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Restore missing test parameters and update testing configurations #39

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Restore missing test parameters and update testing configurations #39

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2 changes: 1 addition & 1 deletion .github/workflows/nf-test.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -78,7 +78,7 @@ jobs:
- isMain: false
profile: "singularity"
NXF_VER:
- "25.04.4"
- "25.04.0"
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@mashehu mashehu Mar 15, 2026

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some pipelines have problems with mkdir in conda with the .0 version, that's why i picked a newer one

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@BenjaminWehnert1008 BenjaminWehnert1008 Mar 16, 2026 •
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makes sense, I just changed it becauce of the following error:

actions_nf_test: Minimum pipeline NF version '25.04.0' is not tested in      │
│ '.github/workflows/nf-test.yml'

https://github.com/nf-core/deepmutscan/actions/runs/22920074480/job/66515786186

- "latest-everything"
env:
NXF_ANSI_LOG: false
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12 changes: 10 additions & 2 deletions nextflow.config
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Expand Up @@ -9,10 +9,18 @@
// Global default params, used in configs
params {

// TODO nf-core: Specify your pipeline's command line flags
// Input options
input = null

min_counts = 10
mutagenesis_type = 'nnk'
run_seqdepth = false
reading_frame = null
custom_codon_library = '/NULL'
sliding_window_size = 10
aimed_cov = 100
fitness = false
dimsum = false

// References
genome = null
igenomes_base = 's3://ngi-igenomes/igenomes/'
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