These are chat archives for nextflow-io/nextflow

9th
Jul 2018
Radoslaw Suchecki
@bioinforad_twitter
Jul 09 2018 01:03
Perhaps this way @osandvold302 ?
process foo{
   output:
   file "*" into channel_1, channel_2, channel_3 
}
process bar {
   input:
   file "*" from channel_1
   output:
   file "*" into channel_4, channel_5
}
Shellfishgene
@Shellfishgene
Jul 09 2018 07:27
Making the DAG chart stopped working. The .dot file nextflow produces now starts with digraph graph instead of digraph flowchart and graphviz gives an error, syntax error in line 1 near 'graph'. If I manually change it from graph to flowchart in the dotfile it works as expected...
Paolo Di Tommaso
@pditommaso
Jul 09 2018 07:31
NF put the pipeline file name after digraph keyword
maybe graph is a reserved word ?
Shellfishgene
@Shellfishgene
Jul 09 2018 07:43
Ah, I didn't realize the graph came from the output file name in the nextflow config. Yes, that makes sense.
Paolo Di Tommaso
@pditommaso
Jul 09 2018 07:44
that solve the problem ?
Tobias Neumann
@t-neumann
Jul 09 2018 07:46

hi. does anyone know how to control the

#SBATCH --no-requeue

option in the slurm executor declarations? specifically, how do I unset it?

Shellfishgene
@Shellfishgene
Jul 09 2018 07:47
Yes, for me it does. But if other people get the idea to name the dag graph.png this will come up again.
Paolo Di Tommaso
@pditommaso
Jul 09 2018 07:48
@Shellfishgene could you please open an issue on GH
@t-neumann task re-scheduling need to be manage by NF, therefore requeue is disabled
Tobias Neumann
@t-neumann
Jul 09 2018 07:53
ok I see. thx @pditommaso
Shellfishgene
@Shellfishgene
Jul 09 2018 08:00
@pditommaso done
Paolo Di Tommaso
@pditommaso
Jul 09 2018 08:02
thanks
Brad Langhorst
@bwlang
Jul 09 2018 14:15
is it possible to invalidate the cache for argument changes? (e.g. re-run those jobs who use an modified argument) ?
Paolo Di Tommaso
@pditommaso
Jul 09 2018 14:32
what do you mean for modified argument ?
params.something ?