Replace with

nextflow-io · Jul 18, 2023 · 27c7b12 · 27c7b12
1 parent f4b4da9
commit 27c7b12
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Showing 2 changed files with 7 additions and 7 deletions.
diff --git 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
@@ -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"
   }  
 }