These are chat archives for nextflow-io/nextflow

29th
May 2017
Simone Baffelli
@baffelli
May 29 2017 05:59
Good morning. Quick question: does file("file*.something") preserve the order of the received files when globbing them?
Simone Baffelli
@baffelli
May 29 2017 06:34
Related question: which type of order does the fromFilePairs channel factory use when emitting the pairs (i'm not referring to the order whitin a single pair) ? They seem to be mostly lexicographically ordered by filename, but not quite.
Paolo Di Tommaso
@pditommaso
May 29 2017 06:42
Quick question: does file("file*.something") preserve the order of the received files when globbing them?
yes
which type of order does the fromFilePairs channel factory use when emitting the pairs
it's file system dependant ie. NF does not order them
Simone Baffelli
@baffelli
May 29 2017 06:54
:smile:
Simone Baffelli
@baffelli
May 29 2017 08:06
3) I'd like to sort them using toSortedList, but after the sorting I would like to emit each pair indivually again. I tried concatenating toSortedlist() with flatten but now may pairs are predictably split. Any smarter way to acheive it?
Paolo Di Tommaso
@pditommaso
May 29 2017 08:09
what's the value of sorting and then emitting individually?
Simone Baffelli
@baffelli
May 29 2017 08:13
:clap: true...i only need them to be sorted when I have to plot the data
:unamused:
mitul-patel
@mitul-patel
May 29 2017 13:29
@pditommaso @ewels .... just visited karolinska Institute park.... amazing facilities....
Paolo Di Tommaso
@pditommaso
May 29 2017 13:30
I see, is the karolinska Institute a NF shop yet ? :D
mitul-patel
@mitul-patel
May 29 2017 13:30
We are just outside the main entrance.....
Been to the single cell genomics facilities and mass cytometry....
Paolo Di Tommaso
@pditommaso
May 29 2017 13:32
How can we help you ?
mitul-patel
@mitul-patel
May 29 2017 13:33
I am attending a single cell omics conference
And came to visit here as part of tour of scilifelab
I have been using NF... its amazing..... great tool...
Paolo Di Tommaso
@pditommaso
May 29 2017 13:34
I see thank .. :)
but NF is not developed at SciLifeLab ...
mitul-patel
@mitul-patel
May 29 2017 13:35
Ohhh.. i thought you work here...
Didn't realise
Paolo Di Tommaso
@pditommaso
May 29 2017 13:35
when you are coming at Barcelona I would be happy to guest you :)
mitul-patel
@mitul-patel
May 29 2017 13:36
Ohh... sorry I miss understood completely...
Paolo Di Tommaso
@pditommaso
May 29 2017 13:37
anyhow I'm pinging @ewels, maybe he can help you
mitul-patel
@mitul-patel
May 29 2017 13:37
Phil is working here i guess...
Paolo Di Tommaso
@pditommaso
May 29 2017 13:37
I guess so
Maxime Garcia
@MaxUlysse
May 29 2017 13:42
He is, so am I, but I'm currently in Copenhagen ;-)
mitul-patel
@mitul-patel
May 29 2017 13:43
No problem... i thought i just pass by to say hello
As i have received great advice over last month from all of you guys...
Maxime Garcia
@MaxUlysse
May 29 2017 13:45
As a lot of people in Sweden, I do enjoy fikas (coffee breaks), I'm sorry to miss this opportunity ;-)
Paolo Di Tommaso
@pditommaso
May 29 2017 13:46
I guys I hope to enjoy fikas soon as well! ;)
mitul-patel
@mitul-patel
May 29 2017 13:47
😉😉
Phil Ewels
@ewels
May 29 2017 14:34
aha, yes! Myself, @Hammarn, @Galithil and several other regulars to this chat room work at SciLifeLab.. :)
We're all in the sequencing facility (NGI - national genomics facility).
It's a little late for fika now sorry as I'll be heading home shortly, sorry to have missed you @mitul-patel!
If you're around tomorrow then come and say hello - we're also having a set of talks at 13:00 at scilifelab where I'll be presenting our RNA pipeline, built using Nextflow ;)
mitul-patel
@mitul-patel
May 29 2017 14:46
Oh.. thanks @ewels. Just came back to clarion hotel. I will see if i can get time tomorrow afternoon. As i got 2 sessions tomorrow. Thanks for the invite.
Phil Ewels
@ewels
May 29 2017 14:49
:+1:
Paolo Di Tommaso
@pditommaso
May 29 2017 14:50
Nextflow allows people to socialise :joy:
mitul-patel
@mitul-patel
May 29 2017 14:50
Thanks @pditommaso
😉
Félix C. Morency
@fmorency
May 29 2017 18:25
Is there a way to write parameter sets (like profiles) but for params?
Félix C. Morency
@fmorency
May 29 2017 18:31
Nvm, found