Combining same channels giving file name collision error

[zillurbmb51]

Hi,

I have a channel of tuple (val, file). I assigned it into two channels ch1, ch2. So, both channels have same element and then combined them using combine operator. Because, I need the same element twice. But, when I use the combined channel in a process I am getting error that: input file name collision -- There are multiple files for each of the following file names. Any help?

Also if I use separately ch1 and ch2 like:

input:
tuple val(st1), path(mng1) from ch1
tuple val(st2), path(mng2) from ch2

The same message comes out.

[bentsherman]

Hi @zillurbmb51 , when you provide a path input to a process, Nextflow stages the path into the task work directory. So if you provide multiple paths with the same filename, you will get a name conflict. When you combine these two channels, you should remove any combinations that have the same file twice. Or, you should stage them under different names, for example:

input:
tuple val(st), path('mng1.txt'), path('mng2.txt') // or whatever the file extension is