fix: get sra download to work and test it#102

Merged

johanneskoester merged 30 commits intomasterfrom

fix/get-sra-download-to-work-and-test-it

Dec 18, 2025

Commits on Nov 24, 2025

ci: add test for sra download
dlaehnemann
committed
docs: copy some nice detailed explanations in example config.yaml from the rna-seq-kallisto-sleuth workflow
dlaehnemann
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chore: prettier yaml files
dlaehnemann
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fix: correct read infix in get_units_fastq() for sra-downloaded fastq files
dlaehnemann
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fix: use existing versions of star snakemake wrappers (3.3.7), to make report creation work
dlaehnemann
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ci: update all the GitHub Actions versions
dlaehnemann
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Revert "fix: use existing versions of star snakemake wrappers (3.3.7), to make report creation work"
dlaehnemann
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ci: fix release-please-action namespace to new googleapis
dlaehnemann
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fix: ensure `release:` in `config.yaml` files is integer
dlaehnemann
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ci: fix gallus_gallus genome build to bGalGal1.mat.broiler.GRCg7b
dlaehnemann
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Commits on Nov 25, 2025

fix: the right config.yaml :facepalm:
dlaehnemann
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Commits on Nov 27, 2025

Commits on Dec 1, 2025

ci: try with yet another dataset, to reduce ci disk usage footprint
dlaehnemann
committed

Commits on Dec 4, 2025

Commits on Dec 15, 2025

fix: config_sra uses existing column for pca
dlaehnemann
committed