adapt test.config

genepi · Mar 6, 2024 · b5d5cbb · b5d5cbb
1 parent d3191d2
commit b5d5cbb
Showing 1 changed file with 10 additions and 18 deletions.
diff --git a/config/test.config b/config/test.config
@@ -8,28 +8,20 @@
 
 params {
 
-	help 				= false
-	version 			= false
-	debug 				= true
+	help 						= false
+	version 					= false
+	debug 						= true
 
-	input 				= "$baseDir/data/fastq_pass/"
-	output 				= "umi-pipeline-nf_test-run"
-	reference 			= "$baseDir/data/ref/lpa-ref2645.fasta"
-	reference_fai 			= "$baseDir/data/ref/lpa-ref2645.fasta.fai"
-	bed 				= "$baseDir/data/ref/lpa-ref2645.bed"
-
-	subsampling 			= false
+	input 						= "$baseDir/data/fastq_pass/"
+	output 						= "umi-pipeline-nf_test-run"
+	reference 					= "$baseDir/data/ref/lpa-ref2645.fasta"
+	reference_fai 				= "$baseDir/data/ref/lpa-ref2645.fasta.fai"
+	bed 						= "$baseDir/data/ref/lpa-ref2645.bed"
 
 	min_reads_per_cluster 		= 10
 	max_reads_per_cluster 		= 20
-
-	write_reports 			= true
-	output_format 			= "fastq"
-	filter_strategy_clusters 	= "quality"
-	call_variants 			= true
-	variant_caller 			= "freebayes"
-
-	medaka_model 			= "r1041_e82_400bps_hac_g615"
+	call_variants 				= true
+	variant_caller 				= "mutserve"
 }
 
 // NEXTFLOW REPORTING