fix intervals file

nf-core · Jan 11, 2024 · 504cfec · 504cfec
1 parent 78b46de
commit 504cfec
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -29,6 +29,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - [#1345](https://github.com/nf-core/sarek/pull/1345) - Preserve STDERR for easier debugging
 - [#1351](https://github.com/nf-core/sarek/pull/1351) - Fix params name for test profiles (`bcftools_annotations`)
 - [#1357](https://github.com/nf-core/sarek/pull/1364) - Fixed bug where samples were dropped while reconstituting BAM files
+- [#1373](https://github.com/nf-core/sarek/pull/1373) - Add `chr` prefix to NCBench bed file & enable trimming
 
 ### Removed
 

diff --git a/conf/test_full_germline_ncbench_agilent.config b/conf/test_full_germline_ncbench_agilent.config
@@ -19,6 +19,7 @@ params {
 
     // Other params
     tools       = 'strelka,freebayes,haplotypecaller,deepvariant,manta,vep,snpeff'
-    intervals   = 'https://zenodo.org/record/6513789/files/Agilent_v7.bed'
+    intervals   = 's3://ngi-igenomes/test-data/sarek/Agilent_v7.bed'
     wes         = true
+    trim_fastq  = true
 }