abc-cluster · seedling
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seedling tier closed beta · BMRI · Stellenbosch University

A fricanwesomeutomatedffordabledaptable Bioinformatics Computing Cluster a.k.a. Abhi's Baby Cluster

A cluster designed to be your research assistant so you may focus on the science.

data residency · 14-day lifetime All data stays on the BMRI bioinformatics servers at Stellenbosch University — your files never leave the institution's infrastructure. During closed beta, all user-stored data is wiped every 14 days — no exceptions, no recovery. Keep your own copies of anything you want to keep.
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01Services

Cluster services.

Five consoles cover day-to-day work. The first three and the workbench are authenticated with your cluster token — the same one the abc CLI uses, issued after your access request is approved. The job dashboard is public, read-only — no login needed.

01 · compute→
Monitor jobs
Submit, watch, drain, and re-run workloads. Live allocation status, logs, and resource use — the Nomad scheduler UI.
nomad.seedling.abc-cluster.cloud
02 · ingest→
Upload data
Resumable, chunked browser upload — close the tab and resume later. Or use abc data upload from the CLI (below).
upload.seedling.abc-cluster.cloud
03 · storage→
Browse data
Inspect your group's object storage — buckets, prefixes, objects, and access keys. The MinIO console.
minio.seedling.abc-cluster.cloud
04 · observability · public→
Job dashboard
Live cluster + per-user resource use, job activity (submitted / running / completed / failed), and recent allocation logs. No login.
grafana.seedling.abc-cluster.cloud
05 · interactive→
Workbench
Browser-based JupyterLab environment for interactive data analysis — explore results, write notebooks, and prototype pipelines. Your files and S3 credentials are pre-mounted. Login with your cluster token.
workbench.seedling.abc-cluster.cloud
02abc CLI

Get the abc CLI.

The abc CLI is the single entrypoint to the cluster — Linux, macOS, and Windows. Pick one of the install commands below, then head to the seedling docs for tutorials, walkthroughs, and the full CLI reference.

install · system-wide/usr/local/bin/abc
$ curl -fsSL -H "Accept: application/vnd.github.raw+json" \
    "https://api.github.com/repos/abc-cluster/abc-cluster-cli/contents/scripts/install-abc.sh?ref=main" \
  | sh -s -- --sudo
install · current directory$PWD/abc
$ curl -fsSL -H "Accept: application/vnd.github.raw+json" \
    "https://api.github.com/repos/abc-cluster/abc-cluster-cli/contents/scripts/install-abc.sh?ref=main" \
  | sh -s --
$ export PATH="$PWD:$PATH"

After install, verify with abc --version. Next steps live in the docs — quickstart, tutorials, CLI reference.

03Docs

Docs.

Start at quickstart if you're new.

01 · onboarding→
Quick start
Install the CLI, run your first abc job, ship a first investigation. ~15 minutes.
/docs/cli/quickstart
02 · reference→
The five verbs
data, job, pipeline, inv, report — every flag, every example, every gotcha.
/docs/cli/reference/
03 · accounting→
Cost & carbon reporting
Where the rand / kWh / CPU-hour numbers come from, and how to read them in a grant report.
/docs/abc-report
04Access

Get access.

Have a claim code? Paste it below for instant credentials — a pseudonymous handle (e.g. brave_pangolin) plus a one-shot config.yaml download. Closed beta for BMRI, Stellenbosch University research groups; do not upload sensitive data — all data is wiped every 14 days. No code yet? Leave the code blank and tell us about your work; the operator replies within 48 hours, usually with a code.

access · claim or request
required fields marked *
If you have a code, the code itself selects your group — no need to fill the request fields below.
Please enter your first name.
Please enter your last name.
Must end in @sun.ac.za. Bound to your slot for the POPIA consent record (claim path) or used to email your credentials (request path). Enter a valid @sun.ac.za email address.
Pick the role that best fits.
Select your lab.
Consent is required.
request received

Thanks. We'll email you within 48 hours with a claim code.

An operator on the seedling team reviews each request by hand — keeps the cohort small enough to support properly.

In the meantime, the quickstart and CLI reference are open.

05Feedback

Feedback.

Bug, feature request, question. Email optional.

feedback · feedback_submissions
anyone may submit
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Thanks — we'll read it.

If you left an email, expect a reply from a human. If not: your note still landed in the right inbox.