Error Running a workflow

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.nextflow.log (7.5 KB) I am running an open source workflow GitHub - CDCgov/mycosnp-nf: MycoSNP: Whole Genome Sequencing Analysis of Fungal Isolates , but I mistakenly deleted the temporary (/epi/tmp) files. I have attached .nextflow.log file for your reference.
Command used: nextflow run CDCgov/mycosnp-nf -profile docker --input samplesheet.csv --snpeff true --fasta /epi/home/ashita.jawali@kdhe.state.ks.us/WGS_Drive/Cauris/GCF_003013715.1_ASM301371v2_genomic.fasta -resume Error Message: N E X T F L O W ~ version 25.10.0

Launching https://github.com/CDCgov/mycosnp-nf [evil_watson] DSL2 - revision: c2d8698a3f [master]

ERROR ~ /epi/tmp/nxf-8518208939282156890

I had not received this error before deleting the tmp files and it was running just fine. Could you advise what steps I should take to recover or rerun the workflow? Thanks.

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Hi @Ashita2619 , I would recommend running again without the -resume flag and see if that goes through ok

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Hi Geraldine, I did try that but it is throwing me the same error! I don’t know if i should delete the entire mycosnp-nf directory and relaunch the pipeline from scratch will that work? Thanks.

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I wonder if you checked your disk usage. Is it possible the epi/ is almost full?

df -h

if storage is not an issue, i would like check write access to /epi/tmp

ls -l and change write access if needed using chmod