genelastic 0.8.0__py3-none-any.whl → 0.10.0__py3-none-any.whl

genelastic-0.8.0.dist-info/METADATA

@@ -1,109 +0,0 @@
-Metadata-Version: 2.2
-Name: genelastic
-Version: 0.8.0
-Summary: Generate and store genetic data into an Elasticsearch database.
-Author: CNRGH
-Author-email: Pierrick ROGER <pierrick.roger@cnrgh.fr>, Maxime BLANCHON <maxime.blanchon@cnrgh.fr>
-License: CeCILL
-Keywords: CNRGH,genelastic,generation,storage,elasticsearch,database
-Classifier: Development Status :: 3 - Alpha
-Classifier: Intended Audience :: Science/Research
-Classifier: License :: OSI Approved :: CEA CNRS Inria Logiciel Libre License, version 2.1 (CeCILL-2.1)
-Classifier: Programming Language :: Python :: 3.11
-Requires-Python: >=3.11
-Description-Content-Type: text/markdown
-Requires-Dist: elasticsearch
-Requires-Dist: PyVCF3
-Requires-Dist: schema
-Requires-Dist: PyYAML
-Requires-Dist: biophony<1.4,>=1.3.0
-Requires-Dist: colorlog
-Provides-Extra: tests
-Requires-Dist: pytest; extra == "tests"
-Requires-Dist: mypy; extra == "tests"
-Requires-Dist: coverage; extra == "tests"
-Requires-Dist: yamllint; extra == "tests"
-Requires-Dist: types-PyYAML; extra == "tests"
-Requires-Dist: ruff<0.9,>=0.8.1; extra == "tests"
-Requires-Dist: pre-commit<4.1,>=4.0.1; extra == "tests"
-Requires-Dist: types-requests; extra == "tests"
-Requires-Dist: ansible-core>=2.17.0; extra == "tests"
-Requires-Dist: ansible-lint<25,>=24.12.2; extra == "tests"
-Provides-Extra: docs
-Requires-Dist: sphinx; extra == "docs"
-Requires-Dist: sphinx-autoapi; extra == "docs"
-Requires-Dist: furo; extra == "docs"
-Provides-Extra: api
-Requires-Dist: flask; extra == "api"
-Requires-Dist: elasticsearch; extra == "api"
-Requires-Dist: environs; extra == "api"
-Requires-Dist: connexion[flask,swagger-ui,uvicorn]; extra == "api"
-Requires-Dist: gunicorn; extra == "api"
-Provides-Extra: ui
-Requires-Dist: flask; extra == "ui"
-Requires-Dist: requests; extra == "ui"
-Requires-Dist: environs; extra == "ui"
-Requires-Dist: uvicorn; extra == "ui"
-Requires-Dist: asgiref; extra == "ui"
-Requires-Dist: gunicorn; extra == "ui"
-
-# genelastic
-
-Storing of genetics data into an Elasticsearch database.
-
-## Prerequisites
-
-- `python` >= 3.11
-- `make`
-
-## Installation
-
-To install dependencies, run the following command:
-
-```bash
-python -m venv .venv
-source .venv/bin/activate
-make install.deps
-```
-
-## Configuration
-
-To start the **API server**, the following environment variables should be defined:
-
-- `GENAPI_ES_URL`: URL of the Elasticsearch server,
-- `GENAPI_ES_ENCODED_API_KEY`: Encoded API key,
-- `GENAPI_ES_INDEX_PREFIX`: Prefix to identify indices of interest,
-- `GENAPI_ES_CERT_FP`: Certificate fingerprint of the Elasticsearch server.
-
-Then, run the following command:
-
-```bash
-make start-api
-```
-
-To start the **UI server**, the following environment variables should be defined:
-
-- `GENUI_API_URL`: URL of the API server.
-
-Then, run the following command:
-
-```bash
-make start-ui
-```
-
-## Developers
-
-This project uses [pre-commit](https://pre-commit.com/) to manage Git hooks scripts. To install project hooks, run:
-
-```bash
-pre-commit install
-```
-
-After that, each commit will succeed only if all hooks (defined in `.pre-commit-config.yaml`) pass.
-
-If necessary (though not recommended),
-you can skip these hooks by using the `--no-verify` / `-n` option when committing:
-
-```bash
-git commit -m "My commit message" --no-verify # This commit will not run installed hooks.
-```

genelastic-0.8.0.dist-info/RECORD

@@ -1,52 +0,0 @@
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-genelastic-0.8.0.dist-info/entry_points.txt,sha256=IxtkWdVpPE8PnjblebCvKrdw4FnTKmvcHzNJfchkQ-c,381
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-genelastic-0.8.0.dist-info/RECORD,,

genelastic-0.8.0.dist-info/entry_points.txt

@@ -1,8 +0,0 @@
-[console_scripts]
-gnl-data = genelastic.import_data.cli_gen_data:main
-gnl-import = genelastic.import_data.cli_import:main
-gnl-info = genelastic.import_data.cli_info:main
-gnl-integrity = genelastic.import_data.cli_integrity:main
-gnl-start-api = genelastic.api.cli_start_api:main
-gnl-start-ui = genelastic.ui.cli_start_ui:main
-gnl-validate = genelastic.import_data.cli_validate:main

genelastic-0.8.0.dist-info/top_level.txt

@@ -1 +0,0 @@
-genelastic