Add cached_explicit_singularity resolver for biocontainers CVMFS cache - #464
Merged
Conversation
Uses galaxyproject/galaxy#22878 to resolve explicit docker://quay.io/biocontainers/ container specs against /cvmfs/singularity.galaxyproject.org/all before falling back to pulling. Applied to all destinations that mount singularity.galaxyproject.org (cyclone, jetstream2, tacc_hpc, bridges2, expanse, anvil, stampede3_nvdimm).
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
2 participants
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Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be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.
Summary
cached_explicit_singularityresolver ([26.1] Add namespace stripping toCachedExplicitSingularityContainerResolvergalaxy#22878) beforeexplicit_singularityin all eligible container resolver configscache_directory: /cvmfs/singularity.galaxyproject.org/all,namespace: biocontainers, andcache_directory_cacher_type: dir_mtimedocker://quay.io/biocontainers/prefix from explicit container specs and looks up flat filenames in the CVMFS cache before falling back to pullingEligible destinations (have singularity.galaxyproject.org accessible)
singularity.galaxyproject.orgmountrepo singularity.galaxyproject.orgsingularity.galaxyproject.orgNot updated
rockfish_devgalaxy— no CVMFS singularity mountfrontera_rtx—singularity_volumes: null, no cached resolvers by design