fix packaging and imports and introduce tests with pytest.

still issues with celery worker.

.github/workflows/pytest.yml

@@ -0,0 +1,28 @@
+name: Run python tests with pytest
+
+on: [push, pull_request]
+
+jobs:
+  build:
+
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        python-version: ["3.9", "3.10", "3.11"]
+
+    steps:
+      - uses: actions/checkout@v3
+      - name: Set up Python ${{ matrix.python-version }}
+        uses: actions/setup-python@v4
+        with:
+          python-version: ${{ matrix.python-version }}
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          pip install pytest
+          cd application
+          if [ -f requirements.txt ]; then pip install -r requirements.txt; fi
+      - name: Test with pytest
+        run: |
+          cd application
+          pytest

application/app.py

@@ -37,9 +37,9 @@ from langchain.schema import HumanMessage, AIMessage
 from pymongo import MongoClient
 from werkzeug.utils import secure_filename
 
-from core.settings import settings
-from error import bad_request
-from worker import ingest_worker
+from application.core.settings import settings
+from application.error import bad_request
+from application.worker import ingest_worker
 from bson.objectid import ObjectId
 
 # os.environ["LANGCHAIN_HANDLER"] = "langchain"

application/parser/file/__init__.py

@@ -0,0 +1 @@
+

application/parser/file/base.py

@@ -3,7 +3,7 @@ from abc import abstractmethod
 from typing import Any, List
 
 from langchain.docstore.document import Document as LCDocument
-from parser.schema.base import Document
+from application.parser.schema.base import Document
 
 
 class BaseReader:

application/parser/file/bulk.py

@@ -3,15 +3,15 @@ import logging
 from pathlib import Path
 from typing import Callable, Dict, List, Optional, Union
 
-from parser.file.base import BaseReader
-from parser.file.base_parser import BaseParser
-from parser.file.docs_parser import DocxParser, PDFParser
-from parser.file.epub_parser import EpubParser
-from parser.file.html_parser import HTMLParser
-from parser.file.markdown_parser import MarkdownParser
-from parser.file.rst_parser import RstParser
-from parser.file.tabular_parser import PandasCSVParser
-from parser.schema.base import Document
+from application.parser.file.base import BaseReader
+from application.parser.file.base_parser import BaseParser
+from application.parser.file.docs_parser import DocxParser, PDFParser
+from application.parser.file.epub_parser import EpubParser
+from application.parser.file.html_parser import HTMLParser
+from application.parser.file.markdown_parser import MarkdownParser
+from application.parser.file.rst_parser import RstParser
+from application.parser.file.tabular_parser import PandasCSVParser
+from application.parser.schema.base import Document
 
 DEFAULT_FILE_EXTRACTOR: Dict[str, BaseParser] = {
     ".pdf": PDFParser(),

application/parser/file/docs_parser.py

@@ -6,7 +6,7 @@ Contains parsers for docx, pdf files.
 from pathlib import Path
 from typing import Dict
 
-from parser.file.base_parser import BaseParser
+from application.parser.file.base_parser import BaseParser
 
 
 class PDFParser(BaseParser):

application/parser/file/epub_parser.py

@@ -6,7 +6,7 @@ Contains parsers for epub files.
 from pathlib import Path
 from typing import Dict
 
-from parser.file.base_parser import BaseParser
+from application.parser.file.base_parser import BaseParser
 
 
 class EpubParser(BaseParser):

application/parser/file/html_parser.py

@@ -7,7 +7,7 @@ import re
 from pathlib import Path
 from typing import Dict, Union
 
-from parser.file.base_parser import BaseParser
+from application.parser.file.base_parser import BaseParser
 
 
 class HTMLParser(BaseParser):

application/parser/file/markdown_parser.py

@@ -8,7 +8,7 @@ from pathlib import Path
 from typing import Any, Dict, List, Optional, Tuple, Union, cast
 
 import tiktoken
-from parser.file.base_parser import BaseParser
+from application.parser.file.base_parser import BaseParser
 
 
 class MarkdownParser(BaseParser):

application/parser/file/rst_parser.py

@@ -7,7 +7,7 @@ import re
 from pathlib import Path
 from typing import Any, Dict, List, Optional, Tuple, Union
 
-from parser.file.base_parser import BaseParser
+from application.parser.file.base_parser import BaseParser
 
 
 class RstParser(BaseParser):

application/parser/file/tabular_parser.py

@@ -6,7 +6,7 @@ Contains parsers for tabular data files.
 from pathlib import Path
 from typing import Any, Dict, List, Union
 
-from parser.file.base_parser import BaseParser
+from application.parser.file.base_parser import BaseParser
 
 
 class CSVParser(BaseParser):

application/parser/schema/__init__.py

@@ -0,0 +1 @@
+

application/parser/schema/base.py

@@ -2,7 +2,7 @@
 from dataclasses import dataclass
 
 from langchain.docstore.document import Document as LCDocument
-from parser.schema.schema import BaseDocument
+from application.parser.schema.schema import BaseDocument
 
 
 @dataclass

application/parser/token_func.py

@@ -3,7 +3,7 @@ from math import ceil
 from typing import List
 
 import tiktoken
-from parser.schema.base import Document
+from application.parser.schema.base import Document
 
 
 def separate_header_and_body(text):

application/requirements.txt

@@ -73,6 +73,7 @@ pymongo==4.3.3
 pyowm==3.3.0
 PyPDF2==3.0.1
 PySocks==1.7.1
+pytest
 python-dateutil==2.8.2
 python-dotenv==1.0.0
 python-jose==3.3.0

application/tests/test_app.py

@@ -0,0 +1,37 @@
+from application.app import get_vectorstore
+
+
+# Test cases for get_vectorstore function
+def test_no_active_docs():
+    data = {}
+    assert get_vectorstore(data) == ""
+
+
+def test_default_active_docs():
+    data = {"active_docs": "default"}
+    assert get_vectorstore(data) == ""
+
+
+def test_local_default_active_docs():
+    data = {"active_docs": "local/default"}
+    assert get_vectorstore(data) == ""
+
+
+def test_local_custom_active_docs():
+    data = {"active_docs": "local/custom_index"}
+    assert get_vectorstore(data) == "indexes/local/custom_index"
+
+
+def test_remote_active_docs():
+    data = {"active_docs": "remote_index"}
+    assert get_vectorstore(data) == "vectors/remote_index"
+
+
+def test_active_docs_not_in_data():
+    data = {"other_key": "value"}
+    assert get_vectorstore(data) == ""
+
+
+def test_multiple_slashes_in_active_docs():
+    data = {"active_docs": "local/some/other/index"}
+    assert get_vectorstore(data) == "indexes/local/some/other/index"

application/worker.py

@@ -7,11 +7,11 @@ from urllib.parse import urljoin
 import nltk
 import requests
 
-from core.settings import settings
-from parser.file.bulk import SimpleDirectoryReader
-from parser.open_ai_func import call_openai_api
-from parser.schema.base import Document
-from parser.token_func import group_split
+from application.core.settings import settings
+from application.parser.file.bulk import SimpleDirectoryReader
+from application.parser.open_ai_func import call_openai_api
+from application.parser.schema.base import Document
+from application.parser.token_func import group_split
 
 try:
     nltk.download('punkt', quiet=True)

application/wsgi.py

@@ -1,4 +1,4 @@
-from app import app
+from application.app import app
 
 if __name__ == "__main__":
     app.run(debug=True, port=7091)

docker-compose-azure.yaml

@@ -13,6 +13,7 @@ services:
 
   backend:
     build: ./application
+    working_dir: /application
     environment:
       - API_KEY=$OPENAI_API_KEY
       - EMBEDDINGS_KEY=$OPENAI_API_KEY
@@ -27,16 +28,17 @@ services:
     ports:
       - "7091:7091"
     volumes:
-      - ./application/indexes:/app/indexes
-      - ./application/inputs:/app/inputs
-      - ./application/vectors:/app/vectors
+      - ./application/indexes:/application/indexes
+      - ./application/inputs:/application/inputs
+      - ./application/vectors:/application/vectors
     depends_on:
         - redis
         - mongo
 
   worker:
     build: ./application
-    command: celery -A app.celery worker -l INFO
+    working_dir: /application
+    command: celery -A application.app.celery worker -l INFO
     environment:
       - API_KEY=$OPENAI_API_KEY
       - EMBEDDINGS_KEY=$OPENAI_API_KEY

docker-compose.yaml

@@ -13,6 +13,7 @@ services:
 
   backend:
     build: ./application
+    working_dir: /application
     environment:
       - API_KEY=$OPENAI_API_KEY
       - EMBEDDINGS_KEY=$OPENAI_API_KEY
@@ -22,16 +23,17 @@ services:
     ports:
       - "7091:7091"
     volumes:
-      - ./application/indexes:/app/indexes
-      - ./application/inputs:/app/inputs
-      - ./application/vectors:/app/vectors
+      - ./application/indexes:/application/indexes
+      - ./application/inputs:/application/inputs
+      - ./application/vectors:/application/vectors
     depends_on:
       - redis
       - mongo
 
   worker:
     build: ./application
-    command: celery -A app.celery worker -l INFO
+    working_dir: /application
+    command: celery -A application.app.celery worker -l INFO
     environment:
       - API_KEY=$OPENAI_API_KEY
       - EMBEDDINGS_KEY=$OPENAI_API_KEY

scripts/requirements.txt

@@ -110,8 +110,6 @@ tenacity==8.2.2
 threadpoolctl==3.2.0
 tiktoken==0.4.0
 tokenizers==0.13.3
-torch==2.0.1
-torchvision==0.15.2
 tqdm==4.65.0
 transformers==4.31.0
 typer==0.9.0