Prevent conda defaults channel usage in CI/CD workflows#11
Closed
Prevent conda defaults channel usage in CI/CD workflows#11
Conversation
Co-authored-by: rvosa <106490+rvosa@users.noreply.github.com>
Member
|
@copilot pipelines are failing: defaults is still present |
…tainability Co-authored-by: rvosa <106490+rvosa@users.noreply.github.com>
Copilot
AI
changed the title
[WIP] Prevent usage of defaults channel in conda environment
Prevent conda defaults channel usage in CI/CD workflows
Dec 17, 2025
Copilot stopped work on behalf of
rvosa due to an error
December 17, 2025 16:38
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
CI/CD workflows that create conda environments were not explicitly preventing use of the
defaultschannel, which could be implicitly included even when other channels are specified.Changes
remove-defaults: truetosetup-minicondaconfigurationconda-forge,bioconda) in environment variable--conda_channelsand--conda_ensure_channelsflags to planemo test commandadd-anaconda-token: falseto prevent inadvertent defaults accessOnly
planemo-test.ymlwas affected. Other workflows don't use conda.Original prompt
✨ Let Copilot coding agent set things up for you — coding agent works faster and does higher quality work when set up for your repo.