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Seqera Enterprise v25.3.4

Feature updates and improvements​

Compute environments​

  • Added support for ${username} dynamic notation in resource labels.

Studios​

  • Added configurable SSH timeout parameters for Studios connections.

Pipelines​

  • Improved workflow status transitions so that workflows in an unknown state correctly transition to running when a begin trace is received.
  • Updated schema radio control labels for clarity.

Bug fixes​

Compute environments​

  • Fixed an issue where resourceLabelIds was incorrectly tracked as a versionable compute environment control.

Pipelines​

  • Fixed job scheduler transaction rollback handling to prevent data inconsistency when an exception occurs while saving job status.
  • Fixed implicit default version resolution for pipelines.

Platform API​

  • Fixed Task.getExit() return type alignment to Integer in the API.

Monitoring and observability​

  • Fixed cookie banner visibility logic for enterprise deployments to correctly hide the banner when no non-essential cookies are configured.

Upgrade notes​

No breaking changes. Standard upgrade procedure applies.

Nextflow 26.02.0-edge

Feature updates and improvements​

Language features​

  • Allowed boolean params to implicitly default to false by @bentsherman in #6764

Azure Batch​

  • Handled Azure Batch ActiveJobAndScheduleQuotaReached with retry by @adamrtalbot in #6874
  • Updated default Azure Batch VM image to Ubuntu 24.04 by @adamrtalbot in #6844

Google Batch​

  • Reported actual GCP zone in Google Batch trace records by @pditommaso in #6855

LSF​

  • Treated LSF job status UNKWN as HOLD by @bentsherman in #5756
  • Used explicit memory units for LSF executor by @bentsherman in #5217

General​

  • Added agent output mode (NXF_AGENT_MODE) by @edmundmiller in eae9f7d
  • Ensured main script is first in the WorkflowRun lineage record by @jorgee in #6845
  • Implemented sched core (alpha1) by @pditommaso in #6242

Bug fixes​

S3​

  • Fixed S3 delete throwing DirectoryNotEmptyException due to eventual consistency by @pditommaso in #6833
  • Fixed S3 lookup unbounded pagination with double call by @jorgee in #6851

General​

  • Fixed AgentLogObserver println clash with Groovy GDK method by @pditommaso in c6314d7
  • Fixed AnsiLogObserver sticky messages duplicated when lines wrap by @pditommaso in #6852
  • Fixed missing space before revision in launch info by @pditommaso in #6834
  • Fixed ResourcesAggregator deadlock with virtual thread executor by @pditommaso in #6840
  • Fixed vertical alignment in timeline report by @PeterKneale in #6794

Full changelog: https://github.com/nextflow-io/nextflow/releases/tag/v26.02.0-edge

Seqera Cloud v26.1.0_cycle43

Feature updates and improvements​

Compute environments​

  • Added External ID support for IAM Role assumption.

Studios​

  • Added default privacy setting to the Studio workspace settings form.
  • Implemented private Studio by default setting.
  • Added dedicated service for handling Studio data-link mappings.

Pipelines​

  • Improved optimization profile modal workflow run select responsiveness.

Bug fixes​

Studios​

  • Fixed Studio quota limit check for Studios building created with autostart.

Seqera Cloud v26.1.0_cycle42

Feature updates and improvements​

Pipelines​

  • Showed wall time for running workflows with periodic updates.

Access control​

  • Added visibility toggle button to secrets in Secrets table.
  • Added secrets list filtering by type.
  • Added ability to hide secret inline in Manage Secrets table.

Compute environments​

  • Added warning when Azure Batch default VM image was upgraded from Ubuntu 20.04 to 24.04.
  • Updated default Azure Batch VM image from Ubuntu 20.04 to 24.04.

General​

  • Added pipeline version tracking to Runs table.

Nextflow 26.01.1-edge

Feature updates and improvements​

General​

  • Added OSC 8 hyperlinks to task hashes in progress output by @bentsherman in #6799
  • Improved documentation of workflow outputs by @bentsherman in #6822

Dependencies​

  • Bumped ch.qos.logback@1.5.26 to fix false version mismatch warning in shadow JAR by @pditommaso in 0b97f4a
  • Bumped ch.qos.logback@1.5.25 (CVE-2026-1225) by @pditommaso in 97dec3a
  • Bumped com.gradleup.shadow@9.3.1 (CVE-2025-68161) by @pditommaso in d31e6ed

Bug fixes​

Language features​

  • Fixed listDirectory() to follow symbolic links by @bentsherman in #6821

General​

  • Fixed JGit resources not being closed in CLI commands by @pditommaso in #6795

Full changelog: https://github.com/nextflow-io/nextflow/releases/tag/v26.01.1-edge

Seqera Enterprise v25.3.3

Feature updates and improvements​

Studios​

  • (Public preview) Added SSH connectivity to Studios which enables direct connection to running Studio sessions using standard SSH clients, supporting VS Code Remote SSH and terminal access. See Studios SSH configuration for more information.

Pipelines​

  • Added custom schema support to pipeline versions.
  • Added edit launch pipeline.
  • Enabled custom schema retrieval for pipeline versions.

See Pipeline versioning for more information.

Access Control​

  • Removed participants on workspace deletion.
  • Improved error message when deleting custom roles.
  • Added pagination to roles list page.
  • Added the ability to view an effective permissions summary for any user/workspace combination in the UI or via API.
  • Added the ability to reset a custom role's permissions to match any predefined role (Admin, Maintain, Launch, Connect, View).

Custom roles quota enforcement​

The maxCustomRolesPerOrg quota is now enforced on custom role creation. Organizations at or near their quota limit will be unable to create additional custom roles. Review your organization's custom role usage if you need to create additional roles. Contact support to adjust your quotas if needed.

General​

  • Restored custom navigation menu support in user dropdown.
  • Updated styles for container responsiveness and padding adjustments and footer.
  • Added only current page in task pagination.
  • Added storage for SSH public keys for use in Studios.

Bug fixes​

  • Cleared parameters when changing between pipeline with and without parameters.
  • Fixed correctly updated versions list when version is published.
  • Prevented re-assignations of pipeline.launch when working with versions.
  • Updated schema when schemaName field value changes.
  • Prevented adding empty parameters when reseting parameters form with defaults after config profile change.

Upgrade steps​

This release maintains backward compatibility with version 25.2.x.

note
  • Make a backup of your Platform database prior to upgrade.
  • If you are upgrading from a version prior to 25.1, complete all intermediate major version upgrades before upgrading to 25.3.
  • Ensure that no pipelines or Studio sessions are in a running state during this upgrade as active run data and analysis may be lost.

See Upgrade deployment for installation guidance.

Nextflow 25.10.4

Feature updates and improvements​

Language features​

  • Removed unnecessary runtime checks with strict syntax by @bentsherman in #6539

AWS Batch​

  • Added isCompleted check in getNumSpotInterruptions by @munishchouhan in #6806

Dependencies​

  • Bumped nf-amazon@3.4.4 by @pditommaso
  • Bumped nf-google@1.23.5 by @pditommaso
  • Bumped nf-tower@1.17.5 by @pditommaso

Bug fixes​

Language features​

  • Fixed false error with optional param by @bentsherman in #6811
  • Fixed false error with multi-line tuple assignment in v2 parser by @bentsherman in #6786
  • Fixed false error in v2 parser when including config file from http url by @bentsherman in #6753

General​

  • Fixed LogsCheckpoint thread blocking shutdown for up to 90 seconds by @pditommaso in #6787

Full changelog: https://github.com/nextflow-io/nextflow/releases/tag/v25.10.4