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Fusion v2.5.4

How to pin this version​

fusion {
  enabled = true
  containerConfigUrl = 'https://fusionfs.seqera.io/releases/v2.5.4-amd64.json'
}
info

For ARM64 CPU architecture, use containerConfigUrl = 'https://fusionfs.seqera.io/releases/v2.5.4-arm64.json'.

Feature updates and improvements​

Snapshots​

  • Added incremental dumps.
  • Updated fusion snapshots to 1.6.0

Configuration​

  • Added support for checksum algorithm.
  • Added ability to disable OTEL machinery if tracing not enabled.
  • Added fallback to use AZ_BATCH_TASK_WORKING_DIR as FUSION_CACHE_LOCATION.

Dependencies​

  • Bumped github.com/docker/docker from 28.2.2+incompatible to 28.3.3+incompatible
  • Bumped hoverkraft-tech/compose-action from 2.3.0 to 2.4.0
  • Bumped google.golang.org/grpc from 1.75.0 to 1.75.1
  • Bumped actions/download-artifact from 4.3.0 to 5.0.0
  • Bumped insightsengineering/coverage-action from 2.7.2 to 3.0.1

Nextflow 25.09.0-edge

Feature updates and improvements​

Language features​

  • Added support for comma-separated file paths in ProcessEntryHandler by @pditommaso in #6434
  • Added unit test for invalid workflow entry name error handling by @pditommaso in #6409

Plugins​

  • Added step to claim plugin in Gradle plugin migration docs by @christopher-hakkaart in #6450
  • Generated plugin spec by @bentsherman in #6361

General​

  • Added listDirectory traversal API to RepositoryProvider abstraction by @pditommaso in #6430
  • Added support for Java 25 by @pditommaso in #6419
  • Updated Gradle build system to version 9.1.0 by @pditommaso in #6418

Dependencies​

  • Bumped Google Cloud libraries to latest versions by @pditommaso in #6438
  • Bumped nextflow-gradle-plugin version 1.0.0-beta.10 by @pditommaso in 812ed7f
  • Bumped nf-amazon@3.3.0 by @pditommaso in 3561c26
  • Bumped nf-azure@1.20.1 by @pditommaso in fae3c2d
  • Bumped nf-codecommit@0.5.0 by @pditommaso in 91514a6
  • Bumped nf-google@1.23.1 by @pditommaso in 153745a
  • Bumped nf-k8s@1.2.1 by @pditommaso in c4f4eca
  • Bumped nf-tower@1.16.0 by @pditommaso in ef91104
  • Bumped nf-wave@1.16.0 by @pditommaso in be01d3f

Bug fixes​

AWS Batch​

  • Fixed SIGTERM forwarding in AWS Batch jobs by @jorgee in #6414

S3​

  • Limited S3 concurrent downloads to fix Java Heap OOM by @jorgee in #6402

Kubernetes​

  • Fixed pod log warning with Fusion enabled by @jorgee in #6449
  • Got exit code from pod to manage OOM in k8s by @jorgee in #6442

Google Cloud​

  • Fixed CVE-2025-55163 in nf-google plugin by @pditommaso in 7d70617

Configuration​

  • Fixed default fields in trace config by @bentsherman in #6403

General​

  • Fixed cache command to check session cloudCachePath by @pditommaso in a88e2cd
  • Fixed cache command to use SysEnv for cloudcache path check by @pditommaso in #6432
  • Fixed cookie policy for Seqera Platform JWT token refresh by @pditommaso in #6411
  • Fixed "Strings must not be null" error message by @bentsherman in #6404
  • Fixed unstage controls in command.run when using storeDir by @jorgee in #6364

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

Seqera Cloud v25.3.0_cycle27

Feature updates and improvements​

Datasets​

  • Enhanced dataset management with an updated details page.
  • Added the ability to hide/show datasets and disable specific dataset versions for better dataset lifecycle management.
  • Added support for dataset labels to improve organization and categorization of datasets within workspaces.

Workflows​

  • Added the ability to filter pipeline runs by dataset ID using the datasetId: search keyword, improving traceability between datasets and workflows.

Bug fixes​

Pipelines​

  • Fixed an issue where errors for deleted or invalid pipeline revisions appeared on the wrong field, making them difficult to identify and resolve.

Seqera Enterprise v25.2.3

Feature updates and improvements​

Studios​

  • Added three new configuration parameters for customizing Docker image naming conventions in Studios Wave integration.
  • Added eStarGZ support for Studios with conda packages.

Workflows​

  • Introduced multiple improvements to the Usage Overview to simplify compute usage tracking.
  • Added automatic memory tracking for billing to automatically capture actual memory usage for tasks without explicit memory limits, ensuring accurate consumption tracking.
  • The progress response now includes retries and ignored status task counts when a workflow is finalized.

Pipelines​

  • Improved loading time for pipeline details (up to 700ms improvement) for repositories like nf-core/rnaseq. This resolves timeout issues when launching pipelines.

Bug fixes​

Pipelines​

  • Fixed a missing newline in the includeCustomUserConfig method and resolved an issue where where custom config includeConfig statements were improperly concatenated, causing syntax errors when parsed.

Seqera Cloud v25.3.0_cycle25

Feature updates and improvements​

Compute environments​

  • Added FSx Lustre support for Amazon Linux 2023 AMIs with automatic fallback from the Amazon Linux 2 installation method.

API​

  • Added an optional maxLength query parameter to workflow log endpoints (GET /{workflowId}/log and GET /{workflowId}/log/{taskId}) for improved log management.
  • Added the managed identity and managed credentials endpoint to Seqera Platform API documentation.

Datasets​

  • Added user tracking fields to datasets and dataset versions. Datasets now include a lastUpdatedBy field to track the user who last modified the dataset, while dataset versions include a createdBy field to track the user who created each version.

Permissions and roles​

  • Removed the role check to show organization member mail, so organization owners can now view member and collaborator emails.

UI/UX​

  • Improved the visual consistency and user experience across workflow run interfaces. Updates include improved table borders, enhanced tooltip information, and refined pagination layouts in the containers view.

General​

  • Improved warning messages in Seqera Platform when cancelling workflows or stopping Studios due to insufficient credits.

Wave v1.25.1

Feature updates and improvements​

Dependencies​

  • Bumped BuildKit to version 0.23.2 in tests @munishchouhan in #894
  • Bumped MN to version 4.9.3 by @pditommaso in 03b98e8
  • Bumped BuildKit to version 0.23.2 by @pditommaso in f31316d
  • Bumped corretto-25-al2023-mimalloc as base image by @pditommaso in 46a6e2a

General​

  • Removed unused env from jib task definition by @pditommaso in 3471824
  • Replaced deprecated AppArmor annotation with securityContext field by @pditommaso in #896
  • Removed app encoded values for Seqera environment @munishchouhan in #893

Full changelog: https://github.com/seqeralabs/wave/compare/v1.25.0...v1.25.1

Nextflow 25.08.0-edge

Feature updates and improvements​

Language features​

  • Added Value type for dataflow values (value channels) by @bentsherman in #6372
  • Added Type annotations by @bentsherman in #6278
  • Implemented Process Execution with Command-Line Parameter Mapping [experimental] by @pditommaso in #6381
  • Workflow params by @bentsherman in #5929
  • Warned when file() matches a collection of files by @bentsherman in #5507

Plugins​

  • Added descriptions to plugin MANIFEST.MF files by @pditommaso in #6348
  • Added test for prefetchMetadata call in pullPlugins method by @pditommaso in #6396
  • Simplified plugin download implementation by @pditommaso in #6349
  • Updated core plugins to use Nextflow Gradle plugin by @bentsherman in #6379

Configuration​

  • Improved secret loading documentation and renamed ConfigNullProvider to EmptySecretProvider by @bentsherman in 9e4c975

General​

  • Added Claude Code GitHub Action integration by @pditommaso in #6389
  • Added null checks in TowerClient onFlowComplete method by @robsyme in #6384
  • Added plugins redirects by @christopher-hakkaart in #6385
  • Minor TowerClient improvement by @pditommaso in #6387
  • New executor for Fujitsu Technical Computing Suite (TCS) by @exthnet in #5928
  • Preserved method parameter names in nf-lang JAR by @bentsherman in #6355
  • Refactored Wave and Tower client to use lib-httpx library by @pditommaso in #6354
  • Replaced custom JWT refresh logic with standardized HxClient by @pditommaso in #6398
  • Replaced custom retry strategy with HxClient in RepositoryProvider by @pditommaso in #6351
  • Supported standard environment variables for ANSI terminal output by @ewels in #6362

Dependencies​

  • Bumped netty deps to version 4.1.124.Final by @pditommaso in 9e8d596

Bug fixes​

Language features​

  • Fixed GString equality checks with String by @bentsherman in #6330
  • Fixed groupTuple operator to handle GString vs String keys consistently by @pditommaso in #6400
  • Fixed null reference error in workflow output by @bentsherman in #6374

Configuration​

  • Fixed CLI param override in strict config parser by @bentsherman in #6377
  • Fixed false warning for map config options by @bentsherman in #6359
  • Fixed typo in task config eval by @bentsherman in #6392

General​

  • Fixed GitHub Actions commit message parsing to use only first line by @pditommaso in 5bc9162
  • Fixed NPE when contributors omit contribution field in manifest by @robsyme in #6383
  • Fixed Platform refresh token handling by @pditommaso in ba78ef7
  • Fixed duplicate page and redirects in docs by @christopher-hakkaart in #6386
  • Fixed incorrect spelling in docs by @christopher-hakkaart in #6336

Full changelog: https://github.com/nextflow-io/nextflow/releases/tag/v25.08.0-edge