Remove capital letters in parameters name
When variable with capital letter is used in nextflow, it is automatically converted using no capital letters and hyphens.
So, these variables are duplicated as shown bellow :
params.each{ entry -> println "$entry.key: $entry.value" }
email_bioinfo: get-plage.bioinfo@genotoul.fr
isMultiplex: true
is-multiplex: true
dataNature: DNA
data-nature: DNA
splitReads: true
split-reads: true
runName: AudreyTest_Bovin-Genisse2
run-name: AudreyTest_Bovin-Genisse2
To avoid duplicated variables, should use name without capital letter.
For example, isMultiplex
will become is_multiplex