These are chat archives for nextflow-io/nextflow

11th
May 2016
Paolo Di Tommaso
@pditommaso
May 11 2016 07:26
@mes5k Great thanks, I will give it a try soon
Matthieu Foll
@mfoll
May 11 2016 12:43

Hi Paolo. I couln’t wait and wanted to try the DAG on one of our pipeline. After updating to the 0.19 snapshot version the pipeline refuses to run with the following error:

ERROR ~ Channel `bam` has been used twice as an input by process `mpileup2table` and process `samtools_mpileup`

You can see the two processes here: https://github.com/IARCbioinfo/needlestack/blob/master/needlestack.nf

Paolo Di Tommaso
@pditommaso
May 11 2016 12:44
Well done!
let's see what's wrong
I see, repetition for that kind of channel should be allowed
thanks for reporting that
Matthieu Foll
@mfoll
May 11 2016 12:48
Good to hear I don’t need to change my pipeline!
Paolo Di Tommaso
@pditommaso
May 11 2016 12:48
:)
Mike Smoot
@mes5k
May 11 2016 23:42

Does anyone know a way to get a list of quoted strings out of a channel? When I have

 input:
    val file_list from fasta_files.toList()

I end up with [a.fa, b.fa, c.fa] in my script, when I need ["a.fa", "b.fa", "c.fa"]