v23.10 monthly release

• MultiQC to 1.16
• TACA to latest, including cleanup of NovSeqXPlus on Miarka
• ngi_reports to latest, includes address in the report and content changes
• Arteria sequencing report service to 1.4.1
• Archive upload to v1.1.0
• Archive verify to v1.2.1
• Add new arteria service arteria-checkqc at v3.8.2

v23.09 monthly release

Updated tool versions:

MultiQC: v1.15
ngt_reports: 32e1aec482aaebfafd460a3eda888f0477d6ab68

v23.08 monthly release

• Updates for supporting NovaSeqXPlus
  • ngi-reports, TACA, flowcell parser
• Updates wording in NAISS acknowledgement
  • ngi-reports, ngi-pipeline
• Fix lane header bug
  • ngi-reports
• Fix cert path
  • Tarzan
• Set Nextflow singularity cache dir, update version and fix configs
  • Arteria-sequencing-report-ws

v23.05 monthly release

• Added kraken2
• Fixed issues with DDS runfolder deliveries with TACA
• MultiQC_NGI to 0.7.1
• TACA to latest
• Tarzan: SubjectAltName in certificate
• nfcore
  • Ampliseq to 2.5.0
  • Viralrecon to 2.6.0
  • RNAFusion to 2.3.4
  • NanoSeq to 3.1.0
  • SCRNASeq to 2.3.0

v23.04.1 Quick fix

• fixed deployment of arteria-sequencing-reports
• added kong endpoint for arteria-sequencing-reports

v23.04 monthly release

• added archive-verify service
• added seqreports service
• updated MultiQC_NGI to v0.6.9
• updated TACA
• updated Nextflow to v22.10.6
• switched Nextflow to OracleJDK 11.0.9
• updated nf-core to v2.7.2

v23.02 monthly release

• Updated MultiQC to v1.14
• ngi_reports updates
• SUPR URL update
• Fix for charon updates from local jobs
• Update arteria-delivery to v3.0.1

v23.01 monthly release

• Updated ngi_reports version
• Fix in kong singularity container startup script
• DSL2 pipelines use a common location for containers: /vulpes/ngi/containers/biocontainers
• methylseq 1.6.1 -> 2.3.0
• atacseq 1.2.1 -> 2.0
• ampliseq 2.0.0 -> 2.4.1
• viralrecon 2.2 -> 2.5
• scrnaseq 2.0.0 -> 2.1.0

v22.11 Miarka production release

• MultiQC v1.13
• TACA/taca-ngi-pipeline
  • Use [project_name] (date) for DDS project description
  • Always include the project owner/requester in DDS deliveries
• ngi_reports
  • New option to deal with re-demultiplexed flow-cells
• arteria-delivery v3.0.0-rc2
  • Bug fixes
• Downloading references from iGenomes during deployment
• Fixes to config files

v22.10 Miarka production release

• Added TACA delivery config and README to accommodate batch-wise Sarek analyses
• Start Arteria delivery service via a wrapper in order to only load the dds-cli module for that service's environment
• Do not load the dds-cli module in the Uppsala-sourced scripts