AC nextflow
Build, run, and debug Nextflow data pipelines and nf-core workflows end to end. Use whenever the user mentions Nextflow, nf-core, .nf files, nextflow.config, DSL2, processes/channels/operators, samplesheets, or wants to run a community pipeline (e.g. nf-core/rnaseq, nf-core/sarek), write or test a module/subworkflow with nf-test, configure executors/containers (Docker, Singularity/Apptainer, Conda, Wave), scale a workflow to HPC/SLURM or cloud (AWS Batch, Google Batch, Azure, Kubernetes), or debug a failed/-resume run. Make sure to use this skill for any reproducible scientific/bioinformatics workflow work even if the user does not say the word "Nextflow", and for authoring nf-core-compliant pipelines, modules, configs, and linting.
Build, run, and debug Nextflow data pipelines and nf-core workflows end to end.
As a process C 54/100 · Has gaps — weak spots: result and completion, inputs and preconditions, running it twice
How to improve
- Your own cases (evals/evals.json, 4–6 real requests with expected answers): the full check would then run those instead of a model-drafted suite.
- A spec.yaml with trigger phrases and assertions — a behaviour contract for CI; `skilltest init` writes a template.
Guard findings · 1
✓ No critical or high findings
Medium and low: 1
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low Dangerous commands
cmd-pipe-to-shellreferences/testing.md:21Downloads and executes remote code from an unrecognised host (pipe to shell) (test fixture / example file; the skill's own vendor host)curl -fsSL https://get.nf-test.com | bash
fixturevendor-host
Files scanned: 8. Evidence is masked. Grey chips explain why severity was lowered.
Against the Agent Skills spec
✓ No remarks against the Agent Skills spec
Process rating: all ten parameters 54/100
- 0Result and completion. Does not say what the result is
- 0Inputs and preconditions. Does not say what the process needs to start
- 30Running it twice. 15 mutating operations with no state check
- 50Failures and branches. 0 branches, has a failure section
- 60Tools and files. Uses tools (bash, web) that frontmatter does not declare
- 70When it triggers. States when to use, but not when not to
- 85Steps. 35 steps, 1 vague phrases
- 100Consistency. Name and required fields are in place
- 100Execution cost. Instruction body is 3066 tokens
- 100Progress reporting. Reports progress
- medium Safety rules and hard prohibitions inside a skill: they belong in the system prompt, here they protect nothing
- low 11 top-level sections: this looks like several domains in one skill
- low The response is described with custom markup (9 tags): a typed call is more reliable
Everything here is measured from the skill text rather than judged by a model, so the numbers are checkable. A parameter weighs more when it is a more common reason for the process to stall.
Quality signals
- +5Description has no quoted example phrases that should trigger the skill
- +4Description does not say when NOT to use the skill (false activations)
- +3Output format is not stated: the model decides each time
- +2Single-language instructions
- +3Description length 742: enough signal without eating the budget
- +4Structure: 14 headings
- +3Step-by-step instructions: 35 items
- +4Has examples (5 code blocks)
- +4Reference files are cited in the instructions (7 of 7)
- +1License stated
Quality base 70; lint remarks subtract, signals add up to 100. Result: 89.