v1.2.0

Validation:

• Check the aggregation type of VCF files during the validation

Ingestion:

• Use aggregation type detected during validation
• Resolve and Create (if required) the variant warehouse databases
• Resolve and download the correct VEP cache or skip annotation

v1.1.0

Validation:

• Detect merge can be performed
• Check analysis alias collision
• New option to merge file post validation

Brokering:

• Add analysis to existing project

Ingestion:

• resolve symlinks during variant load to avoid confusing eva-pipeline
• Update metadata after variant load

v1.0.3

Fixes to variant load pipeline and ENA queries.

v1.0.2

Additional bug fixes from v1.0

v1.0.1

Bug fixes from 1.0 release.

v1.0.0

General:

• Support for multiple analyses and different reference sequence per analysis
• Version number now stored in eload config, backwards incompatible configs will be upgraded

Backlog + Ingestion:

• Bug fix for getting hold dates from ENA
• Refactor database connection methods

Ingestion:

• Skip VEP annotation based on command-line parameter
• Get VEP versions from database when possible

v0.5.9

Fix bug with hold date checking metadata db before loaded from ENA.

v0.5.8

Validation

• Speedup of excel reader

Ingestion

• Retrieve hold date from ENA rather than config
• Use secondaryPreferred reads in Mongo 4.0 environment

Backlog preparation

• Add ability to force replacing the config (previous one is backed up)
• Retrieve the reference accession from the analysis in metadata database
• Retrieve files from ENA when not available locally
• Support for multiple files per analysis

v0.5.7: Merge pull request #41 from tcezard/package_data

• Fix missing Nextflow and etc directory

v0.5.6

• Make scripts in bin executable
• Various bugfixes in genome downloader, validation reporting, backlog preparation, and ingestion