From c17692c28f1aea1d122e412b1df8cdce0e14741a Mon Sep 17 00:00:00 2001 From: Daniel Nilsson Date: Thu, 26 Sep 2024 10:24:50 +0200 Subject: [PATCH] Fix #76 - revert to output unannotated loci --- CHANGELOG.md | 3 ++- stranger/cli.py | 2 +- 2 files changed, 3 insertions(+), 2 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index d9fa19c..925bb9e 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -7,8 +7,9 @@ This project adheres to [Semantic Versioning](http://semver.org/). - Use codecov badge and fix scout link on README page - Added a test for TRGT MCs set to `.` - Added CLI test for TRGT file -- Fix codecov upload hidden artifact issue +- Codecov upload hidden artifact issue - Incorrect multisample, multiallele FORMAT output +- Write unannotated entries (not in definition file) to output (reverted to pre-0.9 behaviour) ## [0.9.1] ### Added diff --git a/stranger/cli.py b/stranger/cli.py index ada139a..9a8c56e 100644 --- a/stranger/cli.py +++ b/stranger/cli.py @@ -211,4 +211,4 @@ def cli(context, vcf, family_id, repeats_file, loglevel, trgt): repeat_data[annotate_repeat_key] ) - click.echo(get_variant_line(variant_info, header_info)) + click.echo(get_variant_line(variant_info, header_info))