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Nextflow 25.09.0-edge

Nextflow

Feature updates and improvements​

  • Add listDirectory traversal API to RepositoryProvider abstraction by @pditommaso in #6430
  • Add step to claim plugin in Gradle plugin migration docs by @christopher-hakkaart in #6450
  • Add support for comma-separated file paths in ProcessEntryHandler by @pditommaso in #6434
  • Add support for Java 25 by @pditommaso in #6419
  • Add unit test for invalid workflow entry name error handling by @pditommaso in #6409
  • Generate plugin spec by @bentsherman in #6361
  • Update Gradle build system to version 9.1.0 by @pditommaso in #6418
  • Bump Google Cloud libraries to latest versions by @pditommaso in #6438
  • Bump nextflow-gradle-plugin version 1.0.0-beta.10 by @pditommaso in 812ed7f
  • Bump nf-amazon@3.3.0 by @pditommaso in 3561c26
  • Bump nf-azure@1.20.1 by @pditommaso in fae3c2d
  • Bump nf-codecommit@0.5.0 by @pditommaso in 91514a6
  • Bump nf-google@1.23.1 by @pditommaso in 153745a
  • Bump nf-k8s@1.2.1 by @pditommaso in c4f4eca
  • Bump nf-tower@1.16.0 by @pditommaso in ef91104
  • Bump nf-wave@1.16.0 by @pditommaso in be01d3f

Bug fixes​

  • Fix cache command to check session cloudCachePath by @pditommaso in a88e2cd
  • Fix cache command to use SysEnv for cloudcache path check by @pditommaso in #6432
  • Fix cookie policy for Seqera Platform JWT token refresh by @pditommaso in #6411
  • Fix CVE-2025-55163 in nf-google plugin by @pditommaso in 7d70617
  • Fix default fields in trace config by @bentsherman in #6403
  • Fix pod log warning with Fusion enabled by @jorgee in #6449
  • Fix SIGTERM forwarding in AWS Batch jobs by @jorgee in #6414
  • Fix "Strings must not be null" error message by @bentsherman in #6404
  • Fix unstage controls in command.run when using storeDir by @jorgee in #6364
  • Limit S3 concurrent downloads to fix Java Heap OOM by @jorgee in #6402
  • Get exit code from pod to manage OOM in k8s by @jorgee in #6442

Full changelog: https://github.com/nextflow-io/nextflow/releases/tag/v25.09.0-edge