NBIS-WABI_ID

• For peer-review track projects, name the repository: NBIS-WABI_ID, where the WABI_ID = PI's first name initial(s), PI's surname, and the year and month (YYMM) of the application deadline

• E.g. NBIS-M_Bergö_1305

• While creating repo choose "Private"

• Go to repository "Settings" -> "Collaborators and Teams" -> "Add teams" -> type "Staff"

• Give access to "Staff" team (Read, Write, etc.)

• Invite PI and collaborators with Write access using usernames -> "Add people"

• Setup the Confluence

Directory tree description

NBIS-WABI_ID		# NBIS-WABI_ID named directory
├── code
│   ├── scripts		# Standalone scripts
│   ├── slurm		# Slurm scripts
│   └── workflows	# Nextflow workflows
├── docs
│   ├── article		# Manuscript drafts
│   ├── confluence	# Confluence publishing directory
│   │   └── assets	# Placeholder for confluence publishing
│   │   └── minutes	# Placeholder for confluence publishing
│   │   └── slides	# Placeholder for confluence publishing
│   ├── dashboards	# Quarto dashboards
│   ├── logbook		# Code, figures, interpretation
│   │   └── assets	# Figures for logbook
│   ├── meetings	# Meeting notes
│   └── slides		# Revealjs slides
│       └── assets	# Figures for slides
├── env			# Software environment/container definition files etc.
│   └── bin		# Local binaries
├── interim		# Intermediate data, not tracked
├── processed		# Processed data, not tracked
├── raw			# Links to raw data, not tracked
└── scratch		# Non-essential files/sandbox, not tracked
.gitpod.yml		# Gitpod cloud dev environment config

How to use this template

gh repo create -> Create new repo on GitHub from template

gh repo clone <REPO> -> Clone the new repo to local machine

Gitpod environment to run the repo code in any browser (update URL to the correct repo)