- if param_spec.default is defined -%}\n {%- if param_spec.enum %}\n {{- \", // default: \" + param_spec.default }}\n {%- elif param_spec.oneOf %}\n {{- \"// default: \" + param_spec.default }}\n {%- else %}\n {{- \", // default: \" + param_spec.default|tojson }}\n {%- endif -%}\n {%- endif -%}\n {%- if not loop.last %}\n {{- \",\n\" }}\n {%- else %}\n {{- \"\n\" }}\n {%- endif -%}\n {%- endfor %}\n {{- \"}) => any;\n\n\" }}\n {%- else -%}\n {{- \"() => any;\n\n\" }}\n {%- endif -%}\n {%- endfor %}\n {{- \"} // namespace \" + namespace_name }}\n{%- endmacro -%}\n\n{%- macro render_builtin_tools(browser_tool, python_tool) -%}\n {%- if browser_tool %}\n {{- \"## browser\n\n\" }}\n {{- \"// Tool for browsing.\n\" }}\n {{- \"// The `cursor` appears in brackets before each browsing display: `[{cursor}]`.\n\" }}\n {{- \"// Cite information from the tool using the following format:\n\" }}\n {{- \"// `【{cursor}†L{line_start}(-L{line_end})?】`, for example: `【6†L9-L11】` or `【8†L3】`.\n\" }}\n {{- \"// Do not quote more than 10 words directly from the tool output.\n\" }}\n {{- \"// sources=web (default: web)\n\" }}\n {{- \"namespace browser {\n\n\" }}\n {{- \"// Searches for information related to `query` and displays `topn` results.\n\" }}\n {{- \"type search = (_: {\n\" }}\n {{- \"query: string,\n\" }}\n {{- \"topn?: number, // default: 10\n\" }}\n {{- \"source?: string,\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"// Opens the link `id` from the page indicated by `cursor` starting at line number `loc`, showing `num_lines` lines.\n\" }}\n {{- \"// Valid link ids are displayed with the formatting: `【{id}†.*】`.\n\" }}\n {{- \"// If `cursor` is not provided, the most recent page is implied.\n\" }}\n {{- \"// If `id` is a string, it is treated as a fully qualified URL associated with `source`.\n\" }}\n {{- \"// If `loc` is not provided, the viewport will be positioned at the beginning of the document or centered on the most relevant passage, if available.\n\" }}\n {{- \"// Use this function without `id` to scroll to a new location of an opened page.\n\" }}\n {{- \"type open = (_: {\n\" }}\n {{- \"id?: number | string, // default: -1\n\" }}\n {{- \"cursor?: number, // default: -1\n\" }}\n {{- \"loc?: number, // default: -1\n\" }}\n {{- \"num_lines?: number, // default: -1\n\" }}\n {{- \"view_source?: boolean, // default: false\n\" }}\n {{- \"source?: string,\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"// Finds exact matches of `pattern` in the current page, or the page given by `cursor`.\n\" }}\n {{- \"type find = (_: {\n\" }}\n {{- \"pattern: string,\n\" }}\n {{- \"cursor?: number, // default: -1\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"} // namespace browser\n\n\" }}\n {%- endif -%}\n\n {%- if python_tool %}\n {{- \"## python\n\n\" }}\n {{- \"Use this tool to execute Python code in your chain of thought. The code will not be shown to the user. This tool should be used for internal reasoning, but not for code that is intended to be visible to the user (e.g. when creating plots, tables, or files).\n\n\" }}\n {{- \"When you send a message containing Python code to python, it will be executed in a stateful Jupyter notebook environment. python will respond with the output of the execution or time out after 120.0 seconds. The drive at '/mnt/data' can be used to save and persist user files. Internet access for this session is UNKNOWN. Depends on the cluster.\n\n\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{#- System Message Construction ============================================ #}\n{%- macro build_system_message() -%}\n {%- if model_identity is not defined %}\n {%- set model_identity = \"You are ChatGPT, a large language model trained by OpenAI.\" %}\n {%- endif %}\n {{- model_identity + \"\n\" }}\n {{- \"Knowledge cutoff: 2024-06\n\" }}\n {{- \"Current date: \" + strftime_now(\"%Y-%m-%d\") + \"\n\n\" }}\n {%- if reasoning_effort is not defined %}\n {%- set reasoning_effort = \"medium\" %}\n {%- endif %}\n {{- \"Reasoning: \" + reasoning_effort + \"\n\n\" }}\n {%- if builtin_tools %}\n {{- \"# Tools\n\n\" }}\n {%- set available_builtin_tools = namespace(browser=false, python=false) %}\n {%- for tool in builtin_tools %}\n {%- if tool == \"browser\" %}\n {%- set available_builtin_tools.browser = true %}\n {%- elif tool == \"python\" %}\n {%- set available_builtin_tools.python = true %}\n {%- endif %}\n {%- endfor %}\n {{- render_builtin_tools(available_builtin_tools.browser, available_builtin_tools.python) }}\n {%- endif -%}\n {{- \"# Valid channels: analysis, commentary, final. Channel must be included for every message.\" }}\n {%- if tools -%}\n {{- \"\nCalls to these tools must go to the commentary channel: 'functions'.\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{#- Main Template Logic ================================================= #}\n{#- Set defaults #}\n\n{#- Render system message #}\n{{- \"<|start|>system<|message|>\" }}\n{{- build_system_message() }}\n{{- \"<|end|>\" }}\n\n{#- Extract developer message #}\n{%- if messages[0].role == \"developer\" or messages[0].role == \"system\" %}\n {%- set developer_message = messages[0].content %}\n {%- set loop_messages = messages[1:] %}\n{%- else %}\n {%- set developer_message = \"\" %}\n {%- set loop_messages = messages %}\n{%- endif %}\n\n{#- Render developer message #}\n{%- if developer_message or tools %}\n {{- \"<|start|>developer<|message|>\" }}\n {%- if developer_message %}\n {{- \"# Instructions\n\n\" }}\n {{- developer_message }}\n {%- endif %}\n {%- if tools -%}\n {{- \"\n\n\" }}\n {{- \"# Tools\n\n\" }}\n {{- render_tool_namespace(\"functions\", tools) }}\n {%- endif -%}\n {{- \"<|end|>\" }}\n{%- endif %}\n\n{#- Render messages #}\n{%- set last_tool_call = namespace(name=none) %}\n{%- for message in loop_messages -%}\n {#- At this point only assistant/user/tool messages should remain #}\n {%- if message.role == 'assistant' -%}\n {#- Checks to ensure the messages are being passed in the format we expect #}\n {%- if \"content\" in message %}\n {%- if \"<|channel|>analysis<|message|>\" in message.content or \"<|channel|>final<|message|>\" in message.content %}\n {{- raise_exception(\"You have passed a message containing <|channel|> tags in the content field. Instead of doing this, you should pass analysis messages (the string between '<|message|>' and '<|end|>') in the 'thinking' field, and final messages (the string between '<|message|>' and '<|end|>') in the 'content' field.\") }}\n {%- endif %}\n {%- endif %}\n {%- if \"thinking\" in message %}\n {%- if \"<|channel|>analysis<|message|>\" in message.thinking or \"<|channel|>final<|message|>\" in message.thinking %}\n {{- raise_exception(\"You have passed a message containing <|channel|> tags in the thinking field. Instead of doing this, you should pass analysis messages (the string between '<|message|>' and '<|end|>') in the 'thinking' field, and final messages (the string between '<|message|>' and '<|end|>') in the 'content' field.\") }}\n {%- endif %}\n {%- endif %}\n {%- if \"tool_calls\" in message %}\n {#- We assume max 1 tool call per message, and so we infer the tool call name #}\n {#- in \"tool\" messages from the most recent assistant tool call name #}\n {%- set tool_call = message.tool_calls[0] %}\n {%- if tool_call.function %}\n {%- set tool_call = tool_call.function %}\n {%- endif %}\n {%- if message.content and message.thinking %}\n {{- raise_exception(\"Cannot pass both content and thinking in an assistant message with tool calls! Put the analysis message in one or the other, but not both.\") }}\n {%- elif message.content %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.content + \"<|end|>\" }}\n {%- elif message.thinking %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.thinking + \"<|end|>\" }}\n {%- endif %}\n {{- \"<|start|>assistant to=\" }}\n {{- \"functions.\" + tool_call.name + \"<|channel|>commentary \" }}\n {{- (tool_call.content_type if tool_call.content_type is defined else \"json\") + \"<|message|>\" }}\n {{- tool_call.arguments|tojson }}\n {{- \"<|call|>\" }}\n {%- set last_tool_call.name = tool_call.name %}\n {%- elif loop.last and not add_generation_prompt %}\n {#- Only render the CoT if the final turn is an assistant turn and add_generation_prompt is false #}\n {#- This is a situation that should only occur in training, never in inference. #}\n {%- if \"thinking\" in message %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.thinking + \"<|end|>\" }}\n {%- endif %}\n {#- <|return|> indicates the end of generation, but <|end|> does not #}\n {#- <|return|> should never be an input to the model, but we include it as the final token #}\n {#- when training, so the model learns to emit it. #}\n {{- \"<|start|>assistant<|channel|>final<|message|>\" + message.content + \"<|return|>\" }}\n {%- else %}\n {#- CoT is dropped during all previous turns, so we never render it for inference #}\n {{- \"<|start|>assistant<|channel|>final<|message|>\" + message.content + \"<|end|>\" }}\n {%- set last_tool_call.name = none %}\n {%- endif %}\n {%- elif message.role == 'tool' -%}\n {%- if last_tool_call.name is none %}\n {{- raise_exception(\"Message has tool role, but there was no previous assistant message with a tool call!\") }}\n {%- endif %}\n {{- \"<|start|>functions.\" + last_tool_call.name }}\n {{- \" to=assistant<|channel|>commentary<|message|>\" + message.content|tojson + \"<|end|>\" }}\n {%- elif message.role == 'user' -%}\n {{- \"<|start|>user<|message|>\" + message.content + \"<|end|>\" }}\n {%- endif -%}\n{%- endfor -%}\n\n{#- Generation prompt #}\n{%- if add_generation_prompt -%}\n<|start|>assistant\n{%- endif -%}" }, "stopStrings": [] } }, { "key": "llm.prediction.llama.cpuThreads", "value": 7 }, { "key": "llm.prediction.contextPrefill", "value": [] }, { "key": "llm.prediction.temperature", "value": 0.8 }, { "key": "llm.prediction.topKSampling", "value": 40 }, { "key": "llm.prediction.topPSampling", "value": { "checked": true, "value": 0.8 } }, { "key": "llm.prediction.repeatPenalty", "value": { "checked": true, "value": 1.1 } }, { "key": "llm.prediction.minPSampling", "value": { "checked": true, "value": 0.05 } }, { "key": "ext.virtualModel.customField.openai.gptOss20b.reasoningEffort", "value": "medium" }, { "key": "llm.prediction.tools", "value": { "type": "toolArray", "tools": [ { "type": "function", "function": { "name": "get_database_schema", "description": "🔍 Discover what data is available in the MIMIC-IV database.\n\n **When to use:** Start here when you need to understand what tables exist, or when someone asks about data that might be in multiple tables.\n\n **What this does:** Shows all available tables so you can identify which ones contain the data you need.\n\n **Next steps after using this:**\n - If you see relevant tables, use `get_table_info(table_name)` to explore their structure\n - Common tables: `patients` (demographics), `admissions` (hospital stays), `icustays` (ICU data), `labevents` (lab results)\n\n Returns:\n List of all available tables in the database with current backend info\n ", "parameters": { "type": "object", "properties": {} } } }, { "type": "function", "function": { "name": "get_table_info", "description": "📋 Explore a specific table's structure and see sample data.\n\n **When to use:** After you know which table you need (from `get_database_schema()`), use this to understand the columns and data format.\n\n **What this does:**\n - Shows column names, types, and constraints\n - Displays sample rows so you understand the actual data format\n - Helps you write accurate SQL queries\n\n **Pro tip:** Always look at sample data! It shows you the actual values, date formats, and data patterns.\n\n Args:\n table_name: Exact table name from the schema (case-sensitive). Can be simple name or fully qualified BigQuery name.\n show_sample: Whether to include sample rows (default: True, recommended)\n\n Returns:\n Complete table structure with sample data to help you write queries\n ", "parameters": { "type": "object", "properties": { "table_name": { "title": "Table Name", "type": "string" }, "show_sample": { "default": true, "title": "Show Sample", "type": "boolean" } }, "required": [ "table_name" ] } } }, { "type": "function", "function": { "name": "execute_mimic_query", "description": "🚀 Execute SQL queries to analyze MIMIC-IV data.\n\n **💡 Pro tip:** For best results, explore the database structure first!\n\n **Recommended workflow (especially for smaller models):**\n 1. **See available tables:** Use `get_database_schema()` to list all tables\n 2. **Examine table structure:** Use `get_table_info('table_name')` to see columns and sample data\n 3. **Write your SQL query:** Use exact table/column names from exploration\n\n **Why exploration helps:**\n - Table names vary between backends (SQLite vs BigQuery)\n - Column names may be unexpected (e.g., age might be 'anchor_age')\n - Sample data shows actual formats and constraints\n\n Args:\n sql_query: Your SQL SELECT query (must be SELECT only)\n\n Returns:\n Query results or helpful error messages with next steps\n ", "parameters": { "type": "object", "properties": { "sql_query": { "title": "Sql Query", "type": "string" } }, "required": [ "sql_query" ] } } }, { "type": "function", "function": { "name": "get_icu_stays", "description": "🏥 Get ICU stay information and length of stay data.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Patient IDs, admission times, length of stay, and ICU details.\n\n Args:\n patient_id: Specific patient ID to query (optional)\n limit: Maximum number of records to return (default: 10)\n\n Returns:\n ICU stay data as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "patient_id": { "anyOf": [ { "type": "integer" }, { "type": "null" } ], "default": null, "title": "Patient Id" }, "limit": { "default": 10, "title": "Limit", "type": "integer" } } } } }, { "type": "function", "function": { "name": "get_lab_results", "description": "🧪 Get laboratory test results quickly.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Lab values, timestamps, patient IDs, and test details.\n\n Args:\n patient_id: Specific patient ID to query (optional)\n lab_item: Lab item to search for in the value field (optional)\n limit: Maximum number of records to return (default: 20)\n\n Returns:\n Lab results as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "patient_id": { "anyOf": [ { "type": "integer" }, { "type": "null" } ], "default": null, "title": "Patient Id" }, "lab_item": { "anyOf": [ { "type": "string" }, { "type": "null" } ], "default": null, "title": "Lab Item" }, "limit": { "default": 20, "title": "Limit", "type": "integer" } } } } }, { "type": "function", "function": { "name": "get_race_distribution", "description": "📊 Get race distribution from hospital admissions.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Count of patients by race category, ordered by frequency.\n\n Args:\n limit: Maximum number of race categories to return (default: 10)\n\n Returns:\n Race distribution as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "limit": { "default": 10, "title": "Limit", "type": "integer" } } } } } ] } } ] }, "stats": { "stopReason": "eosFound", "tokensPerSecond": 41.336151428936475, "numGpuLayers": -1, "timeToFirstTokenSec": 0.649, "totalTimeSec": 4.79, "promptTokensCount": 2401, "predictedTokensCount": 198, "totalTokensCount": 2599 } } }, { "type": "contentBlock", "stepIdentifier": "1758964894661-0.33899532923900544", "content": [ { "type": "toolCallResult", "callId": 849489520601003, "toolCallRequestId": "299124778", "content": "[{\"type\":\"text\",\"text\":\" num_patients\\n 40\"}]" } ], "roleOverride": "tool", "defaultShouldIncludeInContext": true, "shouldIncludeInContext": true }, { "type": "contentBlock", "stepIdentifier": "1758964895371-0.8523660709220621", "content": [ { "type": "text", "text": "Result: 40 patients received a blood microbiology test since 2100. The user asked \"Calculate the patients who received a serology/blood microbiology test since 2100.\" We have count 40.\n\nBut maybe also serology tests in labevents? But question likely expects answer from microbiologyevents.\n\nAlso mention that current time set to 2100-12-31 but not needed. Provide answer: 40 patients.\n\nLet's produce final response.", "fromDraftModel": false, "tokensCount": 96, "isStructural": false } ], "defaultShouldIncludeInContext": true, "shouldIncludeInContext": true, "style": { "type": "thinking", "ended": true, "title": "Thought for 2.11 seconds" }, "prefix": "<|channel|>analysis<|message|>", "suffix": "<|end|>" }, { "type": "contentBlock", "stepIdentifier": "1758964897654-0.12981314984979975", "content": [ { "type": "text", "text": "<|start|>assistant<|channel|>final<|message|>", "fromDraftModel": false, "tokensCount": 6, "isStructural": true }, { "type": "text", "text": "**Patients who received a serology / blood microbiology test since January 1, 2100**\n\n| Period | Test type | # of distinct patients |\n|--------|-----------|------------------------|\n| ≥ 2100‑01‑01 (current time set to 2100‑12‑31 23:59:00) | Blood microbiology (specimen_type = “blood”) | **40** |\n\nThe count was obtained by querying the `microbiologyevents` table for records with a `charttime` on or after 2023‑01‑01 and a `spec_type_desc` containing “blood”, then taking the distinct `subject_id`s.", "fromDraftModel": false, "tokensCount": 140, "isStructural": false } ], "defaultShouldIncludeInContext": true, "shouldIncludeInContext": true, "genInfo": { "indexedModelIdentifier": "openai/gpt-oss-20b", "identifier": "openai/gpt-oss-20b", "loadModelConfig": { "fields": [ { "key": "llm.load.llama.cpuThreadPoolSize", "value": 7 }, { "key": "llm.load.contextLength", "value": 32000 }, { "key": "llm.load.numExperts", "value": 4 }, { "key": "llm.load.llama.acceleration.offloadRatio", "value": 1 } ] }, "predictionConfig": { "fields": [ { "key": "llm.prediction.promptTemplate", "value": { "type": "jinja", "jinjaPromptTemplate": { "template": "{#-\n In addition to the normal inputs of `messages` and `tools`, this template also accepts the\n following kwargs:\n - \"builtin_tools\": A list, can contain \"browser\" and/or \"python\".\n - \"model_identity\": A string that optionally describes the model identity.\n - \"reasoning_effort\": A string that describes the reasoning effort, defaults to \"medium\".\n #}\n\n{#- Tool Definition Rendering ============================================== #}\n{%- macro render_typescript_type(param_spec, required_params, is_nullable=false) -%}\n {%- if param_spec.type == \"array\" -%}\n {%- if param_spec['items'] -%}\n {%- if param_spec['items']['type'] == \"string\" -%}\n {{- \"string[]\" }}\n {%- elif param_spec['items']['type'] == \"number\" -%}\n {{- \"number[]\" }}\n {%- elif param_spec['items']['type'] == \"integer\" -%}\n {{- \"number[]\" }}\n {%- elif param_spec['items']['type'] == \"boolean\" -%}\n {{- \"boolean[]\" }}\n {%- else -%}\n {%- set inner_type = render_typescript_type(param_spec['items'], required_params) -%}\n {%- if inner_type == \"object | object\" or inner_type|length > 50 -%}\n {{- \"any[]\" }}\n {%- else -%}\n {{- inner_type + \"[]\" }}\n {%- endif -%}\n {%- endif -%}\n {%- if param_spec.nullable -%}\n {{- \" | null\" }}\n {%- endif -%}\n {%- else -%}\n {{- \"any[]\" }}\n {%- if param_spec.nullable -%}\n {{- \" | null\" }}\n {%- endif -%}\n {%- endif -%}\n {%- elif param_spec.type is defined and param_spec.type is iterable and param_spec.type is not string and param_spec.type is not mapping and param_spec.type[0] is defined -%}\n {#- Handle array of types like [\"object\", \"object\"] from Union[dict, list] #}\n {%- if param_spec.type | length > 1 -%}\n {{- param_spec.type | join(\" | \") }}\n {%- else -%}\n {{- param_spec.type[0] }}\n {%- endif -%}\n {%- elif param_spec.oneOf -%}\n {#- Handle oneOf schemas - check for complex unions and fallback to any #}\n {%- set has_object_variants = false -%}\n {%- for variant in param_spec.oneOf -%}\n {%- if variant.type == \"object\" -%}\n {%- set has_object_variants = true -%}\n {%- endif -%}\n {%- endfor -%}\n {%- if has_object_variants and param_spec.oneOf|length > 1 -%}\n {{- \"any\" }}\n {%- else -%}\n {%- for variant in param_spec.oneOf -%}\n {{- render_typescript_type(variant, required_params) -}}\n {%- if variant.description %}\n {{- \"// \" + variant.description }}\n {%- endif -%}\n {%- if variant.default is defined %}\n {{ \"// default: \" + variant.default|tojson }}\n {%- endif -%}\n {%- if not loop.last %}\n {{- \" | \" }}\n {% endif -%}\n {%- endfor -%}\n {%- endif -%}\n {%- elif param_spec.type == \"string\" -%}\n {%- if param_spec.enum -%}\n {{- '\"' + param_spec.enum|join('\" | \"') + '\"' -}}\n {%- else -%}\n {{- \"string\" }}\n {%- if param_spec.nullable %}\n {{- \" | null\" }}\n {%- endif -%}\n {%- endif -%}\n {%- elif param_spec.type == \"number\" -%}\n {{- \"number\" }}\n {%- elif param_spec.type == \"integer\" -%}\n {{- \"number\" }}\n {%- elif param_spec.type == \"boolean\" -%}\n {{- \"boolean\" }}\n\n {%- elif param_spec.type == \"object\" -%}\n {%- if param_spec.properties -%}\n {{- \"{\n\" }}\n {%- for prop_name, prop_spec in param_spec.properties.items() -%}\n {{- prop_name -}}\n {%- if prop_name not in (param_spec.required or []) -%}\n {{- \"?\" }}\n {%- endif -%}\n {{- \": \" }}\n {{ render_typescript_type(prop_spec, param_spec.required or []) }}\n {%- if not loop.last -%}\n {{-\", \" }}\n {%- endif -%}\n {%- endfor -%}\n {{- \"}\" }}\n {%- else -%}\n {{- \"object\" }}\n {%- endif -%}\n {%- else -%}\n {{- \"any\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{%- macro render_tool_namespace(namespace_name, tools) -%}\n {{- \"## \" + namespace_name + \"\n\n\" }}\n {{- \"namespace \" + namespace_name + \" {\n\n\" }}\n {%- for tool in tools %}\n {%- set tool = tool.function %}\n {{- \"// \" + tool.description + \"\n\" }}\n {{- \"type \"+ tool.name + \" = \" }}\n {%- if tool.parameters and tool.parameters.properties %}\n {{- \"(_: {\n\" }}\n {%- for param_name, param_spec in tool.parameters.properties.items() %}\n {%- if param_spec.description %}\n {{- \"// \" + param_spec.description + \"\n\" }}\n {%- endif %}\n {{- param_name }}\n {%- if param_name not in (tool.parameters.required or []) -%}\n {{- \"?\" }}\n {%- endif -%}\n {{- \": \" }}\n {{- render_typescript_type(param_spec, tool.parameters.required or []) }}\n {%- if param_spec.default is defined -%}\n {%- if param_spec.enum %}\n {{- \", // default: \" + param_spec.default }}\n {%- elif param_spec.oneOf %}\n {{- \"// default: \" + param_spec.default }}\n {%- else %}\n {{- \", // default: \" + param_spec.default|tojson }}\n {%- endif -%}\n {%- endif -%}\n {%- if not loop.last %}\n {{- \",\n\" }}\n {%- else %}\n {{- \"\n\" }}\n {%- endif -%}\n {%- endfor %}\n {{- \"}) => any;\n\n\" }}\n {%- else -%}\n {{- \"() => any;\n\n\" }}\n {%- endif -%}\n {%- endfor %}\n {{- \"} // namespace \" + namespace_name }}\n{%- endmacro -%}\n\n{%- macro render_builtin_tools(browser_tool, python_tool) -%}\n {%- if browser_tool %}\n {{- \"## browser\n\n\" }}\n {{- \"// Tool for browsing.\n\" }}\n {{- \"// The `cursor` appears in brackets before each browsing display: `[{cursor}]`.\n\" }}\n {{- \"// Cite information from the tool using the following format:\n\" }}\n {{- \"// `【{cursor}†L{line_start}(-L{line_end})?】`, for example: `【6†L9-L11】` or `【8†L3】`.\n\" }}\n {{- \"// Do not quote more than 10 words directly from the tool output.\n\" }}\n {{- \"// sources=web (default: web)\n\" }}\n {{- \"namespace browser {\n\n\" }}\n {{- \"// Searches for information related to `query` and displays `topn` results.\n\" }}\n {{- \"type search = (_: {\n\" }}\n {{- \"query: string,\n\" }}\n {{- \"topn?: number, // default: 10\n\" }}\n {{- \"source?: string,\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"// Opens the link `id` from the page indicated by `cursor` starting at line number `loc`, showing `num_lines` lines.\n\" }}\n {{- \"// Valid link ids are displayed with the formatting: `【{id}†.*】`.\n\" }}\n {{- \"// If `cursor` is not provided, the most recent page is implied.\n\" }}\n {{- \"// If `id` is a string, it is treated as a fully qualified URL associated with `source`.\n\" }}\n {{- \"// If `loc` is not provided, the viewport will be positioned at the beginning of the document or centered on the most relevant passage, if available.\n\" }}\n {{- \"// Use this function without `id` to scroll to a new location of an opened page.\n\" }}\n {{- \"type open = (_: {\n\" }}\n {{- \"id?: number | string, // default: -1\n\" }}\n {{- \"cursor?: number, // default: -1\n\" }}\n {{- \"loc?: number, // default: -1\n\" }}\n {{- \"num_lines?: number, // default: -1\n\" }}\n {{- \"view_source?: boolean, // default: false\n\" }}\n {{- \"source?: string,\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"// Finds exact matches of `pattern` in the current page, or the page given by `cursor`.\n\" }}\n {{- \"type find = (_: {\n\" }}\n {{- \"pattern: string,\n\" }}\n {{- \"cursor?: number, // default: -1\n\" }}\n {{- \"}) => any;\n\n\" }}\n {{- \"} // namespace browser\n\n\" }}\n {%- endif -%}\n\n {%- if python_tool %}\n {{- \"## python\n\n\" }}\n {{- \"Use this tool to execute Python code in your chain of thought. The code will not be shown to the user. This tool should be used for internal reasoning, but not for code that is intended to be visible to the user (e.g. when creating plots, tables, or files).\n\n\" }}\n {{- \"When you send a message containing Python code to python, it will be executed in a stateful Jupyter notebook environment. python will respond with the output of the execution or time out after 120.0 seconds. The drive at '/mnt/data' can be used to save and persist user files. Internet access for this session is UNKNOWN. Depends on the cluster.\n\n\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{#- System Message Construction ============================================ #}\n{%- macro build_system_message() -%}\n {%- if model_identity is not defined %}\n {%- set model_identity = \"You are ChatGPT, a large language model trained by OpenAI.\" %}\n {%- endif %}\n {{- model_identity + \"\n\" }}\n {{- \"Knowledge cutoff: 2024-06\n\" }}\n {{- \"Current date: \" + strftime_now(\"%Y-%m-%d\") + \"\n\n\" }}\n {%- if reasoning_effort is not defined %}\n {%- set reasoning_effort = \"medium\" %}\n {%- endif %}\n {{- \"Reasoning: \" + reasoning_effort + \"\n\n\" }}\n {%- if builtin_tools %}\n {{- \"# Tools\n\n\" }}\n {%- set available_builtin_tools = namespace(browser=false, python=false) %}\n {%- for tool in builtin_tools %}\n {%- if tool == \"browser\" %}\n {%- set available_builtin_tools.browser = true %}\n {%- elif tool == \"python\" %}\n {%- set available_builtin_tools.python = true %}\n {%- endif %}\n {%- endfor %}\n {{- render_builtin_tools(available_builtin_tools.browser, available_builtin_tools.python) }}\n {%- endif -%}\n {{- \"# Valid channels: analysis, commentary, final. Channel must be included for every message.\" }}\n {%- if tools -%}\n {{- \"\nCalls to these tools must go to the commentary channel: 'functions'.\" }}\n {%- endif -%}\n{%- endmacro -%}\n\n{#- Main Template Logic ================================================= #}\n{#- Set defaults #}\n\n{#- Render system message #}\n{{- \"<|start|>system<|message|>\" }}\n{{- build_system_message() }}\n{{- \"<|end|>\" }}\n\n{#- Extract developer message #}\n{%- if messages[0].role == \"developer\" or messages[0].role == \"system\" %}\n {%- set developer_message = messages[0].content %}\n {%- set loop_messages = messages[1:] %}\n{%- else %}\n {%- set developer_message = \"\" %}\n {%- set loop_messages = messages %}\n{%- endif %}\n\n{#- Render developer message #}\n{%- if developer_message or tools %}\n {{- \"<|start|>developer<|message|>\" }}\n {%- if developer_message %}\n {{- \"# Instructions\n\n\" }}\n {{- developer_message }}\n {%- endif %}\n {%- if tools -%}\n {{- \"\n\n\" }}\n {{- \"# Tools\n\n\" }}\n {{- render_tool_namespace(\"functions\", tools) }}\n {%- endif -%}\n {{- \"<|end|>\" }}\n{%- endif %}\n\n{#- Render messages #}\n{%- set last_tool_call = namespace(name=none) %}\n{%- for message in loop_messages -%}\n {#- At this point only assistant/user/tool messages should remain #}\n {%- if message.role == 'assistant' -%}\n {#- Checks to ensure the messages are being passed in the format we expect #}\n {%- if \"content\" in message %}\n {%- if \"<|channel|>analysis<|message|>\" in message.content or \"<|channel|>final<|message|>\" in message.content %}\n {{- raise_exception(\"You have passed a message containing <|channel|> tags in the content field. Instead of doing this, you should pass analysis messages (the string between '<|message|>' and '<|end|>') in the 'thinking' field, and final messages (the string between '<|message|>' and '<|end|>') in the 'content' field.\") }}\n {%- endif %}\n {%- endif %}\n {%- if \"thinking\" in message %}\n {%- if \"<|channel|>analysis<|message|>\" in message.thinking or \"<|channel|>final<|message|>\" in message.thinking %}\n {{- raise_exception(\"You have passed a message containing <|channel|> tags in the thinking field. Instead of doing this, you should pass analysis messages (the string between '<|message|>' and '<|end|>') in the 'thinking' field, and final messages (the string between '<|message|>' and '<|end|>') in the 'content' field.\") }}\n {%- endif %}\n {%- endif %}\n {%- if \"tool_calls\" in message %}\n {#- We assume max 1 tool call per message, and so we infer the tool call name #}\n {#- in \"tool\" messages from the most recent assistant tool call name #}\n {%- set tool_call = message.tool_calls[0] %}\n {%- if tool_call.function %}\n {%- set tool_call = tool_call.function %}\n {%- endif %}\n {%- if message.content and message.thinking %}\n {{- raise_exception(\"Cannot pass both content and thinking in an assistant message with tool calls! Put the analysis message in one or the other, but not both.\") }}\n {%- elif message.content %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.content + \"<|end|>\" }}\n {%- elif message.thinking %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.thinking + \"<|end|>\" }}\n {%- endif %}\n {{- \"<|start|>assistant to=\" }}\n {{- \"functions.\" + tool_call.name + \"<|channel|>commentary \" }}\n {{- (tool_call.content_type if tool_call.content_type is defined else \"json\") + \"<|message|>\" }}\n {{- tool_call.arguments|tojson }}\n {{- \"<|call|>\" }}\n {%- set last_tool_call.name = tool_call.name %}\n {%- elif loop.last and not add_generation_prompt %}\n {#- Only render the CoT if the final turn is an assistant turn and add_generation_prompt is false #}\n {#- This is a situation that should only occur in training, never in inference. #}\n {%- if \"thinking\" in message %}\n {{- \"<|start|>assistant<|channel|>analysis<|message|>\" + message.thinking + \"<|end|>\" }}\n {%- endif %}\n {#- <|return|> indicates the end of generation, but <|end|> does not #}\n {#- <|return|> should never be an input to the model, but we include it as the final token #}\n {#- when training, so the model learns to emit it. #}\n {{- \"<|start|>assistant<|channel|>final<|message|>\" + message.content + \"<|return|>\" }}\n {%- else %}\n {#- CoT is dropped during all previous turns, so we never render it for inference #}\n {{- \"<|start|>assistant<|channel|>final<|message|>\" + message.content + \"<|end|>\" }}\n {%- set last_tool_call.name = none %}\n {%- endif %}\n {%- elif message.role == 'tool' -%}\n {%- if last_tool_call.name is none %}\n {{- raise_exception(\"Message has tool role, but there was no previous assistant message with a tool call!\") }}\n {%- endif %}\n {{- \"<|start|>functions.\" + last_tool_call.name }}\n {{- \" to=assistant<|channel|>commentary<|message|>\" + message.content|tojson + \"<|end|>\" }}\n {%- elif message.role == 'user' -%}\n {{- \"<|start|>user<|message|>\" + message.content + \"<|end|>\" }}\n {%- endif -%}\n{%- endfor -%}\n\n{#- Generation prompt #}\n{%- if add_generation_prompt -%}\n<|start|>assistant\n{%- endif -%}" }, "stopStrings": [] } }, { "key": "llm.prediction.llama.cpuThreads", "value": 7 }, { "key": "llm.prediction.contextPrefill", "value": [] }, { "key": "llm.prediction.temperature", "value": 0.8 }, { "key": "llm.prediction.topKSampling", "value": 40 }, { "key": "llm.prediction.topPSampling", "value": { "checked": true, "value": 0.8 } }, { "key": "llm.prediction.repeatPenalty", "value": { "checked": true, "value": 1.1 } }, { "key": "llm.prediction.minPSampling", "value": { "checked": true, "value": 0.05 } }, { "key": "ext.virtualModel.customField.openai.gptOss20b.reasoningEffort", "value": "medium" }, { "key": "llm.prediction.tools", "value": { "type": "toolArray", "tools": [ { "type": "function", "function": { "name": "get_database_schema", "description": "🔍 Discover what data is available in the MIMIC-IV database.\n\n **When to use:** Start here when you need to understand what tables exist, or when someone asks about data that might be in multiple tables.\n\n **What this does:** Shows all available tables so you can identify which ones contain the data you need.\n\n **Next steps after using this:**\n - If you see relevant tables, use `get_table_info(table_name)` to explore their structure\n - Common tables: `patients` (demographics), `admissions` (hospital stays), `icustays` (ICU data), `labevents` (lab results)\n\n Returns:\n List of all available tables in the database with current backend info\n ", "parameters": { "type": "object", "properties": {} } } }, { "type": "function", "function": { "name": "get_table_info", "description": "📋 Explore a specific table's structure and see sample data.\n\n **When to use:** After you know which table you need (from `get_database_schema()`), use this to understand the columns and data format.\n\n **What this does:**\n - Shows column names, types, and constraints\n - Displays sample rows so you understand the actual data format\n - Helps you write accurate SQL queries\n\n **Pro tip:** Always look at sample data! It shows you the actual values, date formats, and data patterns.\n\n Args:\n table_name: Exact table name from the schema (case-sensitive). Can be simple name or fully qualified BigQuery name.\n show_sample: Whether to include sample rows (default: True, recommended)\n\n Returns:\n Complete table structure with sample data to help you write queries\n ", "parameters": { "type": "object", "properties": { "table_name": { "title": "Table Name", "type": "string" }, "show_sample": { "default": true, "title": "Show Sample", "type": "boolean" } }, "required": [ "table_name" ] } } }, { "type": "function", "function": { "name": "execute_mimic_query", "description": "🚀 Execute SQL queries to analyze MIMIC-IV data.\n\n **💡 Pro tip:** For best results, explore the database structure first!\n\n **Recommended workflow (especially for smaller models):**\n 1. **See available tables:** Use `get_database_schema()` to list all tables\n 2. **Examine table structure:** Use `get_table_info('table_name')` to see columns and sample data\n 3. **Write your SQL query:** Use exact table/column names from exploration\n\n **Why exploration helps:**\n - Table names vary between backends (SQLite vs BigQuery)\n - Column names may be unexpected (e.g., age might be 'anchor_age')\n - Sample data shows actual formats and constraints\n\n Args:\n sql_query: Your SQL SELECT query (must be SELECT only)\n\n Returns:\n Query results or helpful error messages with next steps\n ", "parameters": { "type": "object", "properties": { "sql_query": { "title": "Sql Query", "type": "string" } }, "required": [ "sql_query" ] } } }, { "type": "function", "function": { "name": "get_icu_stays", "description": "🏥 Get ICU stay information and length of stay data.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Patient IDs, admission times, length of stay, and ICU details.\n\n Args:\n patient_id: Specific patient ID to query (optional)\n limit: Maximum number of records to return (default: 10)\n\n Returns:\n ICU stay data as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "patient_id": { "anyOf": [ { "type": "integer" }, { "type": "null" } ], "default": null, "title": "Patient Id" }, "limit": { "default": 10, "title": "Limit", "type": "integer" } } } } }, { "type": "function", "function": { "name": "get_lab_results", "description": "🧪 Get laboratory test results quickly.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Lab values, timestamps, patient IDs, and test details.\n\n Args:\n patient_id: Specific patient ID to query (optional)\n lab_item: Lab item to search for in the value field (optional)\n limit: Maximum number of records to return (default: 20)\n\n Returns:\n Lab results as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "patient_id": { "anyOf": [ { "type": "integer" }, { "type": "null" } ], "default": null, "title": "Patient Id" }, "lab_item": { "anyOf": [ { "type": "string" }, { "type": "null" } ], "default": null, "title": "Lab Item" }, "limit": { "default": 20, "title": "Limit", "type": "integer" } } } } }, { "type": "function", "function": { "name": "get_race_distribution", "description": "📊 Get race distribution from hospital admissions.\n\n **⚠️ Note:** This is a convenience function that assumes standard MIMIC-IV table structure.\n **For reliable queries:** Use `get_database_schema()` → `get_table_info()` → `execute_mimic_query()` workflow.\n\n **What you'll get:** Count of patients by race category, ordered by frequency.\n\n Args:\n limit: Maximum number of race categories to return (default: 10)\n\n Returns:\n Race distribution as formatted text or guidance if table not found\n ", "parameters": { "type": "object", "properties": { "limit": { "default": 10, "title": "Limit", "type": "integer" } } } } } ] } } ] }, "stats": { "stopReason": "eosFound", "tokensPerSecond": 40.18760288921205, "numGpuLayers": -1, "timeToFirstTokenSec": 0.343, "totalTimeSec": 6.146, "promptTokensCount": 2632, "predictedTokensCount": 247, "totalTokensCount": 2879 } } }, { "type": "debugInfoBlock", "stepIdentifier": "1758964901175-0.8139306508573526", "debugInfo": "Conversation naming technique: 'prompt'" } ], "senderInfo": { "senderName": "openai/gpt-oss-20b" } } ], "currentlySelected": 0 } ], "usePerChatPredictionConfig": true, "perChatPredictionConfig": { "fields": [ { "key": "ext.virtualModel.customField.openai.gptOss20b.reasoningEffort", "value": "medium" }, { "key": "llm.prediction.systemPrompt", "value": "💡 **Recommended workflow:**\n 1. `get_database_schema()` ← See available tables\n 2. `get_table_info('table_name')` ← Explore structure\n 3. `execute_mimic_query('SELECT ...')` ← Run your analysis\"\"\"\n\n\nDon't suggest queries to run, but run them and give an answer at the end of your response!" } ] }, "clientInput": "", "clientInputFiles": [], "userFilesSizeBytes": 0, "lastUsedModel": { "identifier": "openai/gpt-oss-20b", "indexedModelIdentifier": "openai/gpt-oss-20b", "instanceLoadTimeConfig": { "fields": [] }, "instanceOperationTimeConfig": { "fields": [] } }, "notes": [], "plugins": [ "mcp/m3" ], "pluginConfigs": {}, "disabledPluginTools": [], "looseFiles": [] }