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WIP fix CI #180

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f957b5a
chore: readme fix
JaeAeich Dec 19, 2024
cb2cfef
chore: depricate docker-compose and lint fix
JaeAeich Dec 19, 2024
e14b9bb
chore: mypy errors
JaeAeich Dec 19, 2024
cf086d2
fix: pin foca version because pymongo breaks the server
JaeAeich Dec 19, 2024
8268325
fix: pin pip version
JaeAeich Dec 19, 2024
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17 changes: 7 additions & 10 deletions README.md
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Expand Up @@ -17,7 +17,7 @@ environments composed of GA4GH TES nodes.

proTES gateway may serve as a crucial component in federated compute networks
based on the GA4GH Cloud ecosystem. Its primary purpose is to provide
centralized features to a federated network of independently operated GA4GH TES
centralized features to a federated network of independently operated GA4GH TES
instances. As such, it can serve, for example, as a compatibility layer, a load
balancer workload distribution layer, a public entry point to an enclave of
independent compute nodes, or a means of collecting telemetry.
Expand All @@ -38,9 +38,9 @@ proof-of-concept examples for different task distribution scenarios:
evenly (actually: randomly!) distributes workloads across a network of TES
endpoints
* **Bringing compute to the data**: The
`pro_tes.middleware.task_distribution.distance` plugin selects TES endpoints
`pro_tes.middleware.task_distribution.distance` plugin selects TES endpoints
to relay incoming requests to in such a way that the distance the (input) data
of a task has to travel across the network of TES endpoints is minimized.
of a task has to travel across the network of TES endpoints is minimized.

### Implementation notes

Expand Down Expand Up @@ -76,7 +76,7 @@ Ensure you have the following software installed:

### Prerequisites

Create data directory and required subdiretories
Create data directory and required subdirectories

```bash
export PROTES_DATA_DIR=/path/to/data/directory
Expand Down Expand Up @@ -135,7 +135,7 @@ interactions with the community.

## Versioning

The project adopts the [semantic versioning][semver] scheme for versioning.
The project adopts the [semantic versioning][res-sem-ver] scheme for versioning.
Currently the service is in beta stage, so the API may change and even break
without further notice. However, once we deem the service stable and "feature
complete", the major, minor and patch version will shadow the supported TES
Expand Down Expand Up @@ -174,22 +174,19 @@ thread in our [Q&A forum][contact-qa], or send us an [email][contact-email].
[docs-contributing]: <https://elixir-cloud-aai.github.io/guides/guide-contributor/>
[docs-deploy]: deployment/README.md
[docs-license]: LICENSE
[GA4GH TES OpenAPI specification]:<https://github.com/ga4gh/task-execution-schemas>
[image-protes-overview]: <images/overview.svg>
[res-celery]: <http://www.celeryproject.org/>
[res-connexion]: <https://github.com/zalando/connexion>
[res-docker]: <https://www.docker.com/>
[res-docker-compose]: <https://docs.docker.com/compose/>
[res-elixir-cloud-aai]: <https://elixir-cloud.dcc.sib.swiss/>
[res-flask]: <http://flask.pocoo.org/>
[res-foca]: <https://github.com/elixir-cloud-aai/foca>
[res-ga4gh]: <https://www.ga4gh.org/>
[res-ga4gh-cloud]: <https://www.ga4gh.org/work_stream/cloud/>
[res-ga4gh-tes]: <https://github.com/ga4gh/task-execution-schemas>
[res-git]: <https://git-scm.com/>
[res-helm]: <https://helm.sh/>
[res-kubernetes]: <https://kubernetes.io/>
[res-mondodb]: <https://www.mongodb.com/>
[res-ouath2]: <https://oauth.net/2/>
[res-mongodb]: <https://www.mongodb.com/>
[res-oauth2]: <https://oauth.net/2/>
[res-rabbitmq]: <https://www.rabbitmq.com/>
[res-sem-ver]: <https://semver.org/>
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