Changelog

[1.2.2] - 2022-11-23

hotfix (#78)

[1.2.1] - 2022-09-06

fixed named wildcards in s/p modes (#76)
updated to Viola-SV v1.0.2

[1.2.0] - 2022-06-23

integrate Viola-SV into the post-processing step to harmonize SV types (#75)

[1.1.3] - 2022-02-08

fixed filtering of somatic SV types in DELLY (#68)
updated testing infra
- Travis CI -> GitHub Actions (#55)
- Docker Hub -> GitHub Container Registry (#71)

[1.1.2] - 2020-10-26

update Xenon CLI (v3.0.5): fixed Slurm 19 issue (#40)
speed up conda install (#49)

[1.1.1] - 2020-02-06

added environment.yaml to install initial dependencies via Conda
- updated Xenon CLI (v3.0.4): --cores-per-task {threads} replaces --procs-per-node {threads} and --start-single-process args
- included jq JSON processor to query job accounting output by Xenon CLI (optional)
updated Docker images with batch schedulers for CI testing
fixed file error handling and unit tests

[1.1.0] - 2019-05-06

enabled both single-sample (germline) and paired-sample (somatic) SV analyses
added post-processing steps (i.e., SV quality filtering and/or excluding regions with problematic mappability)
updated Xenon CLI (v3.0.0) and included optional use of temporary disk space
added Docker images with batch schedulers for CI testing
bug fixes

[1.0.0] - 2018-04-11

initial release supporting SV detection in paired tumor/normal samples