nf-core / vscode-extensionpack Goto Github PK
View Code? Open in Web Editor NEWA VSCode extension pack for nf-core developers.
Home Page: https://marketplace.visualstudio.com/items?itemName=nf-core.nf-core-extensionpack
License: MIT License
A VSCode extension pack for nf-core developers.
Home Page: https://marketplace.visualstudio.com/items?itemName=nf-core.nf-core-extensionpack
License: MIT License
Nice stuff from https://github.com/Functional-Genomics-Lab/functional-genomics-extension-pack/blob/main/package.json that we should probably also add:
.gitignore
language support.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}
Check that extensions are valid and up to date. For example, svgviewer
is not available any more on the marketplace.
What I can think of off the top of my head:
Name: markdownlint
Name: Nextflow
Name: Prettier - Code formatter
Name: YAML
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.
In order to use this extension pack with the open-source version of VSCode, it must be published in https://open-vsx.org/
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:
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.
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.
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)
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