Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx skills add agentlas-ai/agentlas-desktop --skill nextflowgit clone --depth 1 https://github.com/agentlas-ai/agentlas-desktopWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/agentlas-ai/agentlas-desktop/nextflow)<a href="https://agentmods.dev/skills/agentlas-ai/agentlas-desktop/nextflow"><img src="https://agentmods.dev/badge/skills/agentlas-ai/agentlas-desktop/nextflow/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/agentlas-ai/agentlas-desktop/nextflow"><img src="https://agentmods.dev/badge/skills/agentlas-ai/agentlas-desktop/nextflow.svg" alt="Reviewed on agentmods" width="80" height="20"></a>What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00181 | $0.03327 |
| Opus 5.5 | $0.00072 | $0.01331 |
| Sonnet 5.5 | $0.00036 | $0.00665 |
| Haiku 4.5 | $0.00018 | $0.00333 |
Grade D, and why
nextflow scanned grade D with 3 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 1mo ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Asks for rootmediumPrivilege escalation
A mod that escalates privileges can change anything on the machine, not only the project.
sudo mv nextflow /usr/local/bin/ # put on PATH Downloads and executes remote codehighSupply chain
curl | sh runs whatever the server returns today, which is not necessarily what it returned when this was reviewed.
curl -s https://get.nextflow.io | bash # creates ./nextflow Makes network callslowCapability
Not a fault in itself. Listed so you know the mod talks to something, and to what.
curl -s https://get.nextflow.io | bash # creates ./nextflow This is a copy
100% identical to nextflow — 64 lines differ, which has more behind it and is treated as the original. This page carries a canonical link to it rather than competing with it.
How it starts
The opening of the file, as written. The whole thing — 213 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Nextflow
Overview
Nextflow is a workflow language and runtime for building reproducible, portable, scalable data pipelines. It is dominant in bioinformatics but works for any data-heavy computation. nf-core is a community curating production-grade Nextflow pipelines, reusable modules, and the nf-core tooling on top of Nextflow.
Key ideas:
- Dataflow programming: pipelines are
processtasks connected by channels. Nextflow infers execution order and parallelism from data dependencies — there is no explicit scheduler to write. - Write once, run anywhere: the same pipeline runs locally, on HPC (SLURM, SGE, LSF, PBS), and on cloud (AWS Batch, Google Batch, Azure Batch, Kubernetes) by changing config/profiles, not code.
- Reproducibility: per-task containers (Docker/Singularity/Apptainer/Conda/Wave) +
-resumecaching + pinned pipeline revisions. - DSL2 is the modern, required syntax: modular
process/workflow/includedefinitions.
This skill covers both running existing pipelines and developing your own (Nextflow language + nf-core conventions, testing with nf-test, configuration, and deployment).
When to Use This Skill
Use this skill when the user wants to:
- Run an nf-core or custom Nextflow pipeline, or debug a failing/resuming run.
- Write or modify
.nfscripts,nextflow.config, profiles, ornextflow_schema.json. - Author or test nf-core-style modules/subworkflows (
main.nf,meta.yml,tests/, nf-test). - Configure executors, containers, or resources; scale to HPC or cloud.
- Build a reproducible scientific/bioinformatics workflow (even if "Nextflow" is not named).
- Understand processes, channels, operators,
take/emit,publishDir,ext.args, meta maps.
Setup
Nextflow needs Bash and Java 17 or newer (17–25 supported). Verify with java -version.
# Install Nextflow (self-contained launcher)
curl -s https://get.nextflow.io | bash # creates ./nextflow
sudo mv nextflow /usr/local/bin/ # put on PATH
nextflow info # verify
# Or via conda/bioconda (also gets a managed Java)
conda create -n nf -c bioconda -c conda-forge nextflow nf-core
What ships with it
7 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 1mo ago First seen · 213 lines · 181 tokens per session scan D 4ef839f586a7
nextflow is a skill published in the GitHub repository agentlas-ai/agentlas-desktop (6 stars, last pushed today), licensed Apache-2.0. It adds 181 tokens to every session and 3,327 once invoked, about $0.0007 per session on Opus 5.5. A static security scan graded it D with 3 findings (asks for root, downloads and executes remote code, makes network calls). It is 100% identical to nextflow, differing in 64 lines, and is treated as a copy.
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