modify nextflow.config for Merck validation

WEHI-ResearchComputing · Sep 18, 2024 · 73c6a06 · 73c6a06
1 parent c10a976
commit 73c6a06
Showing 1 changed file with 6 additions and 6 deletions.
diff --git a/nextflow.config b/nextflow.config
@@ -1,16 +1,16 @@
 params {
     // Required Parameters
-    outdir                  = "/vast/scratch/users/$USER/PaolaIGP3results"
-    input_seq_path          = "/stornext/Bioinf/data/bioinf-data/Papenfuss_lab/projects/malaria/cowman_lab/drug_resistance/iGP3_Paola2024/sequence_data"
-    input_file              = "/stornext/Bioinf/data/bioinf-data/Papenfuss_lab/projects/malaria/cowman_lab/drug_resistance/iGP3_Paola2024/samplegroup.txt"
+    outdir                  = "/vast/projects/malaria/mk7602validation/interactive"
+    input_seq_path          = "/vast/projects/malaria/mk7602validation/sequence_data"
+    input_file              = "/vast/projects/malaria/mk7602validation/singlegroup.txt"
     // Copynumber Plot Parameters
     bin_CNfull              = 5
     bin_CNroi               = 1
     lowerbound_fullCN       = 0.2
     upperbound_fullCN       = 36
-    chr_CNroi               = "07" 
-    start_CNroi             = 410
-    end_CNroi               = 416
+    chr_CNroi               = "02" 
+    start_CNroi             = 100
+    end_CNroi               = 600
 
     BCFqualcrit                = 50
     critsamplecount         = 1