anno documentation

# Release notes: Latest releases

Major versions Minor versions
v2.6 v2.6.0, v2.6.0a, v2.6.0b, v2.6.0c, v2.6.0d, v2.6.0e, v2.6.0f
v2.5 v2.5.0
v2.4 v2.4.1
v2.3 v2.3.1, v2.3.2
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 2.6.0f

Release date: 24.01.2023

# Codebase

  • release history documentation update

# Data sources

  • Updated Clinvar to version 20230105.

# Version 2.6.0e

Release date: 30.12.2022

# Codebase

  • release history documentation update
  • correct build command in docs

# Data sources

  • Updated Clinvar to version 20221201.

# Version 2.6.0d

Release date: 25.11.2022

# Data sources

  • Updated Clinvar to version 20221103.

# Version 2.6.0c

Release date: 18.10.2022

# Data sources

  • Updated Clinvar to version 20221006.

# Version 2.6.0b

Release date: 04.10.2022

# Data sources

  • Updated Clinvar to version 20220901.

# Version 2.6.0a

Release date: 18.08.2022

# Data sources

  • Updated Clinvar to version 20220804.

# >> Version 2.6

Release date: not released

# Codebase

  • Update the pipenv lock file

# Data sources

  • Updated Clinvar to version 20220707.

# >> Version 2.5

Release date: 20.06.2022

# Codebase

  • Show size of annotation data before downloading

# Data sources

  • Updated Clinvar to version 20220505.

# Version 2.4.1

Release date: 25.04.2022

# Codebase

  • release history documentation update

# Data sources

  • Updated Clinvar to version 20220407

# >> Version 2.4

Release date: 18.03.2022

# Codebase

  • generic anno config parser

# Data sources

  • Updated Clinvar to version 20220303.

# Version 2.3.2

Release date: 23.02.2022

# Codebase

  • Error log output is truncated in `ops/sync_data.py
  • Trouble with permissions when indexing FASTA in container root folder

# Data sources

  • Updated Clinvar to version 20220203.

# Version 2.3.1

Release date: 12.02.2022

# Codebase

  • Use docker:// when USE_REGISTRY is set
  • Various minor build fixes

# Data sources

  • Updated RefGene to version 20210928.
  • Updated Clinvar to version 20220106.

# >> Version 2.3

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.
Last Updated: 1/23/2023, 2:24:54 PM

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