v3.0.4

• Uses new reports workflow dias_reports_workflow_v2.1.1
• Uses new cnv reports workflow dias_reports_workflow_v1.1.1
• 2.1.1 reports workflow and 1.1.1 cnv repots workflow both use new eggd_generate_variant_workbook 2.8.0, so the new config has all the required inputs for 2.8.0 of workbooks.

v3.0.3

• update .json config version from 3.0.2 to 3.0.3
• Vep config updated to v1.1.11 in .json config file
• remove the warning message from the readme file saying that the python script will be removed when the new eggd_dias_batch goes live.
• update README.md file to direct to dias_CEN_config_GRCh37_v3.0.3.json and vep config v1.1.11.
Testing details:
https://cuhbioinformatics.atlassian.net/wiki/spaces/DV/pages/3081011201/egg5+dias+CEN+config.json+v3.0.3

v3.0.2

Config has been updated to include url_duration of 15811200 seconds (=6 months) for artemis links

v3.0.1

• update python config version from 2.3.3 to 2.3.4 and json config version from 3.0.0 to 3.0.1
• Vep config updated to v1.1.10 in both python and json config files
• update readme file to direct to dias_CEN_config_GRCh37_v3.0.1.json and vep config v1.1.10
  Detail about testing https://cuhbioinformatics.atlassian.net/wiki/spaces/DV/pages/3056861185/egg5+dias+CEN+config+2.3.4+and+3.0.1

v3.0.0

• file is now a .json config (compatible with eggd_dias_batch v3.0.0), not a python script
• CNV calling instance type set to mem2_ssd1_v2_x16
• SNV variant workbooks are now frozen on column N

⚠️ Note the old .py script (version 2.3.3) is still in the repo, so that annotation source updates can carry on before eggd_dias_batch v3 goes live in Jan 2024

v2.3.3

Update VEP config to v1.1.9
Restore gnomADe_nhomalt & gnomADg_nhomalt to workbooks

See https://cuhbioinformatics.atlassian.net/wiki/spaces/DV/pages/3039854617/egg5+dias+CEN+config+2.3.3

v2.3.2

• Updated vep_config file to latest 231019 - VEP CEN Config file v1.1.8 file-GZk4f284z6jBp0Zqq9JFJBJ8
• Update assay version to increase the assay_version from v2.3.1 to v.2.3.2
• Updated the README.md to reference the updated version of the VEP config (v1.1.8)

See https://cuhbioinformatics.atlassian.net/wiki/spaces/DV/pages/3018162213/egg5_dias_CEN_config+v2.3.2

v2.3.1

• Removes undesirable gnomad-related columns from workbooks stage
• Fixes subdirectory search location for mosaics VCF

See https://cuhbioinformatics.atlassian.net/wiki/spaces/DV/pages/3017441281/egg5_dias_CEN_config+2.3.1

v2.3.0

Update assay version to v2.3.0

Update CEN VEP config to v1.1.7 (230926 - VEP CEN Config file v1.1.7 )

Update GATKgCNV_call app to v1.0.2 (230926 - VEP CEN Config file v1.1.7 )

See - https://cuhbioinformatics.atlassian.net/wiki/spaces/DV/pages/3011871009/egg5_dias_CEN_config+2.3.0

CEN_v2.2.0

Adds mosaic reports dynamic files and vcf location

Adds ACMG flag to CNV reports

See: https://cuhbioinformatics.atlassian.net/browse/DI-421