These are chat archives for nextflow-io/nextflow
cellranger mkfastqNF+AWS? I tried running cellranger on AWS batch setup and though the commandline has
--stats-dir Stats --reports-dir Reports, these two folders are not getting generated. Pipeline gets completed successfully. Fastqs are generated. Bit strange. Thanks in advance.
setfaclthat is easy to do (don't know!)), but we just chatted about it and for now we will have per-user cache directory indeed.
monitorfeature of nf-core tools. I am looking forward to all implementations :) With respect to results: as nf-core standardises the reports (and location), it is quite easy to trigger a second service via i.e. a webhook after completion and register the results. we will evaluate and most likely use StackStorm for the orchestration of events. sorry to the others, this gets a bit ot ;)
Hi! I'd like an error strategy like 'finish', but which allowed new job submissions, and only killed the main process when absolutely necessary, i.e. when no further progress can be made without the results of the failed process. Is such a thing possible?
I have some workflow runs with a very large number of processes, and just 'resuming' these runs takes forever. If individual jobs are allowed to kill the whole thing before all possible progress is made, it makes things quite difficult.