sci/_chromadb.py

import chromadb
import os
from chromadb.config import Settings
from dotenv import load_dotenv
from colorprinter.print_color import *

load_dotenv(".env")


class ChromaDB:
    def __init__(self, local_deployment: bool = False, db="sci_articles", host=None):
        if local_deployment:
            self.db = chromadb.PersistentClient(f"chroma_{db}")
        else:
            if not host:
                host = os.getenv("CHROMA_HOST")
            credentials = os.getenv("CHROMA_CLIENT_AUTH_CREDENTIALS")
            auth_token_transport_header = os.getenv(
                "CHROMA_AUTH_TOKEN_TRANSPORT_HEADER"
            )
            self.db = chromadb.HttpClient(
                host=host,
                settings=Settings(
                    chroma_client_auth_provider="chromadb.auth.token_authn.TokenAuthClientProvider",
                    chroma_client_auth_credentials=credentials,
                    chroma_auth_token_transport_header=auth_token_transport_header,
                ),
            )

    def query(
        self,
        query,
        collection,
        n_results=6,
        n_sources=3,
        max_retries=None,
        where: dict = None,
        **kwargs,
    ):
        """
        Query the vector database for relevant documents.

        Args:
            query (str): The query text to search for.
            collection (str): The name of the collection to search within.
            n_results (int, optional): The number of results to return. Defaults to 6.
            n_sources (int, optional): The number of unique sources to return. Defaults to 3.
            max_retries (int, optional): The maximum number of retries for querying. Defaults to None.
            where (dict, optional): Additional filtering criteria for the query. Defaults to None.
            **kwargs: Additional keyword arguments to pass to the query.

        Returns:
            dict: A dictionary containing the query results with keys 'ids', 'metadatas', 'documents', and 'distances'.
        """
        if not isinstance(n_sources, int):
            n_sources = int(n_sources)
        if not isinstance(n_results, int):
            n_results = int(n_results)
        if not max_retries:
            max_retries = n_sources
        if n_sources > n_results:
            n_sources = n_results
        col = self.db.get_collection(collection)
        sources = []
        n = 0

        result = {"ids": [[]], "metadatas": [[]], "documents": [[]], "distances": [[]]}
        while True:
            n += 1
            if n > max_retries:
                break
            if where == {}:
                where = None 
            r = col.query(
                query_texts=query,
                n_results=n_results - len(sources),
                where=where,
                **kwargs,
            )
            if r["ids"][0] == []:
                if result["ids"][0] == []:
                    print_red("No results found in vector database.")
                else:
                    print_red("No more results found in vector database.")
                break

            # Manually extend each list within the lists of lists
            for key in result:
                if key in r:
                    result[key][0].extend(r[key][0])

            # Order result by distance
            combined = sorted(
                zip(
                    result["distances"][0],
                    result["ids"][0],
                    result["metadatas"][0],
                    result["documents"][0],
                ),
                key=lambda x: x[0],
            )
            (
                result["distances"][0],
                result["ids"][0],
                result["metadatas"][0],
                result["documents"][0],
            ) = map(list, zip(*combined))
            sources += list(set([i["_id"] for i in result["metadatas"][0]]))
            if len(sources) >= n_sources:
                break
            elif n != max_retries:
                for k, v in result.items():
                    if k not in r["included"]:
                        continue
                    result[k][0] = v[0][: n_results - (n_sources - len(sources))]
            if where and "_id" in where:
                where["_id"]["$in"] = [
                    i for i in where["_id"]["$in"] if i not in sources
                ]
                if where["_id"]["$in"] == []:
                    break
            else:
                break
        return result

    def add_chunks(self, collection: str, chunks: list, _key, metadata: dict = None):
        """
        Adds chunks to a specified collection in the database.

        Args:
            collection (str): The name of the collection to add chunks to.
            chunks (list): A list of chunks to be added to the collection.
            _key: A key used to generate unique IDs for the chunks.
            metadata (dict, optional): Metadata to be associated with each chunk. Defaults to None.

        Returns:
            None
        """
        col = self.db.get_or_create_collection(collection)
        ids = []
        metadatas = []
        for number in chunks:
            if metadata:
                metadata["number"] = number
                metadatas.append(metadata)
            else:
                metadatas.append({})
            ids.append(f"{_key}_{number}")
        col.add(ids=ids, metadatas=metadatas, documents=chunks)


if __name__ == "__main__":
    from colorprinter.print_color import *

    chroma = ChromaDB()
    print(chroma.db.list_collections())
    exit()
    result = chroma.query(
        query="What is Open Science)",
        collection="sci_articles",
        n_results=2,
        n_sources=3,
        max_retries=4,
    )
    print_rainbow(result["metadatas"][0])