A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

Hello! I'm wondering - how is it possible that the workflow was completed successfully (both the log and Nextflow report say so), while at the same time there is one or a few failed tasks listed in the pipeline report html file? In my last `fetchngs` run I had one `NFCORE_FETCHNGS:SRA:ASPERA_CLI` job listed among the failed tasks. However, when I look at the downloaded fastq files, they seem fine, and the respective task directory is not preserved in my Nextflow work directory (I use the `cleanup = true` config to immediately clean the work directories after successful pipeline execution). Is this normal behavior or should I be concerned that something is wrong?

I guess I found the answer to my own question - I'll leave it here for anyone else who asks this question in the future.
It appears that the pipeline report lists all tasks that were launched as part of the workflow execution. If a task failed and was automatically retried, the report will list both the first failed task any subsequent retries of the same task.