Merge DEV (!14) · Merge requests · Microbiome Informatics / emg-viral-pipeline

Martin Beracochea requested to merge dev into master May 22, 2020

This PR has:

CWL code, moved to an dev version in order to use conditionals.
Changes for https://github.com/EBI-Metagenomics/emg-viral-pipeline/issues/13
Changes for https://github.com/EBI-Metagenomics/emg-viral-pipeline/issues/12
Fix for lenght filtering script, memory problem reported by Alex A.
Mashmap optional step in CWL and Nextflow
Travis build for CWL and python scripts. Not sure how to write tests for Nextflow, at least a validation of the code (I'll dig into this).

I've tested this locally and it's working, I'll move the code to the cluster to run some tests.

Merge DEV