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snakemake-workflows / rna-seq-kallisto-sleuth

A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
MIT License
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propagate back pipeline extensions from mouse dataset #4

Closed dlaehnemann closed 5 years ago

dlaehnemann commented 5 years ago

For some reason the Travis test throws an error here: https://github.com/koesterlab/rna-seq-kallisto-sleuth/blob/41025fcc5f2cf90bfc31d32afc31ee03016e954d/rules/diffexp.smk#L77

But this entry is defined in the config.yaml here: https://github.com/koesterlab/rna-seq-kallisto-sleuth/blob/41025fcc5f2cf90bfc31d32afc31ee03016e954d/config.yaml#L40-L45

Any ideas @johanneskoester?

dlaehnemann commented 5 years ago

This passing beyond the current failing point now depends on the dummy gmt file being merged over at: https://github.com/snakemake-workflows/ngs-test-data/pull/4

dlaehnemann commented 5 years ago

This passes now and all your requests are addressed. Feel free to accept and merge.