diff --git a/CHANGELOG.md b/CHANGELOG.md index a4f93e5..2b2fb17 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -16,6 +16,12 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 - Prioritization of neoantigens is now done separately for each variant type (speeds up the process) - NMD information (e.g., escape rule,...) is now also calculated for all variants +## [0.2.10] - 2024-07-08 + +### Fix + +- Allow to combine multiple VCF files in indel detection using mutect2 (e.g., when multiple samples are provided) + ## [0.2.9] - 2024-07-04 ### Fix diff --git a/workflow/rules/indel.smk b/workflow/rules/indel.smk index d252702..55337d6 100644 --- a/workflow/rules/indel.smk +++ b/workflow/rules/indel.smk @@ -347,7 +347,7 @@ rule combine_aug_short_indels_m2: "../envs/bcftools.yml" shell: """ - bcftools concat --naive -O z {input} -o - | bcftools sort -O z -o {output} > {log} 2>&1 + bcftools concat --naive-force -O z {input} -o - | bcftools sort -O z -o {output} > {log} 2>&1 """ rule select_SNVs_m2: