These are chat archives for nextflow-io/nextflow

21st
Apr 2018
tbugfinder
@tbugfinder
Apr 21 2018 08:00
I would like to use a different container definition depending on input file size within the same process
Vladimir Kiselev
@wikiselev
Apr 21 2018 10:39
What could be the problem here?
  .command.stub: line 99: 10184 Terminated              nxf_trace "$pid" .command.trace
There is no other error in any of the .command.* files
Paolo Di Tommaso
@pditommaso
Apr 21 2018 10:46
@tbugfinder you need to get the file size using a map operator, then define the container image name with a closure
@wikiselev what's the exit code?
Vladimir Kiselev
@wikiselev
Apr 21 2018 10:53
it says 0 in the .exitcode file
Paolo Di Tommaso
@pditommaso
Apr 21 2018 10:55
That message is expected
Are you experiencing a concrete issue?
Vladimir Kiselev
@wikiselev
Apr 21 2018 10:55
maybe there are some R issues, this process calls several R scripts
I’ve resumed the pipeline now and it seems running and submitting jobs. So far so good
Paolo Di Tommaso
@pditommaso
Apr 21 2018 10:56
:+1:
tbugfinder
@tbugfinder
Apr 21 2018 16:35
I've added a notification oncomplete and would like to attach the file create with -with-report.
However it looks like it is not available at that time. Any chance to attach it to the email ?