From 27c7b123bc373c3ffa48c4bd1517ecc8be6a9cd1 Mon Sep 17 00:00:00 2001 From: Phil Ewels Date: Tue, 18 Jul 2023 23:43:44 +0200 Subject: [PATCH] Replace with --- main.nf | 6 +++--- nextflow.config | 8 ++++---- 2 files changed, 7 insertions(+), 7 deletions(-) diff --git a/main.nf b/main.nf index 77d2d70..145cd40 100755 --- a/main.nf +++ b/main.nf @@ -30,10 +30,10 @@ nextflow.enable.dsl = 2 * given `params.foo` specify on the run command line `--foo some_value`. */ -params.reads = "$baseDir/data/ggal/ggal_gut_{1,2}.fq" -params.transcriptome = "$baseDir/data/ggal/ggal_1_48850000_49020000.Ggal71.500bpflank.fa" +params.reads = "$projectDir/data/ggal/ggal_gut_{1,2}.fq" +params.transcriptome = "$projectDir/data/ggal/ggal_1_48850000_49020000.Ggal71.500bpflank.fa" params.outdir = "results" -params.multiqc = "$baseDir/multiqc" +params.multiqc = "$projectDir/multiqc" log.info """\ R N A S E Q - N F P I P E L I N E diff --git a/nextflow.config b/nextflow.config index 6841ce7..c7845e1 100755 --- a/nextflow.config +++ b/nextflow.config @@ -20,10 +20,10 @@ manifest { * default params */ -params.reads = "$baseDir/data/ggal/ggal_gut_{1,2}.fq" -params.transcriptome = "$baseDir/data/ggal/ggal_1_48850000_49020000.Ggal71.500bpflank.fa" +params.reads = "$projectDir/data/ggal/ggal_gut_{1,2}.fq" +params.transcriptome = "$projectDir/data/ggal/ggal_1_48850000_49020000.Ggal71.500bpflank.fa" params.outdir = "results" -params.multiqc = "$baseDir/multiqc" +params.multiqc = "$projectDir/multiqc" /* * defines execution profiles for different environments @@ -111,6 +111,6 @@ profiles { } conda { - process.conda = "$baseDir/conda.yml" + process.conda = "$projectDir/conda.yml" } }