Release notes: Latest releases

Major versions	Minor versions
v2.3.0
v2.2	v2.2.1, v2.2.1a, v2.2.2, v2.2.3, v2.2.4
v2.1	v2.1.1, v2.1.2
v2.0	v2.0.1, v2.0.2, v2.0.3

>> Version 2.3.0

Release date: 21.09.2021

Codebase

• Moved to Pipenv/Pipfile for dependency management and updating packages.
• Upgraded Python to v3.9.
• Upgraded PostgreSQL to version 13.
• Upgraded Docker base image to Debian 11 (Bullseye).
• Improvements to code base and dev environment.

Data sources

• Upgraded gnomAD to v2.1.1.
• Upgraded VEP to v104.3.
• Updated RefSeq to version 20201022.
• Removed miRNA from RefSeq data to mitigate bug in VEP (opens new window).
• Upgraded biocommons seqrepo to version 2021-01-29.
• Updated UTA to version 20210129.
• Updated ClinVar to version 20210826.

Version 2.2.4

Release date: 11.06.2021

Codebase

• Added force flag to get a clean data folder.

Version 2.2.3

Release date: 10.06.2021

Codebase

• Anno now allows import of empty VCFs.

Data sources

• Updated ClinVar to version 20210529.

Version 2.2.2

Release date: 23.02.2021

Codebase

• Minor improvements to backend.

Data sources

• Updated ClinVar to version 20210222.

Version 2.2.1a

Release date: 17.12.2020

Data sources

• Updated ClinVar to version 20201203.

Version 2.2.1

Release date: 15.12.2020

Codebase

• Fixed bug where VCFs with ALT variants with missing variants were erroneously set to ..

>> Version 2.2

Release date: 10.12.2020

Codebase

• Moved all code to Python 3.
• Non-default ports are now allowed for Postgres.

Data sources

• Updated UTA to version 20201027 (moved to DigitalOcean and part of datasets.json).

Version 2.1.2

Release date: 24.11.2020

Codebase

• Removed link to sliced VCF.
• Added proper handling of GATK star alleles (add code to remove star alleles that are conflicting with downstream tools).
• Fixed issue with PYTHONPATH in Python 3.

Version 2.1.1

Release date: 16.11.2020

Codebase

• Fixed issue with slicing of multiallelic blocks.

>> Version 2.1

Release date: 23.09.2020

Codebase

• Fixed pyrsistent version to 0.15.7 (Python 2 compatible).
• Moved vt decompose and vt normalize before slicing, to avoid slicing on non-normalized data.
• Allowed ANNOBUILDER_IMAGE_NAME to be specified.
• Added CI-test to check datasets.json against DigitalOcean.
• Fixed remaining issues with duplicates in vcfanno_config.toml.
• Added license.

Data sources

• Updated ClinVar to version 20200907.

Version 2.0.3

Release date: 13.07.2020

Codebase

• Fixed issue with duplicates in vcfanno_config.toml.
• Added possibility to override envs in Makefile.
• Added caching for Singularity.

Data sources

• Updated ClinVar to version 20200626.

Version 2.0.2

Release date: 18.05.2020

Data sources

• Updated ClinVar to version 20200514.

Version 2.0.1

Release date: 13.05.2020

Data sources

• Added option to set VEP buffer size in annotate.sh and environment variable.

>> Version 2.0

Release date: 13.05.2020

• Initial public release.