increase window again; 10 causes issues

bystrogenomics · Oct 31, 2024 · e38f2b3 · e38f2b3
1 parent 1ff9ebb
commit e38f2b3
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diff --git a/conf/main_with_beagle.config b/conf/main_with_beagle.config
@@ -30,6 +30,6 @@ params {
     phasing = [
         engine: "beagle",
         impute: true,
-        window: 10
+        window: 20
     ]
 }
diff --git a/modules/local/phasing/beagle.nf b/modules/local/phasing/beagle.nf
@@ -33,7 +33,7 @@ process BEAGLE {
         chrom=${chr_mapped}:${phasing_start}-${phasing_end} \\
         map=${map_beagle} \\
         impute=${impute_param} \\
-        window=${window} \\
+        window=${window}
 
     # for every phased.vcf.gz file, remove sites with DR2 < 0.8
     for file in *.phased.vcf.gz; do