Skip to content
Snippets Groups Projects
Commit 6ae6019e authored by Xavier Grand's avatar Xavier Grand
Browse files

Clean params deprecated.

parent 5b5b8501
No related branches found
No related tags found
No related merge requests found
......@@ -110,6 +110,7 @@ params.seqkit_grep_out = "03_fastq/"
params.porechop_out = "03_fastq/"
params.cutadapt_out = "04_cutadapt/"
params.minimap2_genome_out = "05_minimap2/"
params.indexed_bam_out = "05_minimap2/"
params.filtered_bam_out = "05_minimap2/"
params.start_position_counts_out = "06_start_positions/"
params.nanosplicer_out = "07_nanosplicer/"
......@@ -183,9 +184,7 @@ include { concatenate } from "./nf_modules/concatenate/main.nf"
include { cut_5pRACE } from "./nf_modules/cutadapt/main.nf"
include { hbv_genome } from "./nf_modules/minimap2/main.nf"
include { seqkit_grep } from "./nf_modules/seqkit/main.nf"
include { sort_bam } from './nf_modules/samtools/main.nf' addParams(sort_bam_out: params.minimap2_genome_out)
include { index_bam } from './nf_modules/samtools/main.nf' addParams(index_bam_out: params.minimap2_genome_out)
include { sort_index_bam } from './nf_modules/samtools/main.nf' addParams(indexed_bam_out: params.minimap2_genome_out)
include { sort_index_bam } from './nf_modules/samtools/main.nf'
include { filter_as } from './nf_modules/samtools/main.nf'
include { start_position_counts } from "./nf_modules/samtools/main.nf"
include { start_position_individuals } from "./nf_modules/start_positions/main.nf"
......
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment