Merge branch 'slee/release-v0.4.2' into 'master'

Release v0.4.2

See merge request machine-learning/dorado!665

CHANGELOG.md

@@ -2,6 +2,13 @@
 
 All notable changes to Dorado will be documented in this file.
 
+# [0.4.2] (30 Oct 2023)
+
+This release of Dorado fixes a bug with the CpG-context 5mC/5hmC model calling all contexts and adds beta support for using a barcode alias from a sample sheet.
+
+* 90a4d013938672af6dac399afbbafbd8bf7814ad - Fix motif for `5mCG_5hmCG` compatible with `[email protected]`
+* 616b951e3ede257ae6359b6005f60e44a53dd2cf - Beta support for sample sheet aliasing
+
 # [0.4.1] (12 Oct 2023)
 
 This release of Dorado fixes a bug with duplex tags and adds functionality to dorado demux.

README.md

@@ -18,10 +18,10 @@ If you encounter any problems building or running Dorado, please [report an issu
 
 ## Installation
 
- - [dorado-0.4.1-linux-x64](https://cdn.oxfordnanoportal.com/software/analysis/dorado-0.4.1-linux-x64.tar.gz)
- - [dorado-0.4.1-linux-arm64](https://cdn.oxfordnanoportal.com/software/analysis/dorado-0.4.1-linux-arm64.tar.gz)
- - [dorado-0.4.1-osx-arm64](https://cdn.oxfordnanoportal.com/software/analysis/dorado-0.4.1-osx-arm64.zip)
- - [dorado-0.4.1-win64](https://cdn.oxfordnanoportal.com/software/analysis/dorado-0.4.1-win64.zip)
+ - [dorado-0.4.2-linux-x64](https://cdn.oxfordnanoportal.com/software/analysis/dorado-0.4.2-linux-x64.tar.gz)
+ - [dorado-0.4.2-linux-arm64](https://cdn.oxfordnanoportal.com/software/analysis/dorado-0.4.2-linux-arm64.tar.gz)
+ - [dorado-0.4.2-osx-arm64](https://cdn.oxfordnanoportal.com/software/analysis/dorado-0.4.2-osx-arm64.zip)
+ - [dorado-0.4.2-win64](https://cdn.oxfordnanoportal.com/software/analysis/dorado-0.4.2-win64.zip)
 
 ## Platforms
 
@@ -42,7 +42,7 @@ Linux or Windows systems not listed above but which have Nvidia GPUs with ≥8 G
 
 If you encounter problems with running on your system, please [report an issue](https://github.com/nanoporetech/dorado/issues).
 
-AWS Benchmarks on NVIDIA GPUs for Dorado 0.3.0 are available [here](https://aws.amazon.com/blogs/hpc/benchmarking-the-oxford-nanopore-technologies-basecallers-on-aws/). Please note: Dorado's basecalling speed is continuously improving, so these benchmarks may not reflect performance with the latest release.
+AWS Benchmarks on Nvidia GPUs for Dorado 0.3.0 are available [here](https://aws.amazon.com/blogs/hpc/benchmarking-the-oxford-nanopore-technologies-basecallers-on-aws/). Please note: Dorado's basecalling speed is continuously improving, so these benchmarks may not reflect performance with the latest release.
 
 ## Roadmap
 

cmake/DoradoVersion.cmake

@@ -1,6 +1,6 @@
 set(DORADO_VERSION_MAJOR 0)
 set(DORADO_VERSION_MINOR 4)
-set(DORADO_VERSION_REV 1)
+set(DORADO_VERSION_REV 2)
 
 find_package(Git QUIET)
 if(GIT_FOUND AND EXISTS "${PROJECT_SOURCE_DIR}/.git")