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Merge branch 'dev' into feat/pass_pydantic_model_to_cognify

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Boris 2024-12-13 16:57:59 +01:00 • committed by GitHub
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14 changed files with 159 additions and 135 deletions
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35
.github/dependabot.yaml vendored
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@ -1,35 +0,0 @@
# Configuration: https://dependabot.com/docs/config-file/
# Docs: https://docs.github.com/en/github/administering-a-repository/keeping-your-dependencies-updated-automatically
version: 2
updates:
- package-ecosystem: "pip"
directory: "/"
schedule:
interval: "weekly"
allow:
- dependency-type: "all"
commit-message:
prefix: ":arrow_up:"
open-pull-requests-limit: 50
- package-ecosystem: "github-actions"
directory: "/"
schedule:
interval: "weekly"
allow:
- dependency-type: "all"
commit-message:
prefix: ":arrow_up:"
open-pull-requests-limit: 50
- package-ecosystem: "docker"
directory: "/"
schedule:
interval: "weekly"
allow:
- dependency-type: "all"
commit-message:
prefix: ":arrow_up:"
open-pull-requests-limit: 50

11
.github/workflows/cd.yaml vendored
View file

@ -3,7 +3,7 @@ name: publish dev | Docker image
on:
push:
branches:
- main
- dev
- feature/*
paths-ignore:
- '**.md'
@ -28,13 +28,8 @@ jobs:
- name: Set environment variable for stage
id: set-env
run: |
if [[ "${{ github.ref }}" == "refs/heads/main" ]]; then
echo "STAGE=prd" >> $GITHUB_ENV
echo "::set-output name=stage::prd"
else
echo "STAGE=dev" >> $GITHUB_ENV
echo "::set-output name=stage::dev"
fi
echo "STAGE=dev" >> $GITHUB_ENV
echo "::set-output name=stage::dev"
- name: Use output
run: echo "The stage is ${{ steps.set-env.outputs.stage }}"

2
.github/workflows/docker_compose.yml vendored
View file

@ -4,9 +4,11 @@ on:
push:
branches:
- main
- dev
pull_request:
branches:
- main
- dev
jobs:
docker-compose-test:

44
.github/workflows/pr_lint vendored Normal file
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@ -0,0 +1,44 @@
## Reference: https://github.com/amannn/action-semantic-pull-request
---
name: lint | PR
on:
pull_request:
types:
- opened
- reopened
- edited
- synchronize
permissions:
contents: read
jobs:
pr_title:
permissions:
pull-requests: write
statuses: write
name: Validate & Label PR
runs-on: ubuntu-latest
steps:
- uses: amannn/action-semantic-pull-request@v5
env:
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
with:
# Configure which types are allowed (newline-delimited).
# From: https://github.com/commitizen/conventional-commit-types/blob/master/index.json
# listing all below
types: |
chore
ci
docs
feat
fix
perf
refactor
revert
test
break
- uses: release-drafter/release-drafter@v6
env:
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}

5
.github/workflows/profiling.yaml vendored
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@ -1,7 +1,10 @@
name: test | profiling
on:
push
workflow_dispatch:
pull_request:
types: [labeled, synchronize]
jobs:
profiler:
runs-on: ubuntu-latest

5
.github/workflows/py_lint.yml vendored
View file

@ -2,11 +2,8 @@
name: lint | code & tests
on:
pull_request:
branches:
- main
- devel
workflow_dispatch:
pull_request:
concurrency:
group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}

8
.github/workflows/test_deduplication.yml vendored
View file

@ -3,8 +3,6 @@ name: test | deduplication
on:
workflow_dispatch:
pull_request:
branches:
- main
types: [labeled, synchronize]
@ -16,14 +14,8 @@ env:
RUNTIME__LOG_LEVEL: ERROR
jobs:
get_docs_changes:
name: docs changes
uses: ./.github/workflows/get_docs_changes.yml
run_deduplication_test:
name: test
needs: get_docs_changes
if: needs.get_docs_changes.outputs.changes_outside_docs == 'true' && ${{ github.event.label.name == 'run-checks' }}
runs-on: ubuntu-latest
defaults:
run:

1
CODE_OF_CONDUCT.md
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@ -111,6 +111,7 @@ individual, or aggression toward or disparagement of classes of individuals.
**Consequence**: A permanent ban from any sort of public interaction within
the community.
## Attribution
This Code of Conduct is adapted from the [Contributor Covenant][homepage],

16
CONTRIBUTING.md
View file

@ -71,11 +71,23 @@ You're on the verge of completion! It's time to showcase your hard work. 🌐
The project maintainers will review your work, possibly suggest improvements, or request further details. Once you receive approval, your contributions will become part of **cognee**!
## 5. 📜 Code of Conduct
## 5. Developer Certificate of Origin
All contributions to the topoteretes codebase must be signed-off to indicate you have read and agreed to the Developer Certificate of Origin (DCO), which is in the root directory under name DCO. To sign the DCO, simply add -s after all commits that you make, to do this easily you can make a git alias from the command line, for example:
$ git config alias.cos "commit -s"
Will allow you to write git cos which will automatically sign-off your commit. By signing a commit you are agreeing to the DCO and agree that you will be banned from the topoteretes GitHub organisation and Discord server if you violate the DCO.
We consider the following as violations to the DCO:
Signing the DCO with a fake name or pseudonym, if you are registered on GitHub or another platform with a fake name then you will not be able to contribute to topoteretes before updating your name;
Submitting a contribution that you did not have the right to submit whether due to licensing, copyright, or any other restrictions.
## 6. 📜 Code of Conduct
Ensure you adhere to the project's [Code of Conduct](https://github.com/topoteretes/cognee/blob/main/CODE_OF_CONDUCT.md) throughout your participation.
## 6. 📫 Contact
## 7. 📫 Contact
If you need assistance or simply wish to connect, we're here for you. Contact us by filing an issue on the GitHub repository or by messaging us on our Discord server.

17
DCO.md Normal file
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@ -0,0 +1,17 @@
Developer Certificate of Origin Version 1.1
Copyright (C) 2004, 2006 The Linux Foundation and its contributors.
Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed.
Developer's Certificate of Origin 1.1
By making a contribution to this project, I certify that:
(a) The contribution was created in whole or in part by me and I have the right to submit it under the open source license indicated in the file; or
(b) The contribution is based upon previous work that, to the best of my knowledge, is covered under an appropriate open source license and I have the right under that license to submit that work with modifications, whether created in whole or in part by me, under the same open source license (unless I am permitted to submit under a different license), as indicated in the file; or
(c) The contribution was provided directly to me by some other person who certified (a), (b) or (c) and I have not modified it.
(d) I understand and agree that this project and the contribution are public and that a record of the contribution (including all personal information I submit with it, including my sign-off) is maintained indefinitely and may be redistributed consistent with this project or the open source license(s) involved.

24
cognee/infrastructure/databases/vector/pgvector/PGVectorAdapter.py
View file

@ -24,19 +24,6 @@ class IndexSchema(DataPoint):
"index_fields": ["text"]
}
def singleton(class_):
# Note: Using this singleton as a decorator to a class removes
# the option to use class methods for that class
instances = {}
def getinstance(*args, **kwargs):
if class_ not in instances:
instances[class_] = class_(*args, **kwargs)
return instances[class_]
return getinstance
@singleton
class PGVectorAdapter(SQLAlchemyAdapter, VectorDBInterface):
def __init__(
@ -51,6 +38,11 @@ class PGVectorAdapter(SQLAlchemyAdapter, VectorDBInterface):
self.engine = create_async_engine(self.db_uri)
self.sessionmaker = async_sessionmaker(bind=self.engine, expire_on_commit=False)
# Has to be imported at class level
# Functions reading tables from database need to know what a Vector column type is
from pgvector.sqlalchemy import Vector
self.Vector = Vector
async def embed_data(self, data: list[str]) -> list[list[float]]:
return await self.embedding_engine.embed_text(data)
@ -70,7 +62,6 @@ class PGVectorAdapter(SQLAlchemyAdapter, VectorDBInterface):
if not await self.has_collection(collection_name):
from pgvector.sqlalchemy import Vector
class PGVectorDataPoint(Base):
__tablename__ = collection_name
__table_args__ = {"extend_existing": True}
@ -80,7 +71,7 @@ class PGVectorAdapter(SQLAlchemyAdapter, VectorDBInterface):
)
id: Mapped[data_point_types["id"]]
payload = Column(JSON)
vector = Column(Vector(vector_size))
vector = Column(self.Vector(vector_size))
def __init__(self, id, payload, vector):
self.id = id
@ -108,7 +99,6 @@ class PGVectorAdapter(SQLAlchemyAdapter, VectorDBInterface):
vector_size = self.embedding_engine.get_vector_size()
from pgvector.sqlalchemy import Vector
class PGVectorDataPoint(Base):
__tablename__ = collection_name
__table_args__ = {"extend_existing": True}
@ -118,7 +108,7 @@ class PGVectorAdapter(SQLAlchemyAdapter, VectorDBInterface):
)
id: Mapped[type(data_points[0].id)]
payload = Column(JSON)
vector = Column(Vector(vector_size))
vector = Column(self.Vector(vector_size))
def __init__(self, id, payload, vector):
self.id = id

4
notebooks/cognee_code_graph_demo.ipynb
View file

@ -46,7 +46,7 @@
"import git\n",
"\n",
"notebook_path = path.abspath(\"\")\n",
"repo_clone_location = path.join(notebook_path, \"data/graphrag\")\n",
"repo_clone_location = path.join(notebook_path, \".data/graphrag\")\n",
"\n",
"LocalStorage.remove_all(repo_clone_location)\n",
"\n",
@ -86,7 +86,7 @@
"from cognee.modules.pipelines import run_tasks\n",
"\n",
"notebook_path = os.path.abspath(\"\")\n",
"repo_clone_location = os.path.join(notebook_path, \"data/graphrag\")\n",
"repo_clone_location = os.path.join(notebook_path, \".data/graphrag\")\n",
"\n",
"pipeline = run_tasks(tasks, repo_clone_location, \"code_graph_pipeline\")\n",
"\n",

116
poetry.lock generated
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@ -1,4 +1,4 @@
# This file is automatically @generated by Poetry 1.8.3 and should not be changed by hand.
# This file is automatically @generated by Poetry 1.8.4 and should not be changed by hand.
[[package]]
name = "aiofiles"
@ -1184,33 +1184,37 @@ vision = ["Pillow (>=9.4.0)"]
[[package]]
name = "debugpy"
version = "1.8.2"
version = "1.8.9"
description = "An implementation of the Debug Adapter Protocol for Python"
optional = false
python-versions = ">=3.8"
files = [
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]
[[package]]
@ -1593,22 +1597,23 @@ redis = ">=5.0.1,<6.0.0"
[[package]]
name = "fastapi"
version = "0.109.2"
version = "0.115.6"
description = "FastAPI framework, high performance, easy to learn, fast to code, ready for production"
optional = false
python-versions = ">=3.8"
files = [
{file = "fastapi-0.109.2-py3-none-any.whl", hash = "sha256:2c9bab24667293b501cad8dd388c05240c850b58ec5876ee3283c47d6e1e3a4d"},
{file = "fastapi-0.109.2.tar.gz", hash = "sha256:f3817eac96fe4f65a2ebb4baa000f394e55f5fccdaf7f75250804bc58f354f73"},
{file = "fastapi-0.115.6-py3-none-any.whl", hash = "sha256:e9240b29e36fa8f4bb7290316988e90c381e5092e0cbe84e7818cc3713bcf305"},
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]
[package.dependencies]
pydantic = ">=1.7.4,<1.8 || >1.8,<1.8.1 || >1.8.1,<2.0.0 || >2.0.0,<2.0.1 || >2.0.1,<2.1.0 || >2.1.0,<3.0.0"
starlette = ">=0.36.3,<0.37.0"
starlette = ">=0.40.0,<0.42.0"
typing-extensions = ">=4.8.0"
[package.extras]
all = ["email-validator (>=2.0.0)", "httpx (>=0.23.0)", "itsdangerous (>=1.1.0)", "jinja2 (>=2.11.2)", "orjson (>=3.2.1)", "pydantic-extra-types (>=2.0.0)", "pydantic-settings (>=2.0.0)", "python-multipart (>=0.0.7)", "pyyaml (>=5.3.1)", "ujson (>=4.0.1,!=4.0.2,!=4.1.0,!=4.2.0,!=4.3.0,!=5.0.0,!=5.1.0)", "uvicorn[standard] (>=0.12.0)"]
all = ["email-validator (>=2.0.0)", "fastapi-cli[standard] (>=0.0.5)", "httpx (>=0.23.0)", "itsdangerous (>=1.1.0)", "jinja2 (>=2.11.2)", "orjson (>=3.2.1)", "pydantic-extra-types (>=2.0.0)", "pydantic-settings (>=2.0.0)", "python-multipart (>=0.0.7)", "pyyaml (>=5.3.1)", "ujson (>=4.0.1,!=4.0.2,!=4.1.0,!=4.2.0,!=4.3.0,!=5.0.0,!=5.1.0)", "uvicorn[standard] (>=0.12.0)"]
standard = ["email-validator (>=2.0.0)", "fastapi-cli[standard] (>=0.0.5)", "httpx (>=0.23.0)", "jinja2 (>=2.11.2)", "python-multipart (>=0.0.7)", "uvicorn[standard] (>=0.12.0)"]
[[package]]
name = "fastapi-users"
@ -2893,8 +2898,6 @@ optional = false
python-versions = "*"
files = [
{file = "jsonpath-ng-1.7.0.tar.gz", hash = "sha256:f6f5f7fd4e5ff79c785f1573b394043b39849fb2bb47bcead935d12b00beab3c"},
{file = "jsonpath_ng-1.7.0-py2-none-any.whl", hash = "sha256:898c93fc173f0c336784a3fa63d7434297544b7198124a68f9a3ef9597b0ae6e"},
{file = "jsonpath_ng-1.7.0-py3-none-any.whl", hash = "sha256:f3d7f9e848cba1b6da28c55b1c26ff915dc9e0b1ba7e752a53d6da8d5cbd00b6"},
]
[package.dependencies]
@ -3334,21 +3337,21 @@ tests = ["aiohttp", "boto3", "duckdb", "pandas (>=1.4)", "polars (>=0.19,<=1.3.0
[[package]]
name = "langchain"
version = "0.3.9"
version = "0.3.11"
description = "Building applications with LLMs through composability"
optional = true
python-versions = "<4.0,>=3.9"
files = [
{file = "langchain-0.3.9-py3-none-any.whl", hash = "sha256:ade5a1fee2f94f2e976a6c387f97d62cc7f0b9f26cfe0132a41d2bda761e1045"},
{file = "langchain-0.3.9.tar.gz", hash = "sha256:4950c4ad627d0aa95ce6bda7de453e22059b7e7836b562a8f781fb0b05d7294c"},
{file = "langchain-0.3.11-py3-none-any.whl", hash = "sha256:6655feded1f7569e5a4bd11e38de0a26c7c86646c0dea49afccceba42df60ad7"},
{file = "langchain-0.3.11.tar.gz", hash = "sha256:17868ea3f0cf5a46b4b88bf1961c4a12d32ea0778930e7d2eb5103e0287ff478"},
]
[package.dependencies]
aiohttp = ">=3.8.3,<4.0.0"
async-timeout = {version = ">=4.0.0,<5.0.0", markers = "python_version < \"3.11\""}
langchain-core = ">=0.3.21,<0.4.0"
langchain-core = ">=0.3.24,<0.4.0"
langchain-text-splitters = ">=0.3.0,<0.4.0"
langsmith = ">=0.1.17,<0.2.0"
langsmith = ">=0.1.17,<0.3"
numpy = {version = ">=1.22.4,<2", markers = "python_version < \"3.12\""}
pydantic = ">=2.7.4,<3.0.0"
PyYAML = ">=5.3"
@ -3358,22 +3361,22 @@ tenacity = ">=8.1.0,<8.4.0 || >8.4.0,<10"
[[package]]
name = "langchain-community"
version = "0.3.9"
version = "0.3.11"
description = "Community contributed LangChain integrations."
optional = true
python-versions = "<4.0,>=3.9"
files = [
{file = "langchain_community-0.3.9-py3-none-any.whl", hash = "sha256:ccccf9e703ccb7d929034be56e36177e3ee796e5ab8417aa79c25dc6ef40e1bd"},
{file = "langchain_community-0.3.9.tar.gz", hash = "sha256:b0b44c530c7647a360f2321749e7b7e95a3cbdfa2fceed7e1214228833996223"},
{file = "langchain_community-0.3.11-py3-none-any.whl", hash = "sha256:c67091dc7652f44161bbea915c03a296f3c1ef2a8dfbcb475cdf23a1deb9790e"},
{file = "langchain_community-0.3.11.tar.gz", hash = "sha256:31a96de1578f6037cd49acf287227d54e88e81f82e3e49cb4d90bfe05b1cdc32"},
]
[package.dependencies]
aiohttp = ">=3.8.3,<4.0.0"
dataclasses-json = ">=0.5.7,<0.7"
httpx-sse = ">=0.4.0,<0.5.0"
langchain = ">=0.3.8,<0.4.0"
langchain-core = ">=0.3.21,<0.4.0"
langsmith = ">=0.1.125,<0.2.0"
langchain = ">=0.3.11,<0.4.0"
langchain-core = ">=0.3.24,<0.4.0"
langsmith = ">=0.1.125,<0.3"
numpy = {version = ">=1.22.4,<2", markers = "python_version < \"3.12\""}
pydantic-settings = ">=2.4.0,<3.0.0"
PyYAML = ">=5.3"
@ -3383,18 +3386,18 @@ tenacity = ">=8.1.0,<8.4.0 || >8.4.0,<10"
[[package]]
name = "langchain-core"
version = "0.3.21"
version = "0.3.24"
description = "Building applications with LLMs through composability"
optional = true
python-versions = "<4.0,>=3.9"
files = [
{file = "langchain_core-0.3.21-py3-none-any.whl", hash = "sha256:7e723dff80946a1198976c6876fea8326dc82566ef9bcb5f8d9188f738733665"},
{file = "langchain_core-0.3.21.tar.gz", hash = "sha256:561b52b258ffa50a9fb11d7a1940ebfd915654d1ec95b35e81dfd5ee84143411"},
{file = "langchain_core-0.3.24-py3-none-any.whl", hash = "sha256:97192552ef882a3dd6ae3b870a180a743801d0137a1159173f51ac555eeb7eec"},
{file = "langchain_core-0.3.24.tar.gz", hash = "sha256:460851e8145327f70b70aad7dce2cdbd285e144d14af82b677256b941fc99656"},
]
[package.dependencies]
jsonpatch = ">=1.33,<2.0"
langsmith = ">=0.1.125,<0.2.0"
langsmith = ">=0.1.125,<0.3"
packaging = ">=23.2,<25"
pydantic = {version = ">=2.5.2,<3.0.0", markers = "python_full_version < \"3.12.4\""}
PyYAML = ">=5.3"
@ -3473,22 +3476,25 @@ openai = ["openai (>=0.27.8)"]
[[package]]
name = "langsmith"
version = "0.1.139"
version = "0.2.3"
description = "Client library to connect to the LangSmith LLM Tracing and Evaluation Platform."
optional = true
python-versions = "<4.0,>=3.8.1"
python-versions = "<4.0,>=3.9"
files = [
{file = "langsmith-0.1.139-py3-none-any.whl", hash = "sha256:2a4a541bfbd0a9727255df28a60048c85bc8c4c6a276975923785c3fd82dc879"},
{file = "langsmith-0.1.139.tar.gz", hash = "sha256:2f9e4d32fef3ad7ef42c8506448cce3a31ad6b78bb4f3310db04ddaa1e9d744d"},
{file = "langsmith-0.2.3-py3-none-any.whl", hash = "sha256:4958b6e918f57fedba6ddc55b8534d1e06478bb44c779aa73713ce898ca6ae87"},
{file = "langsmith-0.2.3.tar.gz", hash = "sha256:54c231b07fdeb0f8472925074a0ec0ed2cb654a0437d63c6ccf76a9da635900d"},
]
[package.dependencies]
httpx = ">=0.23.0,<1"
orjson = ">=3.9.14,<4.0.0"
orjson = {version = ">=3.9.14,<4.0.0", markers = "platform_python_implementation != \"PyPy\""}
pydantic = {version = ">=1,<3", markers = "python_full_version < \"3.12.4\""}
requests = ">=2,<3"
requests-toolbelt = ">=1.0.0,<2.0.0"
[package.extras]
langsmith-pyo3 = ["langsmith-pyo3 (>=0.1.0rc2,<0.2.0)"]
[[package]]
name = "litellm"
version = "1.49.1"
@ -7552,13 +7558,13 @@ tests = ["cython", "littleutils", "pygments", "pytest", "typeguard"]
[[package]]
name = "starlette"
version = "0.36.3"
version = "0.41.3"
description = "The little ASGI library that shines."
optional = false
python-versions = ">=3.8"
files = [
{file = "starlette-0.36.3-py3-none-any.whl", hash = "sha256:13d429aa93a61dc40bf503e8c801db1f1bca3dc706b10ef2434a36123568f044"},
{file = "starlette-0.36.3.tar.gz", hash = "sha256:90a671733cfb35771d8cc605e0b679d23b992f8dcfad48cc60b38cb29aeb7080"},
{file = "starlette-0.41.3-py3-none-any.whl", hash = "sha256:44cedb2b7c77a9de33a8b74b2b90e9f50d11fcf25d8270ea525ad71a25374ff7"},
{file = "starlette-0.41.3.tar.gz", hash = "sha256:0e4ab3d16522a255be6b28260b938eae2482f98ce5cc934cb08dce8dc3ba5835"},
]
[package.dependencies]
@ -8871,4 +8877,4 @@ weaviate = ["weaviate-client"]
[metadata]
lock-version = "2.0"
python-versions = ">=3.9.0,<3.12"
content-hash = "18d78e556471b4b63c948138233ef4b38bba02f649a469180c2b1c292f0d61df"
content-hash = "af91e3dcf6a8927ed938fe3f78172a5f1e0c0f9c8fbcbc76767b0e0d84645c9e"

6
pyproject.toml
View file

@ -22,7 +22,7 @@ python = ">=3.9.0,<3.12"
openai = "1.52.0"
pydantic = "2.8.2"
python-dotenv = "1.0.1"
fastapi = "^0.109.2"
fastapi = ">=0.109.2,<0.116.0"
uvicorn = "0.22.0"
requests = "2.32.3"
aiohttp = "3.10.10"
@ -54,7 +54,7 @@ jinja2 = "^3.1.3"
matplotlib = "^3.8.3"
tiktoken = "0.7.0"
langchain_text_splitters = {version = "0.3.2", optional = true}
langsmith = {version = "0.1.139", optional = true}
langsmith = {version = "0.2.3", optional = true}
langdetect = "1.0.9"
posthog = {version = "^3.5.0", optional = true}
lancedb = "0.15.0"
@ -101,7 +101,7 @@ coverage = "^7.3.2"
mypy = "^1.7.1"
notebook = {version = "^7.1.0", optional = true}
deptry = "^0.20.0"
debugpy = "1.8.2"
debugpy = "1.8.9"
pylint = "^3.0.3"
ruff = ">=0.2.2,<0.9.0"
tweepy = "4.14.0"