From 86c3b9f4b4f8153ef38da1ebfaf8c1104201ad23 Mon Sep 17 00:00:00 2001 From: Adam Kells Date: Mon, 21 Oct 2024 09:25:20 +0100 Subject: [PATCH] finish docs --- docs/reference/pipeline/integrations.md | 17 + docs/reference/pipeline/pipeline.md | 6 + .../pipeline/components/integrations.py | 7 +- mkdocs.yml | 1 + poetry.lock | 777 ++---------------- pyproject.toml | 5 - 6 files changed, 74 insertions(+), 739 deletions(-) diff --git a/docs/reference/pipeline/integrations.md b/docs/reference/pipeline/integrations.md index 4b2f287..896b387 100644 --- a/docs/reference/pipeline/integrations.md +++ b/docs/reference/pipeline/integrations.md @@ -8,6 +8,23 @@ This document provides an overview of the integration components available in th 2. [HuggingFaceComponent](#huggingfacecomponent) 3. [LangChainComponent](#langchaincomponent) +## Installation Requirements +Before utilizing the integration components, it is important to note that the required third-party libraries are not included in HealthChain's default installation. This design decision was made to: + +- Maintain a lean and flexible core package +- Allow users to selectively install only the necessary dependencies +- Avoid potential version conflicts with other packages in your environment + +To use these integrations, you will need to manually install the corresponding libraries using pip. + +```python +pip install spacy +python -m spacy download en_core_web_sm # or another desired model +pip install transformers +pip install langchain +``` + + ## SpacyComponent The `SpacyComponent` allows you to integrate spaCy models into your HealthChain pipeline. To initialize the component it only requires the path to the Spacy pipeline you wish to use. To run this example you may need to first run `python -m spacy download en_core_web_sm` to download the model. diff --git a/docs/reference/pipeline/pipeline.md b/docs/reference/pipeline/pipeline.md index 635a2cb..1f7fc1a 100644 --- a/docs/reference/pipeline/pipeline.md +++ b/docs/reference/pipeline/pipeline.md @@ -109,6 +109,12 @@ pipeline.add(RemoveStopwords(stopwords)) [(BaseComponent API Reference)](../../api/component.md#healthchain.pipeline.components.basecomponent.BaseComponent) +### Integrations + +HealthChain offers powerful integrations with popular NLP libraries, enhancing its capabilities and allowing you to build more sophisticated pipelines. These integrations include components for spaCy, Hugging Face Transformers, and LangChain, enabling you to leverage state-of-the-art NLP models and techniques within your HealthChain workflows. + +Integrations are covered in detail on the [Integration](./integrations.md) homepage. + ## Pipeline Management 🔨 #### Adding diff --git a/healthchain/pipeline/components/integrations.py b/healthchain/pipeline/components/integrations.py index 6dc6dfb..3e12df6 100644 --- a/healthchain/pipeline/components/integrations.py +++ b/healthchain/pipeline/components/integrations.py @@ -17,12 +17,7 @@ def __call__(self, doc: Document) -> Document: class HuggingFaceComponent(BaseComponent[str]): def __init__(self, task, model): - try: - from transformers import pipeline - except ImportError: - raise ImportError( - "Transformers is not installed. Install it with 'pip install healthchain[transformers]'" - ) + from transformers import pipeline nlp = pipeline(task=task, model=model) self.nlp = nlp diff --git a/mkdocs.yml b/mkdocs.yml index c627905..e7a25eb 100644 --- a/mkdocs.yml +++ b/mkdocs.yml @@ -22,6 +22,7 @@ nav: - Overview: reference/pipeline/pipeline.md - Data Container: reference/pipeline/data_container.md - Component: reference/pipeline/component.md + - Integrations: reference/pipeline/integrations.md - Models: - Overview: reference/pipeline/models/models.md - Prebuilt: diff --git a/poetry.lock b/poetry.lock index f95ad56..96a3409 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,36 +1,5 @@ # This file is automatically @generated by Poetry 1.8.3 and should not be changed by hand. -[[package]] -name = "accelerate" -version = "1.0.1" -description = "Accelerate" -optional = true -python-versions = ">=3.8.0" -files = [ - {file = "accelerate-1.0.1-py3-none-any.whl", hash = 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+3215,6 @@ outcome = "*" sniffio = ">=1.3.0" sortedcontainers = "*" -[[package]] -name = "triton" -version = "3.1.0" -description = "A language and compiler for custom Deep Learning operations" -optional = true -python-versions = "*" -files = [ - {file = "triton-3.1.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:6b0dd10a925263abbe9fa37dcde67a5e9b2383fc269fdf59f5657cac38c5d1d8"}, - {file = "triton-3.1.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:0f34f6e7885d1bf0eaaf7ba875a5f0ce6f3c13ba98f9503651c1e6dc6757ed5c"}, - {file = "triton-3.1.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:c8182f42fd8080a7d39d666814fa36c5e30cc00ea7eeeb1a2983dbb4c99a0fdc"}, - {file = "triton-3.1.0-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:6dadaca7fc24de34e180271b5cf864c16755702e9f63a16f62df714a8099126a"}, - {file = "triton-3.1.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:aafa9a20cd0d9fee523cd4504aa7131807a864cd77dcf6efe7e981f18b8c6c11"}, -] - -[package.dependencies] -filelock = "*" - -[package.extras] -build = ["cmake (>=3.20)", "lit"] -tests = ["autopep8", "flake8", "isort", "llnl-hatchet", "numpy", "pytest", "scipy (>=1.7.1)"] -tutorials = ["matplotlib", "pandas", "tabulate"] - [[package]] name = "typer" version = "0.12.5" @@ -4451,10 +3775,7 @@ enabler = ["pytest-enabler (>=2.2)"] test = ["big-O", "importlib-resources", "jaraco.functools", "jaraco.itertools", "jaraco.test", "more-itertools", "pytest (>=6,!=8.1.*)", "pytest-ignore-flaky"] type = ["pytest-mypy"] -[extras] -transformers = ["transformers"] - [metadata] lock-version = "2.0" python-versions = ">=3.8,<3.12" -content-hash = "0f6d950951986447a60e43aa7c7b913d70af78420f60de2657c4c4432e7bc49d" +content-hash = "4f82bf37ca403a581db62cf2062ba4ae27fc312368e2dbb3780973433e9718d6" diff --git a/pyproject.toml b/pyproject.toml index e83e2eb..fe74644 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -36,11 +36,6 @@ spyne = "^2.14.0" lxml = "^5.2.2" xmltodict = "^0.13.0" -transformers = {version = "^4.45.2", optional = true, extras=["torch"]} - -[tool.poetry.extras] -transformers = ["transformers"] - [tool.poetry.group.dev.dependencies] ruff = "^0.4.2" pytest = "^8.2.0"