Remove vendored nf-core utils subworkflows, use plugin imports#241
Open
maxulysse wants to merge 8 commits into
Open
Remove vendored nf-core utils subworkflows, use plugin imports#241maxulysse wants to merge 8 commits into
maxulysse wants to merge 8 commits into
Conversation
|
Replace three subworkflows/nf-core/utils_* subworkflows with direct imports from plugin/nf-core-utils and plugin/nf-schema, matching the pattern used by rnavar and createpanelrefs pipelines. - utils_nextflow_pipeline: version display, params dump, conda check - utils_nfcore_pipeline: config validation, email, versions YAML - utils_nfschema_plugin: parameter validation, help display All functionality preserved in the local utils subworkflow using plugin functions directly.
maxulysse
force-pushed
the
remove-nfcore-utils-subworkflows
branch
from
475e16c to
74fb6af
Compare
maxulysse
force-pushed
the
remove-nfcore-utils-subworkflows
branch
from
72dff97 to
39e1c25
Compare
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
1 participant
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Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be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.
Replace three subworkflows/nf-core/utils_* subworkflows with direct imports from plugin/nf-core-utils and plugin/nf-schema, matching the pattern used by rnavar and createpanelrefs pipelines.
Removed:
subworkflows/nf-core/utils_nextflow_pipeline/— version display, params dump, conda checksubworkflows/nf-core/utils_nfcore_pipeline/— config validation, email, versions YAMLsubworkflows/nf-core/utils_nfschema_plugin/— parameter validation, help displayChanges:
subworkflows/local/utils_nfcore_seqinspector_pipeline/main.nf— imports now come from plugins, all function calls inlinedworkflows/seqinspector.nf—paramsSummaryMultiqcimport changed to pluginmodules.json— removed references to deleted subworkflowsAll functionality preserved. No loss of features.