Ecosyste.ms: Repos

An open API service providing repository metadata for many open source software ecosystems.

GitHub / nf-core / tools

Python package with helper tools for the nf-core community.

JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nf-core%2Ftools

Stars: 217
Forks: 176
Open Issues: 260

License: mit
Language: Python
Repo Size: 19.4 MB
Dependencies: 84

Created: about 6 years ago
Updated: about 14 hours ago
Last pushed: 1 day ago
Last synced: about 14 hours ago

Commit Stats

Commits: 6859
Authors: 137
Mean commits per author: 50.07
Development Distribution Score: 0.769
More commit stats: https://commits.ecosyste.ms/hosts/GitHub/repositories/nf-core/tools

Topics: bioinformatics, linter, linting, nextflow, nf-core, pipeline, python, workflow

Files

Readme

Dependencies

.github/workflows/branch.yml actions

mshick/add-pr-comment v1 composite

.github/workflows/create-lint-wf.yml actions

actions/checkout v3 composite
actions/setup-node v3 composite
actions/setup-python v4 composite
actions/upload-artifact v3 composite
nf-core/setup-nextflow v1 composite

.github/workflows/create-test-wf.yml actions

actions/checkout v3 composite
actions/setup-python v4 composite
actions/upload-artifact v3 composite
nf-core/setup-nextflow v1 composite

.github/workflows/deploy-pypi.yml actions

actions/checkout v3 composite
actions/setup-python v4 composite
pypa/gh-action-pypi-publish release/v1 composite

.github/workflows/fix-linting.yml actions

actions/checkout v3 composite
actions/setup-node v3 composite
actions/setup-python v4 composite
isort/isort-action v1.0.0 composite
psf/black stable composite

.github/workflows/lint-code.yml actions

actions/checkout v3 composite
actions/setup-node v3 composite
actions/setup-python v4 composite
isort/isort-action v1.1.0 composite
mshick/add-pr-comment v1 composite
psf/black stable composite

.github/workflows/push_dockerhub_dev.yml actions

actions/checkout v3 composite

.github/workflows/push_dockerhub_release.yml actions

actions/checkout v3 composite

.github/workflows/pytest.yml actions

actions/checkout v3 composite
actions/setup-python v4 composite
codecov/codecov-action v1 composite
nf-core/setup-nextflow v1 composite

.github/workflows/rich-codex.yml actions

actions/checkout v3 composite
actions/setup-python v4 composite
ewels/rich-codex v1 composite
nf-core/setup-nextflow v1 composite

.github/workflows/sync.yml actions

actions/checkout v3 composite
actions/setup-python v4 composite
actions/upload-artifact v3 composite
nf-core/setup-nextflow v1 composite

.github/workflows/tools-api-docs-dev.yml actions

SamKirkland/FTP-Deploy-Action 4.0.0 composite
actions/checkout v3 composite
actions/setup-python v4 composite

.github/workflows/tools-api-docs-release.yml actions

SamKirkland/FTP-Deploy-Action 4.0.0 composite
actions/checkout v3 composite
actions/setup-python v4 composite

Dockerfile docker

python 3.8.9-slim build

docs/api/requirements.txt pypi

requirements-dev.txt pypi

Sphinx * development
black * development
isort * development
myst_parser * development
pytest-cov * development
pytest-datafiles * development
requests-mock * development
requests_mock * development
sphinx-rtd-theme * development

requirements.txt pypi

GitPython *
click *
filetype *
galaxy-tool-util *
jinja2 *
jsonschema >=3.0
markdown >=3.3
packaging *
pre-commit *
prompt_toolkit >=3.0.3
pytest >=7.0.0
pytest-workflow >=1.6.0
pyyaml *
questionary >=1.8.0
refgenie *
requests *
requests_cache *
rich >=10.7.0
rich-click >=1.0.0
tabulate *

.github/workflows/clean-up.yml actions

actions/stale v7 composite

.github/workflows/create-test-lint-wf-template.yml actions

actions/checkout v3 composite
actions/setup-node v3 composite
actions/setup-python v4 composite
actions/upload-artifact v3 composite
nf-core/setup-nextflow v1 composite

nf_core/pipeline-template/modules/nf-core/custom/dumpsoftwareversions/meta.yml cpan

nf_core/pipeline-template/modules/nf-core/fastqc/meta.yml cpan

nf_core/pipeline-template/modules/nf-core/multiqc/meta.yml cpan

nf_core/pipeline-template/pyproject.toml pypi

pyproject.toml pypi

setup.py pypi

nf_core/module-template/meta.yml cpan

nf_core/subworkflow-template/meta.yml cpan

nf_core/module-template/environment.yml pypi

nf_core/pipeline-template/modules/nf-core/custom/dumpsoftwareversions/environment.yml pypi

nf_core/pipeline-template/modules/nf-core/fastqc/environment.yml pypi

nf_core/pipeline-template/modules/nf-core/multiqc/environment.yml pypi