Onboarding

Here you can find instructions on how to run assembly projects for the VR-EBP, ERGA, and BGE projects.

Getting started

A Github account is needed. A new member needs to added to the NBISweden Github organisation (Responsible: FIXME), and then to the ERGA assemblies team (Responsible: Martin P.) to access this webpage and template.

New members also need to be added to the NAISS compute and storage allocations in SUPR (Responsible: Henrik).

Life-cyle:

flowchart LR
    onboard[onboarding] --> project
    subgraph project
        direction LR
        initialize --> launch
        launch --> monitor
        monitor --> launch
        monitor --> closing
    end

Roles:

Project roles:

  • Lead: Henrik (NBIS), Lucile (NBIS)
  • Sequencer: Ignas (NGI), Christian (NGI)
  • Assembler: Martin P. (NBIS), Mahesh (NBIS), André (NBIS), Guilherme (NBIS), Estelle (NBIS)
  • Annotator: Lucile (NBIS), André (NBIS), Guilherme (NBIS), Martin P. (NBIS)
  • Steward: Stephan (NBIS)
  • Analyst: André (NBIS), Guilherme (NBIS)
  • Developer: Mahesh (NBIS)
  • Monitor: Mahesh (NBIS)

sequenceDiagram
    actor Lead
    actor Sequencer
    actor Assembler
    actor Annotator
    actor Steward
    actor Analyst
    actor Developer
    Lead ->> Sequencer: Sequence this species
    Sequencer ->> Assembler: Sequence data delivered
    Sequencer ->> Steward: Submit read data
    Assembler ->> Annotator: Assembly finished. Annotate please.
    Annotator ->> Analyst: Annotation complete. Analyse please.
    Annotator ->> Steward: Assembly and Annotation complete. Submit it.

Who to talk to:

  • Add to Github organisation: FIXME
  • Add to Github team: Martin P.
  • Add to NAISS compute allocation: Henrik
  • Add to NAISS storage allocation: Henrik
  • How to use the template: Mahesh
  • Code review: Mahesh
  • Protocol review: Mahesh
  • Disk space issues: Entire team