Error on GET_ABUNDANT_ANCHORS - exit status (2)

durrantmm commented 2 years ago

I've been running NOMAD on a collection of 50 Vibrio cholerae isolates to identify hypervariable regions.

This is the command I run:

nextflow run salzmanlab/nomad \
    -profile docker \
    -r main \
    -latest \
    -resume \
    --input OUTPUT/samples/PRJNA668606.paths.filt.nf.csv \
    --element_annotations_samplesheet OUTPUT/annot.txt \
    --run_annotations false

There is no relevant annotation file, so I include a placeholder file and I set --run_annotations false.

And this is the error I get, apologies for just posting the screenshot:

I'm running this on google cloud VM running Ubuntu 18.04.

kaitlinchaung commented 2 years ago

Hi @durrantmm, could you please post the entire error message? Thanks!

durrantmm commented 2 years ago

Apologies, I figured it out! Requires more disk space than I expected.

Thank you.

salzman-lab / SPLASH

Error on GET_ABUNDANT_ANCHORS - exit status (2) #40