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camlloyd
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Apr 6, 2026
| description: HDF5 file containing the k-mer sketches for all input | ||
| genomes | ||
| pattern: "*.h5" | ||
| ontologies: [] |
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Can an ontology be added here please?
camlloyd
reviewed
Apr 6, 2026
| - ${meta.id}/${meta.id}.dists.*: | ||
| type: file | ||
| description: Pairwise distance matrix files (numpy and pickle format) | ||
| pattern: "*.dists.*" |
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| pattern: "*.dists.*" | |
| pattern: "*.dists.{npy,pkl}" |
Looking at the description/snapshots, is this correct?
camlloyd
reviewed
Apr 6, 2026
| type: file | ||
| description: Pairwise distance matrix files (numpy and pickle format) | ||
| pattern: "*.dists.*" | ||
| ontologies: [] |
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Can ontologies be added here please?
camlloyd
reviewed
Apr 6, 2026
| [ | ||
| "POPPUNK_CREATEDB", | ||
| "poppunk", | ||
| "poppunk 2.7.8" |
camlloyd
reviewed
Apr 6, 2026
| description: | | ||
| Tab-separated file listing sample names and paths to their assembly FASTA files. | ||
| Format: <sample_name>\t<path/to/assembly.fa> | ||
| pattern: "*.{txt,tsv}" |
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Suggested change
| pattern: "*.{txt,tsv}" | |
| pattern: "*.txt" |
Looking at the snapshots, is this correct?
camlloyd
reviewed
Apr 6, 2026
| then { | ||
| assert process.success | ||
| assertAll( | ||
| { assert snapshot(process.out).match() } |
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| { assert snapshot(process.out).match() } | |
| { assert snapshot(sanitizeOutput(process.out)).match() } |
See https://nf-co.re/docs/tutorials/tests_and_test_data/components/03_testing_modules/
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