Commit 7eec04a9 authored by Amine  GHOZLANE's avatar Amine GHOZLANE

Update help

parent 4da1272c
......@@ -14,7 +14,7 @@ workflow.onError = {
params.help=false
def usage() {
println("animalerie-wf.nf --in <csv_file> --kronaout <output_krona> --resumeout <output_resume> --annotationout <output_annotation> --cpus <nb_cpus> -w <output_temp>")
println("animalerie-wf.nf --in <input_dir> --kronaout <output_krona> --resumeout <output_resume> --annotationout <output_annotation> --cpus <nb_cpus> -w <output_temp>")
println("--in Directory containing fastq files (Single end only). Full path is mandatory")
println("--kronaout Output krona file (default ${HOME}/krona.html)")
println("--resumeout Output resume file (default ${HOME}/resume_table.tsv)")
......@@ -52,7 +52,7 @@ params.evalue = 1E-3
params.hit = 1
params.wordsize = 28
params.minlength = 35
params.memory_mbma = 60000
params.memory_mbma = 30000
// Databases
params.alienseq = "$baseDir/databases/alienTrimmerPF8contaminants.fasta"
params.genomes = "$baseDir/databases/genomes_resume.fasta"
......
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