What I can think of off the top of my head:

Relevant extensions

• Name: markdownlint

  • Id: davidanson.vscode-markdownlint
  • Description: Markdown linting and style checking for Visual Studio Code
  • Version: 0.39.0
  • Publisher: David Anson
  • VS Marketplace Link: https://marketplace.visualstudio.com/items?itemName=DavidAnson.vscode-markdownlint

• Name: Nextflow

  • Id: nextflow.nextflow
  • Description: Nextflow language support
  • Version: 0.3.0
  • Publisher: nextflow
  • VS Marketplace Link: https://marketplace.visualstudio.com/items?itemName=nextflow.nextflow

• Name: Prettier - Code formatter

  • Id: esbenp.prettier-vscode
  • Description: Code formatter using prettier
  • Version: 5.9.2
  • Publisher: Prettier
  • VS Marketplace Link: https://marketplace.visualstudio.com/items?itemName=esbenp.prettier-vscode

• Name: YAML

  • Id: redhat.vscode-yaml
  • Description: YAML Language Support by Red Hat, with built-in Kubernetes syntax support
  • Version: 0.15.0
  • Publisher: Red Hat
  • VS Marketplace Link: https://marketplace.visualstudio.com/items?itemName=redhat.vscode-yaml

Settings etc

• Auto-format on save with Black
• Line lengths set to 120 instead of 80 wherever possible

When developing a pipeline, the docker extension can be useful to understand which containers are available along with which are running and the container's associated metadata.

It allows users to connect to any public or private container registries. This is especially useful if you build containers locally while testing/developing pipelines, and then push those containers to an external registry when publishing the pipeline.

It also provides syntax highlighting for Dockerfiles.

The extension and more information can be found here.

Check that extensions are valid and up to date. For example, svgviewer is not available any more on the marketplace.

nf-core/tools#1457

I'm a big fan of this extension-pack and have adopted several of these extensions into the extensions I put in devcontainer specs for repos I own/create. However, I also think there would be value in reducing the number of extensions in this pack to those extensions that are most important to development within Nextflow or nf-core. Basically trimming down the list from the "nice-to-have" to the "must-haves".

Here are a few specific ones I'd like to nominate for removal:

1. Gitlens

When I encourage people to install the nf-core extension pack, I've received the most pushback because the inclusion of gitlens. It tends to be a pretty polarizing extensions, with some people loving it and other people hating it. I also think it's worth removal because many features require a commerical subscription and the amount of visual clutter the git blames introduce.

2. Gitignore

This extension is typically only used once when creating a repo. I would expect it to play no role whatsoever in repos created using nf-core tooling because those come with a gitignore.

3. Live Share

Seems like a very cool extension, but also a general purpose tool that doesn't provide specific benefit to nextflow users.

All the other extensions seem like good additions in my view, because (like Prettier) they relate to the code quality tooling used by nf-core or ease the burden of file types that are frequently used in nextflow pipelines (like indent-rainbow).

One alternative for these nice-to-have extensions would be to move them to a Recommended extensions block for nf-core repos. (See https://code.visualstudio.com/docs/editor/extension-marketplace#_workspace-recommended-extensions)

In order to use this extension pack with the open-source version of VSCode, it must be published in https://open-vsx.org/

Nice stuff from https://github.com/Functional-Genomics-Lab/functional-genomics-extension-pack/blob/main/package.json that we should probably also add:

• codezombiech.gitignore - .gitignore language support
• EditorConfig.EditorConfig - use .editorconfig files for settings if found

..probably more

The personal access token used to publish our vscode extension is expired and needs to be refreshed.

https://github.com/nf-core/vscode-extensionpack/actions/runs/8061648994

Logs Excerpt:

Publishing 'nf-core.nf-core-extensionpack v0.4.0'...
Error: {"$id":"1","customProperties":{"Descriptor":null,"IdentityDisplayName":null,"Token":null,"RequestedPermissions":0,"NamespaceId":"00000000-0000-0000-0000-000000000000"},"innerException":null,"message":"Access Denied: The Personal Access Token used has expired.","typeName":"Microsoft.VisualStudio.Services.Security.AccessCheckException, Microsoft.VisualStudio.Services.WebApi","typeKey":"AccessCheckException","errorCode":0,"eventId":3000}