From a7e7b2f75101d38d3f10e293c7a9e52731ab6a3f Mon Sep 17 00:00:00 2001 From: emmarousseau Date: Fri, 29 Mar 2024 16:04:40 +0100 Subject: [PATCH] Update samtools version --- src/samtools/idxstats/config.vsh.yaml | 4 ++-- src/samtools/idxstats/test.sh | 2 -- 2 files changed, 2 insertions(+), 4 deletions(-) diff --git a/src/samtools/idxstats/config.vsh.yaml b/src/samtools/idxstats/config.vsh.yaml index daab15be..338c59c6 100644 --- a/src/samtools/idxstats/config.vsh.yaml +++ b/src/samtools/idxstats/config.vsh.yaml @@ -1,6 +1,6 @@ name: samtools_idxstats namespace: samtools -description: Reports alignment summary statistics for a BAM file +description: Reports alignment summary statistics for a BAM file. keywords: [stats, mapping, counts, chromosome, bam, sam, cram] links: homepage: https://www.htslib.org/ @@ -42,7 +42,7 @@ test_resources: path: test_data engines: - type: docker - image: quay.io/biocontainers/samtools:1.3.1--h9071d68_10 + image: quay.io/biocontainers/samtools:1.19.2--h50ea8bc_1 setup: - type: docker run: | diff --git a/src/samtools/idxstats/test.sh b/src/samtools/idxstats/test.sh index b66577e7..048d7917 100644 --- a/src/samtools/idxstats/test.sh +++ b/src/samtools/idxstats/test.sh @@ -8,8 +8,6 @@ echo ">>> Testing $meta_functionality_name" --bai "$test_dir/a.sorted.bam.bai" \ --output "$test_dir/a.sorted.idxstats" -echo "$test_dir/a.sorted.idxstats" - echo ">>> Checking whether output exists" [ ! -f "$test_dir/a.sorted.idxstats" ] && echo "File 'a.sorted.idxstats' does not exist!" && exit 1