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[all-contributors]: <https://github.com/all-contributors/all-contributors>
[all-contributors-bot]: <https://allcontributors.org/docs/en/bot/overview>
[all-contributors-types]: <https://allcontributors.org/docs/en/emoji-key>
[bh-covid]: <https://github.com/virtual-biohackathons/covid-19-bh20>
[bh-dbcls]: <http://www.biohackathon.org/>
[bh-denbi]: <https://www.denbi.de/de-nbi-events/1454-biohackathon-germany>
[bh-elixir]: <https://www.biohackathon-europe.org/>
[bh-mena]: <https://cbrcconferences.kaust.edu.sa/bio-hackathon-2023>
[cephfs]: <https://docs.ceph.com/en/quincy/cephfs/>
[codecov]: <https://codecov.io/>
[contributor-covenant]: <https://www.contributor-covenant.org>
[conv-commits]: <https://www.conventionalcommits.org/en/v1.0.0-beta.2/#specification>
[conv-commits-blog]: <https://nitayneeman.com/posts/understanding-semantic-commit-messages-using-git-and-angular/>
[conv-commits-lint]: <https://github.com/conventional-changelog/commitlint>
[cwl-tes]: <https://github.com/ohsu-comp-bio/cwl-tes>
[docker-compose]: <https://docs.docker.com/compose/>
[docker-engine]: <https://docs.docker.com/engine/>
[elixir]: <https://elixir-europe.org/>
[elixir-cloud]: <https://elixir-cloud.dcc.sib.swiss/>
[elixir-cloud-aai]: <https://elixir-cloud.dcc.sib.swiss/>
[elixir-cloud-aai-contributors]: <https://elixir-cloud.dcc.sib.swiss/contributors>
[elixir-cloud-aai-github]: <https://github.com/elixir-cloud-aai/>
[elixir-cloud-aai-slack]: <https://join.slack.com/t/elixir-cloud/shared_invite/zt-1uvebyx1e-NcC0Hof2guT9df~haBdQaw>
[elixir-cloud-aai-slack-channel-oss]: <https://elixir-cloud.slack.com/archives/CSJ97K04E>
[elixir-cloud-aai-forum]: <https://github.com/elixir-cloud-aai/elixir-cloud-aai/discussions>
[elixir-cloud-aai-issues]: https://github.com/orgs/elixir-cloud-aai/projects
[elixir-cloud-aai-news]: <https://elixir-cloud.dcc.sib.swiss/news>
[elixir-cloud-aai-twitter]: <https://twitter.com/ELIXIRcloud_aai>
[elixir-cloud-aai-email]: <mailto:cloud-service@elixir-europe.org>
[elixir-cloud-demo-cwl]: <https://github.com/elixir-cloud-aai/elixir-cloud-demos/tree/main/demos/2023-ecp-f2f>
[elixir-cloud-demo-smk]: <https://github.com/elixir-cloud-aai/demo-tes-hybrid-cloud>
[elixir-cloud-registry]: <https://elixir-cloud.dcc.sib.swiss/ga4gh/registry/v1/ui/>
[elixir-cloud-services]: <https://github.com/elixir-cloud-aai/elixir-cloud-aai/blob/dev/resources/resources.md>
[eur-lex-ehds]: <https://eur-lex.europa.eu/legal-content/EN/TXT/?uri=OJ:L_202500327>
[fair]: <https://www.go-fair.org/fair-principles/>
[funnel]: <https://ohsu-comp-bio.github.io/funnel/>
[funnel-config-slurm]: <https://raw.githubusercontent.com/lvarin/test-funnel-slurm/main/funnel_config.yml>
[funnel-config-slurm-service]: <https://raw.githubusercontent.com/ohsu-comp-bio/funnel/52ef90fb76e620226f2af1bca5d14d35e1c4ad4a/deployments/systemd/funnel-server.service>
[ga4gh]: <https://ga4gh.org/>
[ga4gh-cloud-ws]: <https://www.ga4gh.org/work_stream/cloud/>
[ga4gh-cloud]: <https://ga4gh-cloud.github.io/>
[ga4gh-dps]: <https://www.ga4gh.org/how-we-work/driver-projects/>
[ga4gh-drs]: <https://github.com/ga4gh/data-repository-service-schemas>
[ga4gh-service-registry]: <https://github.com/ga4gh-discovery/ga4gh-service-registry>
[ga4gh-tes]: <https://github.com/ga4gh/task-execution-schemas>
[ga4gh-trs]: <https://github.com/ga4gh/tool-registry-service-schemas>
[ga4gh-wes]: <https://github.com/ga4gh/workflow-execution-schemas>
[git]: <https://git-scm.com/>
[git-branch]: <https://git-scm.com/book/en/v2/Git-Branching-Basic-Branching-and-Merging>
[git-commit]: <https://git-scm.com/docs/git-commit>
[git-pull]: <https://git-scm.com/docs/git-pull>
[git-push]: <https://git-scm.com/docs/git-push>
[git-rebase]: <https://git-scm.com/docs/git-rebase>
[github]: <https://github.com/>
[github-flow]: <https://docs.github.com/en/get-started/quickstart/github-flow>
[github-join]: <https://github.com/join>
[github-merge-squash]: <https://docs.github.com/en/pull-requests/collaborating-with-pull-requests/incorporating-changes-from-a-pull-request/about-pull-request-merges#squash-and-merge-your-commits>
[github-merge-rebase]: <https://docs.github.com/en/pull-requests/collaborating-with-pull-requests/incorporating-changes-from-a-pull-request/about-pull-request-merges#rebase-and-merge-your-commits>
[github-pr]: <https://docs.github.com/en/pull-requests/collaborating-with-pull-requests/proposing-changes-to-your-work-with-pull-requests/creating-a-pull-request>
[go-gopath]: <https://go.dev/doc/gopath_code#GOPATH>
[go-install]: <https://go.dev/doc/install>
[good-issues]: <https://medium.com/nyc-planning-digital/writing-a-proper-github-issue-97427d62a20f>
[good-bug-reports]: <http://testthewebforward.org/docs/bugs.html>
[gsoc]: <https://summerofcode.withgoogle.com/>
[gsoc-2019-vani]: <https://gist.github.com/vaniisgh/02af3ab8233fb7b6ac9314df0c3716f7>
[gsoc-2020-sarthak]: <https://gist.github.com/sarthakgupta072/d46494fac5fcdec1e059c148f5603d16>
[gsoc-2021-akash]: <https://gist.github.com/akash2237778/bc0c1473e786ca172ffdde281b89ede6>
[gsoc-2021-anurag]: <https://gist.github.com/git-anurag-hub/736301f2b40e242f1eef582151e3098a>
[gsoc-2021-vipul]: <https://gist.github.com/vipulchhabra99/ad41343524cb6ba5d27f57098fca0c58>
[gsoc-2022-ayush]: <https://gist.github.com/Ayush5120/d0cb4e95dd5d7be0a4667369b1379941>
[gsoc-2022-lakshya]: <https://gist.github.com/LakiG/0d7feb7af004d6478d8bb802ad5034b6>
[gsoc-2022-suyash]: <https://gist.github.com/sgalpha01/c0251dafa87c3e3c17fd5c1249055725>
[gsoc-2023-assel]: <https://gist.github.com/ltwmori/dab4d1781368d24d7023aca82ef6e205>
[gsoc-2023-javed]: <https://gist.github.com/JaeAeich/56463bffaae8d20e98a3e65d10a3abe0>
[gsoc-2023-lakshya]: <https://gist.github.com/LakiG/35fd41c6eedc68363cf6d06105446c12>
[gsoc-2024-aarav]: <https://gist.github.com/aaravm/ded3ba164ce07e87834325da3bace80d>
[gsoc-2024-athitheya]: <https://github.com/elixir-cloud-aai/protes-middleware-crypt4gh>
[gsoc-2024-javed]: <https://gist.github.com/JaeAeich/54b3bc916f1d49ed7e53eedf8f984f45>
[gsoc-2024-karanjot]: <https://gist.github.com/Karanjot786/c1ae7a424246dcea7e7a1b0dc23b33cd>
[gsoc-2024-pratiksha]: <https://gist.github.com/psankhe28/1af074aefa2fa67b056ce05b12c3b14e>
[gsoc-ga4gh]: <https://summerofcode.withgoogle.com/organizations/6274606475771904/>
[gsoc-stipends]: <https://developers.google.com/open-source/gsoc/help/student-stipends>
[gsoc-timeline]: <https://developers.google.com/open-source/gsoc/timeline>
[helm]: <https://helm.sh/>
[helm-install]: <https://helm.sh/docs/intro/install/>
[issue-tracker-example]: <https://github.com/elixir-cloud-aai/elixir-cloud-aai.github.io/issues>
[jsdoc]: <https://jsdoc.app/index.html>
[k8s]: <https://kubernetes.io/>
[k8s-jobs]: <https://kubernetes.io/docs/concepts/workloads/controllers/jobs-run-to-completion>
[k8s-pvc]: <https://kubernetes.io/docs/concepts/storage/persistent-volumes/#persistentvolumeclaims>
[k8s-storage-class]: <https://kubernetes.io/docs/concepts/storage/storage-classes/>
[license-apache]: <https://www.apache.org/licenses/LICENSE-2.0>
[linkedin-aarav]: <https://www.linkedin.com/in/aarav-mehta-445959250/>
[linkedin-akash]: <https://www.linkedin.com/in/akash-saini-ak7778/>
[linkedin-anurag]: <https://www.linkedin.com/in/anurag-gupta-1201/>
[linkedin-assel]: <https://www.linkedin.com/in/assel-abzalova/>
[linkedin-athitheya]: <https://www.linkedin.com/in/athith-g/>
[linkedin-ayush]: <https://www.linkedin.com/in/ayush-kumar-514a17197/>
[linkedin-javed]: <https://www.linkedin.com/in/javed-habib/>
[linkedin-karanjot]: <https://www.linkedin.com/in/karanjot786/>
[linkedin-lakshya]: <https://www.linkedin.com/in/lakshyaagarg/>
[linkedin-pratiksha]: <https://www.linkedin.com/in/pratiksha-sankhe/>
[linkedin-sarthak]: <https://www.linkedin.com/in/sarthakgupta072/>
[linkedin-suyash]: <https://www.linkedin.com/in/sgalpha01/>
[linkedin-vani]: <https://www.linkedin.com/in/vani-s-78701315b/>
[linkedin-vipul]: <https://www.linkedin.com/in/vipul-chhabra/>
[microk8s]: <https://microk8s.io/>
[minikube]: <https://minikube.sigs.k8s.io/>
[minio]: <https://min.io/>
[minio-deploy-openshift-template]: <https://github.com/CSCfi/Minio-OpenShift>
[minio-docs-k8s]: <https://min.io/docs/minio/kubernetes/upstream/index.html>
[mkdocs]: <https://www.mkdocs.org/>
[nextflow]: <https://www.nextflow.io/>
[netrc]: <https://www.gnu.org/software/inetutils/manual/html_node/The-_002enetrc-file.html>
[nfs]: <https://en.wikipedia.org/wiki/Network_File_System>
[openpbs]: <https://www.openpbs.org/>
[openshift]: <https://www.redhat.com/en/technologies/cloud-computing/openshift>
[osi]: <https://opensource.org/>
[py]: <https://www.python.org/>
[py-cov]: <https://github.com/nedbat/coveragepy>
[py-doc-google]: <https://sphinxcontrib-napoleon.readthedocs.io/en/latest/example_google.html>
[py-downloads]: <https://www.python.org/downloads/>
[py-monkey-type]: <https://github.com/Instagram/MonkeyType>
[py-mypy]: <https://github.com/python/mypy>
[py-pep8]: <https://peps.python.org/pep-0008/>
[py-pep257]: <https://peps.python.org/pep-0257/>
[py-poetry]: <https://python-poetry.org/>
[py-poetry-sort]: <https://pypi.org/project/poetry-sort/>
[py-pytest]: <https://docs.pytest.org/en/latest/>
[py-ruff]: <https://docs.astral.sh/ruff/>
[py-toml]: <https://packaging.python.org/en/latest/guides/writing-pyproject-toml/>
[py-typing]: <https://docs.python.org/3/library/typing.html>
[sem-ver]: <https://semver.org/>
[slurm]: <https://slurm.schedmd.com/>
[snakemake]: <https://snakemake.readthedocs.io/en/stable/>
[snakemake-docs]: <https://snakemake.readthedocs.io/en/stable/executing/cloud.html#executing-a-snakemake-workflow-via-ga4gh-tes>
[sphinx]: <https://www.sphinx-doc.org/en/master/>
[tesk]: <https://github.com/elixir-cloud-aai/TESK>
[tesk-docs-deploy]: <https://github.com/elixir-cloud-aai/TESK/blob/master/charts/tesk/README.md>
[tesk-docs-deploy-values]: <https://github.com/elixir-cloud-aai/TESK/tree/master/charts/tesk#description-of-values>
[tesk-helm]: <https://github.com/elixir-cloud-aai/TESK/tree/master/charts/tesk>
[tesk-helm-values]: <https://github.com/elixir-cloud-aai/TESK/blob/master/charts/tesk/values.yaml>
[vsftpd]: <https://security.appspot.com/vsftpd.html>
[vsftpd-deploy]: <https://www.digitalocean.com/community/tutorials/how-to-set-up-vsftpd-for-a-user-s-directory-on-ubuntu-20-04>
[ukdataservice-5-safes]: <https://ukdataservice.ac.uk/help/secure-lab/what-is-the-five-safes-framework>