From 0cc6f51c96f47eaf8f2135c3082980d0e7f75494 Mon Sep 17 00:00:00 2001 From: Chris Wright Date: Mon, 20 May 2024 10:27:34 +0100 Subject: [PATCH] Bump to version v1.12.0 --- CHANGELOG.md | 11 +++++------ medaka/__init__.py | 2 +- 2 files changed, 6 insertions(+), 7 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 8dd189c..ef3bc5e 100755 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -4,16 +4,15 @@ All notable changes to this project will be documented in this file. The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/), and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html). -## [Unreleased] +## [v1.12.0] ### Fixed - tandem: Use haplotag 0 in unphased mode. - tandem: Don't run consensus if regions set is empty. ### Added -- `sym_indels` option to make indels at ref and non-ref positions symmetric - during medaka feature generation step. -- Added `--min_mapq` minimum mapping quality alignment fitering option for medaka consensus. - Default value of one represents no change with respect to previous medaka releases. -- tandem: Option `--ignore_read_groups` to ignore read groups present in bam file. +- Models for version 5 basecaller models. +- Expose `sym_indels` option for training. +- Expose `--min_mapq` minimum mapping quality alignment fitering option for medaka consensus. +- tandem: Option `--ignore_read_groups` to ignore read groups present in input file. - Wrapper script `medaka_consensus_joint` and convenience tools (`prepare_tagged_bam`, `get_model_dtypes`) to facilitate joint polishing with multiple datatypes. diff --git a/medaka/__init__.py b/medaka/__init__.py index 8e4460a..97b5918 100755 --- a/medaka/__init__.py +++ b/medaka/__init__.py @@ -5,7 +5,7 @@ import subprocess import sys -__version__ = "1.11.3" +__version__ = "1.12.0" try: import pyabpoa as abpoa