search

theiagen / public_health_viral_genomics

Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, especially SARS-CoV-2
https://public-health-viral-genomics-theiagen.readthedocs.io/
GNU Affero General Public License v3.0
41 stars 17 forks source link

IRMA fails with too many reads #200

Open frankambrosio3 opened 1 year ago

frankambrosio3 commented 1 year ago

In the flu module of TheiaCoV, IRMA is reported to fail if the inputs contain too many reads. This issue may be managed by an optional flag in IRMA, but if not, a downsampling step may be necessary to prevent further run failures.

sage-wright commented 1 year ago
sage-wright commented 1 year ago

@kevinlibuit maxRetry doesn't get activated because the IRMA task doesn't actually fail