feat(citations): system added (#2498)

# Description

Please include a summary of the changes and the related issue. Please
also include relevant motivation and context.

## Checklist before requesting a review

Please delete options that are not relevant.

- [ ] My code follows the style guidelines of this project
- [ ] I have performed a self-review of my code
- [ ] I have commented hard-to-understand areas
- [ ] I have ideally added tests that prove my fix is effective or that
my feature works
- [ ] New and existing unit tests pass locally with my changes
- [ ] Any dependent changes have been merged

## Screenshots (if appropriate):

backend/modules/brain/knowledge_brain_qa.py

@@ -1,4 +1,5 @@
 import json
+import logging
 from typing import AsyncIterable, List, Optional
 from uuid import UUID
 
@@ -26,7 +27,7 @@ from modules.user.service.user_usage import UserUsage
 from pydantic import BaseModel, ConfigDict
 from pydantic_settings import BaseSettings
 
-logger = get_logger(__name__)
+logger = get_logger(__name__, log_level=logging.INFO)
 QUIVR_DEFAULT_PROMPT = "Your name is Quivr. You're a helpful assistant.  If you don't know the answer, just say that you don't know, don't try to make up an answer."
 
 
@@ -43,7 +44,11 @@ def is_valid_uuid(uuid_to_test, version=4):
     return str(uuid_obj) == uuid_to_test
 
 
-def generate_source(source_documents, brain_id):
+def generate_source(source_documents, brain_id, citations: List[int] = None):
+    """
+    Generate the sources list for the answer
+    It takes in a list of sources documents and citations that points to the docs index that was used in the answer
+    """
     # Initialize an empty list for sources
     sources_list: List[Sources] = []
 
@@ -51,26 +56,26 @@ def generate_source(source_documents, brain_id):
     generated_urls = {}
 
     # remove duplicate sources with same name and create a list of unique sources
-    source_documents = list(
-        {v.metadata["file_name"]: v for v in source_documents}.values()
-    )
+    sources_url_cache = {}
 
     # Get source documents from the result, default to an empty list if not found
 
     # If source documents exist
     if source_documents:
-        logger.info(f"Source documents found: {source_documents}")
+        logger.info(f"Citations {citations}")
         # Iterate over each document
-        for doc in source_documents:
-            logger.info("Document: %s", doc)
+        for doc, index in zip(source_documents, range(len(source_documents))):
+            logger.info(f"Processing source document {doc.metadata['file_name']}")
+            if citations is not None:
+                if index not in citations:
+                    logger.info(f"Skipping source document {doc.metadata['file_name']}")
+                    continue
             # Check if 'url' is in the document metadata
-            logger.info(f"Metadata 1: {doc.metadata}")
             is_url = (
                 "original_file_name" in doc.metadata
                 and doc.metadata["original_file_name"] is not None
                 and doc.metadata["original_file_name"].startswith("http")
             )
-            logger.info(f"Is URL: {is_url}")
 
             # Determine the name based on whether it's a URL or a file
             name = (
@@ -91,11 +96,15 @@ def generate_source(source_documents, brain_id):
                 if file_path in generated_urls:
                     source_url = generated_urls[file_path]
                 else:
-                    generated_url = generate_file_signed_url(file_path)
-                    if generated_url is not None:
-                        source_url = generated_url.get("signedURL", "")
+                    # Generate the URL
+                    if file_path in sources_url_cache:
+                        source_url = sources_url_cache[file_path]
                     else:
-                        source_url = ""
+                        generated_url = generate_file_signed_url(file_path)
+                        if generated_url is not None:
+                            source_url = generated_url.get("signedURL", "")
+                        else:
+                            source_url = ""
                     # Store the generated URL
                     generated_urls[file_path] = source_url
 
@@ -106,6 +115,7 @@ def generate_source(source_documents, brain_id):
                     type=type_,
                     source_url=source_url,
                     original_file_name=name,
+                    citation=doc.page_content,
                 )
             )
     else:
@@ -219,10 +229,6 @@ class KnowledgeBrainQA(BaseModel, QAInterface):
 
     def calculate_pricing(self):
 
-        logger.info("Calculating pricing")
-        logger.info(f"Model: {self.model}")
-        logger.info(f"User settings: {self.user_settings}")
-        logger.info(f"Models settings: {self.models_settings}")
         model_to_use = find_model_and_generate_metadata(
             self.chat_id,
             self.brain.model,
@@ -248,6 +254,8 @@ class KnowledgeBrainQA(BaseModel, QAInterface):
             self.initialize_streamed_chat_history(chat_id, question)
         )
         metadata = self.metadata or {}
+        citations = None
+        answer = ""
         model_response = conversational_qa_chain.invoke(
             {
                 "question": question.question,
@@ -258,57 +266,23 @@ class KnowledgeBrainQA(BaseModel, QAInterface):
             }
         )
 
+        if self.model_compatible_with_function_calling(model=self.model):
+            if model_response["answer"].tool_calls:
+                citations = model_response["answer"].tool_calls[-1]["args"]["citations"]
+                if citations:
+                    citations = citations
+                answer = model_response["answer"].tool_calls[-1]["args"]["answer"]
+                metadata["citations"] = citations
+        else:
+            answer = model_response["answer"].content
         sources = model_response["docs"] or []
         if len(sources) > 0:
-            sources_list = generate_source(sources, self.brain_id)
-            metadata["sources"] = sources_list
+            sources_list = generate_source(sources, self.brain_id, citations=citations)
+            serialized_sources_list = [source.dict() for source in sources_list]
+            metadata["sources"] = serialized_sources_list
 
-        answer = model_response["answer"].content
-
-        if save_answer:
-            # save the answer to the database or not ->  add a variable
-            new_chat = chat_service.update_chat_history(
-                CreateChatHistory(
-                    **{
-                        "chat_id": chat_id,
-                        "user_message": question.question,
-                        "assistant": answer,
-                        "brain_id": self.brain.brain_id,
-                        "prompt_id": self.prompt_to_use_id,
-                    }
-                )
-            )
-
-            return GetChatHistoryOutput(
-                **{
-                    "chat_id": chat_id,
-                    "user_message": question.question,
-                    "assistant": answer,
-                    "message_time": new_chat.message_time,
-                    "prompt_title": (
-                        self.prompt_to_use.title if self.prompt_to_use else None
-                    ),
-                    "brain_name": self.brain.name if self.brain else None,
-                    "message_id": new_chat.message_id,
-                    "brain_id": str(self.brain.brain_id) if self.brain else None,
-                    "metadata": metadata,
-                }
-            )
-
-        return GetChatHistoryOutput(
-            **{
-                "chat_id": chat_id,
-                "user_message": question.question,
-                "assistant": answer,
-                "message_time": None,
-                "prompt_title": (
-                    self.prompt_to_use.title if self.prompt_to_use else None
-                ),
-                "brain_name": None,
-                "message_id": None,
-                "brain_id": str(self.brain.brain_id) if self.brain else None,
-                "metadata": metadata,
-            }
+        return self.save_non_streaming_answer(
+            chat_id=chat_id, question=question, answer=answer, metadata=metadata
         )
 
     async def generate_stream(
@@ -318,9 +292,10 @@ class KnowledgeBrainQA(BaseModel, QAInterface):
         transformed_history, streamed_chat_history = (
             self.initialize_streamed_chat_history(chat_id, question)
         )
-        response_tokens = []
+        response_tokens = ""
         sources = []
-
+        citations = []
+        first = True
         async for chunk in conversational_qa_chain.astream(
             {
                 "question": question.question,
@@ -330,18 +305,47 @@ class KnowledgeBrainQA(BaseModel, QAInterface):
                 ),
             }
         ):
-            if chunk.get("answer"):
-                logger.info(f"Chunk: {chunk}")
-                response_tokens.append(chunk["answer"].content)
-                streamed_chat_history.assistant = chunk["answer"].content
-                yield f"data: {json.dumps(streamed_chat_history.dict())}"
+            if not streamed_chat_history.metadata:
+                streamed_chat_history.metadata = {}
+            if self.model_compatible_with_function_calling(model=self.model):
+                if chunk.get("answer"):
+                    if first:
+                        gathered = chunk["answer"]
+                        first = False
+                    else:
+                        gathered = gathered + chunk["answer"]
+                        if (
+                            gathered.tool_calls
+                            and gathered.tool_calls[-1].get("args")
+                            and "answer" in gathered.tool_calls[-1]["args"]
+                        ):
+                            # Only send the difference between answer and response_tokens which was the previous answer
+                            answer = gathered.tool_calls[-1]["args"]["answer"]
+                            difference = answer[len(response_tokens) :]
+                            streamed_chat_history.assistant = difference
+                            response_tokens = answer
+
+                            yield f"data: {json.dumps(streamed_chat_history.dict())}"
+                        if (
+                            gathered.tool_calls
+                            and gathered.tool_calls[-1].get("args")
+                            and "citations" in gathered.tool_calls[-1]["args"]
+                        ):
+                            citations = gathered.tool_calls[-1]["args"]["citations"]
+            else:
+                if chunk.get("answer"):
+                    response_tokens += chunk["answer"].content
+                    streamed_chat_history.assistant = chunk["answer"].content
+                    yield f"data: {json.dumps(streamed_chat_history.dict())}"
+
             if chunk.get("docs"):
                 sources = chunk["docs"]
 
-        sources_list = generate_source(sources, self.brain_id)
-        if not streamed_chat_history.metadata:
-            streamed_chat_history.metadata = {}
-            # Serialize the sources list
+        sources_list = generate_source(sources, self.brain_id, citations)
+
+        streamed_chat_history.metadata["citations"] = citations
+
+        # Serialize the sources list
         serialized_sources_list = [source.dict() for source in sources_list]
         streamed_chat_history.metadata["sources"] = serialized_sources_list
         yield f"data: {json.dumps(streamed_chat_history.dict())}"
@@ -398,7 +402,7 @@ class KnowledgeBrainQA(BaseModel, QAInterface):
         except Exception as e:
             logger.error("Error updating message by ID: %s", e)
 
-    def save_non_streaming_answer(self, chat_id, question, answer):
+    def save_non_streaming_answer(self, chat_id, question, answer, metadata):
         new_chat = chat_service.update_chat_history(
             CreateChatHistory(
                 **{
@@ -407,6 +411,7 @@ class KnowledgeBrainQA(BaseModel, QAInterface):
                     "assistant": answer,
                     "brain_id": self.brain.brain_id,
                     "prompt_id": self.prompt_to_use_id,
+                    "metadata": metadata,
                 }
             )
         )
@@ -423,5 +428,6 @@ class KnowledgeBrainQA(BaseModel, QAInterface):
                 "brain_name": self.brain.name if self.brain else None,
                 "message_id": new_chat.message_id,
                 "brain_id": str(self.brain.brain_id) if self.brain else None,
+                "metadata": metadata,
             }
         )

backend/modules/brain/qa_interface.py

@@ -39,3 +39,20 @@ class QAInterface(ABC):
         raise NotImplementedError(
             "generate_stream is an abstract method and must be implemented"
         )
+
+    def model_compatible_with_function_calling(self, model: str):
+        if model in [
+            "gpt-4-turbo",
+            "gpt-4-turbo-2024-04-09",
+            "gpt-4-turbo-preview",
+            "gpt-4-0125-preview",
+            "gpt-4-1106-preview",
+            "gpt-4",
+            "gpt-4-0613",
+            "gpt-3.5-turbo",
+            "gpt-3.5-turbo-0125",
+            "gpt-3.5-turbo-1106",
+            "gpt-3.5-turbo-0613",
+        ]:
+            return True
+        return False

backend/modules/brain/rags/quivr_rag.py

@@ -1,6 +1,7 @@
+import logging
 import os
 from operator import itemgetter
-from typing import Optional
+from typing import List, Optional
 from uuid import UUID
 
 from langchain.chains import ConversationalRetrievalChain
@@ -14,8 +15,10 @@ from langchain_cohere import CohereRerank
 from langchain_community.chat_models import ChatLiteLLM
 from langchain_core.output_parsers import StrOutputParser
 from langchain_core.prompts import ChatPromptTemplate, PromptTemplate
+from langchain_core.pydantic_v1 import BaseModel as BaseModelV1
+from langchain_core.pydantic_v1 import Field as FieldV1
 from langchain_core.runnables import RunnableLambda, RunnablePassthrough
-from langchain_openai import OpenAIEmbeddings
+from langchain_openai import ChatOpenAI, OpenAIEmbeddings
 from logger import get_logger
 from models import BrainSettings  # Importing settings related to the 'brain'
 from modules.brain.service.brain_service import BrainService
@@ -26,7 +29,20 @@ from pydantic_settings import BaseSettings
 from supabase.client import Client, create_client
 from vectorstore.supabase import CustomSupabaseVectorStore
 
-logger = get_logger(__name__)
+logger = get_logger(__name__, log_level=logging.INFO)
+
+
+class cited_answer(BaseModelV1):
+    """Answer the user question based only on the given sources, and cite the sources used."""
+
+    answer: str = FieldV1(
+        ...,
+        description="The answer to the user question, which is based only on the given sources.",
+    )
+    citations: List[int] = FieldV1(
+        ...,
+        description="The integer IDs of the SPECIFIC sources which justify the answer.",
+    )
 
 
 # First step is to create the Rephrasing Prompt
@@ -66,7 +82,9 @@ ANSWER_PROMPT = ChatPromptTemplate.from_messages(
 
 # How we format documents
 
-DEFAULT_DOCUMENT_PROMPT = PromptTemplate.from_template(template="{page_content}")
+DEFAULT_DOCUMENT_PROMPT = PromptTemplate.from_template(
+    template="Source: {index} \n {page_content}"
+)
 
 
 def is_valid_uuid(uuid_to_test, version=4):
@@ -116,6 +134,23 @@ class QuivrRAG(BaseModel):
         else:
             return None
 
+    def model_compatible_with_function_calling(self):
+        if self.model in [
+            "gpt-4-turbo",
+            "gpt-4-turbo-2024-04-09",
+            "gpt-4-turbo-preview",
+            "gpt-4-0125-preview",
+            "gpt-4-1106-preview",
+            "gpt-4",
+            "gpt-4-0613",
+            "gpt-3.5-turbo",
+            "gpt-3.5-turbo-0125",
+            "gpt-3.5-turbo-1106",
+            "gpt-3.5-turbo-0613",
+        ]:
+            return True
+        return False
+
     supabase_client: Optional[Client] = None
     vector_store: Optional[CustomSupabaseVectorStore] = None
     qa: Optional[ConversationalRetrievalChain] = None
@@ -197,6 +232,9 @@ class QuivrRAG(BaseModel):
     def _combine_documents(
         self, docs, document_prompt=DEFAULT_DOCUMENT_PROMPT, document_separator="\n\n"
     ):
+        # for each docs, add an index in the metadata to be able to cite the sources
+        for doc, index in zip(docs, range(len(docs))):
+            doc.metadata["index"] = index
         doc_strings = [format_document(doc, document_prompt) for doc in docs]
         return document_separator.join(doc_strings)
 
@@ -287,14 +325,27 @@ class QuivrRAG(BaseModel):
             "question": itemgetter("question"),
             "custom_instructions": itemgetter("custom_instructions"),
         }
+        llm = ChatLiteLLM(
+            max_tokens=self.max_tokens,
+            model=self.model,
+            temperature=self.temperature,
+            api_base=api_base,
+        )
+        if self.model_compatible_with_function_calling():
+
+            # And finally, we do the part that returns the answers
+            llm_function = ChatOpenAI(
+                max_tokens=self.max_tokens,
+                model=self.model,
+                temperature=self.temperature,
+            )
+            llm = llm_function.bind_tools(
+                [cited_answer],
+                tool_choice="cited_answer",
+            )
 
-        # And finally, we do the part that returns the answers
         answer = {
-            "answer": final_inputs
-            | ANSWER_PROMPT
-            | ChatLiteLLM(
-                max_tokens=self.max_tokens, model=self.model, api_base=api_base
-            ),
+            "answer": final_inputs | ANSWER_PROMPT | llm,
             "docs": itemgetter("docs"),
         }
 

backend/modules/chat/dto/chats.py

@@ -4,7 +4,7 @@ from uuid import UUID
 
 from modules.chat.dto.outputs import GetChatHistoryOutput
 from modules.notification.entity.notification import Notification
-from pydantic import BaseModel, ConfigDict
+from pydantic import BaseModel
 
 
 class ChatMessage(BaseModel):
@@ -33,6 +33,7 @@ class Sources(BaseModel):
     source_url: str
     type: str
     original_file_name: str
+    citation: str
 
 
 class ChatItemType(Enum):

backend/modules/chat/dto/inputs.py

@@ -11,6 +11,7 @@ class CreateChatHistory(BaseModel):
     assistant: str
     prompt_id: Optional[UUID] = None
     brain_id: Optional[UUID] = None
+    metadata: Optional[dict] = {}
 
 
 class QuestionAndAnswer(BaseModel):

backend/modules/chat/repository/chats.py

@@ -74,6 +74,7 @@ class Chats(ChatsInterface):
                     "brain_id": (
                         str(chat_history.brain_id) if chat_history.brain_id else None
                     ),
+                    "metadata": chat_history.metadata if chat_history.metadata else {},
                 }
             )
             .execute()
@@ -104,7 +105,9 @@ class Chats(ChatsInterface):
     def delete_chat_history(self, chat_id):
         self.db.table("chat_history").delete().match({"chat_id": chat_id}).execute()
 
-    def update_chat_message(self, chat_id, message_id, chat_message_properties: ChatMessageProperties ):
+    def update_chat_message(
+        self, chat_id, message_id, chat_message_properties: ChatMessageProperties
+    ):
         response = (
             self.db.table("chat_history")
             .update(chat_message_properties)