AWS omics documentation change
Summary
Updated Nextflow plugin support details, clarifying pre-installed plugin versions and restrictions on retrieving additional plugins during runs
Security assessment
The changes relate to workflow plugin compatibility and runtime restrictions, but there is no explicit security context or vulnerability mitigation mentioned. The restriction on retrieving plugins could be a security control, but this is not explicitly stated.
Diff
diff --git a/omics/latest/dev/workflow-languages.md b/omics/latest/dev/workflow-languages.md index 1aba5acff..0698db2a0 100644 --- a//omics/latest/dev/workflow-languages.md +++ b//omics/latest/dev/workflow-languages.md @@ -77,2 +76,0 @@ Nextflow DSL2 is based on the Groovy programming language, so parameters are dyn -HealthOmics suppports the Nextflow `nf-validation` plugin. You cannot retrieve additional plugins during a workflow run. - @@ -81 +79 @@ HealthOmics suppports the Nextflow `nf-validation` plugin. You cannot retrieve a - * You can use the `nf-validation` plugin with Nextflow version v23.10 (but not v22.04). +HealthOmics supports the `nf-schema` and `nf-validation` plugins with Nextflow version v23.10 (but not v22.04). @@ -83 +81,3 @@ HealthOmics suppports the Nextflow `nf-validation` plugin. You cannot retrieve a - * In Nextflow v24.04 and higher, the `nf-validation` plugin is renamed to `nf-schema`. For more information, see [ nf-schema](https://github.com/nextflow-io/nf-schema) in the Nextflow GitHub repository. +The following information relates to using these plugins with Nextflow v23.10 workflows: + + * HealthOmics pre-installs the [email protected] and [email protected] plugins. HealthOmics ignores any other plugin versions that you specify in the `nextflow.config` file. @@ -85 +85,3 @@ HealthOmics suppports the Nextflow `nf-validation` plugin. You cannot retrieve a - * HealthOmics doesn't support the `nf-schema` plugin. For a workflow that uses nf-schema, you need to uninstall the plug-in before you start a HealthOmics run with the workflow. + * You cannot retrieve additional plugins during a workflow run. + + * In Nextflow v24.04 and higher, the `nf-validation` plugin is renamed to `nf-schema`. For more information, see [ nf-schema](https://github.com/nextflow-io/nf-schema) in the Nextflow GitHub repository.