From 8c37d1e4410d5ab4d4641a4285c60323bea74bea Mon Sep 17 00:00:00 2001
From: Hanna  JULIENNE <hanna.julienne@pasteur.fr>
Date: Mon, 22 Jul 2024 11:27:54 +0200
Subject: [PATCH] Update file jass_pipeline.nf

---
 jass_pipeline.nf | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/jass_pipeline.nf b/jass_pipeline.nf
index 06dd01d..e1c5a7c 100644
--- a/jass_pipeline.nf
+++ b/jass_pipeline.nf
@@ -16,12 +16,12 @@ params.meta_data = "${projectDir}"+"/input_files/Data_test_EAS.csv"
  // "${projectDir}"+"/input_files/Meta_data_preliminary_analysis.csv" file describing gwas summary statistic format
 params.gwas_folder = "${projectDir}"+'/test_data/hg38_EAS/' 
 
-params.region = Channel.fromPath("${projectDir}"+"/input_files/All_Regions_ALL_ensemble_1000G_hg38_EUR.bed")
+params.region = Channel.fromPath("${projectDir}"+"/input_files/All_Regions_ALL_ensemble_1000G_hg38_EAS.bed")
 params.ref_panel_WG = "${projectDir}"+"/Ref_Panel/1000G_EAS_0_01_chr22_21.csv"
 
 
 params.ancestry="EAS"
-params.prefix="ALL_ensemble_1000G_hg38_EUR_chr"
+params.prefix="ALL_ensemble_1000G_hg38_EAS_chr"
 params.prefix_Impute_GWAS="ALL_ensemble_1000G_hg38_EAS_"
 params.suffix=""
 params.LD_SCORE_folder='/pasteur/zeus/projets/p02/GGS_WKD/DATA_1000G/Panels/Matrix_LDSCORE/EAS/'
@@ -45,7 +45,7 @@ params.ld_type = "plink"
 params.ld_folder = Channel.fromPath("/pasteur/zeus/projets/p02/GGS_WKD/DATA_1000G/Panels/Matrix_LD_RAISS/EAS/*.ld").collect()
 params.ref_panel = '/pasteur/zeus/projets/p02/GGS_JASS/jass_analysis_pipeline/Ref_panel_by_chr/'
 chr_channel = Channel.from(1..22)
-params.ref_chr_path= Channel.fromPath("/pasteur/zeus/projets/p02/GGS_WKD/DATA_1000G/Panels/EUR/ALL_ensemble_1000G_hg38_EUR_chr*.bim").collect()
+params.ref_chr_path= Channel.fromPath("/pasteur/zeus/projets/p02/GGS_WKD/DATA_1000G/Panels/EAS/ALL_ensemble_1000G_hg38_EAS_chr*.bim").collect()
 
 params.perform_sanity_checks=false
 params.perform_accuracy_checks=false
-- 
GitLab