Skip to main content

Changelog

MultiQC v1.27.1

MultiQC

Fixes and improvements in AI summaries:​

  • AI summaries should now work with bioconda install multiqc without additional dependencies
  • Supporting other LLM providers with a custom endpoint passed through the command line (docs)
  • Option to anonymize sample names

Seqera Enterprise v24.2.4

Seqera Enterprise

Bug fixes​

Pipelines​

A change in the nf-core tools template made config profile search in the pipeline launch form inconsistent in Platform as it's prepended by a ternary operator. This release introduces a fix that improves config profile name parsing.

Wave v1.17.0

Wave

Feature updates and improvements​

Full changelog: https://github.com/seqeralabs/wave/compare/v1.16.8...v1.17.0

Fusion v2.5.1

Fusion

Bugfix release to improve stability.

Bug fixes​

  • Fixed logs removed when removeLogs is false.
  • Fixed unique IDs in file fragments.
  • Removed exit code on serveFusion.

How to pin this version​

fusion {
  enabled = true
  containerConfigUrl = 'https://fusionfs.seqera.io/releases/v2.5.1-amd64.json'
}
info

For ARM64 CPU architecture, use containerConfigUrl = 'https://fusionfs.seqera.io/releases/v2.5.1-arm64.json'.

Seqera Cloud v24.3.0_024e9bb

Seqera Cloud

Breaking changes​

  • Restore errorStrategy and maxRetries default Nextflow config for AWS and GCP launches. Platform will not overwrite existing error strategy coded in the pipeline repository.
  • If you want to automatically retry on task failures (e.g., from spot reclamations), you will now need to explicitly set errorStrategy and maxRetries.
  • Automatic spot retries in AWS and GCP now require active enablement. Alternatively Nextflow handles the generic failure at the Nextflow level.

You can revert to the default setting used in Nextflow prior to 24.10 with the following configuration options:

aws.batch.maxSpotAttempts = 5
google.batch.maxSpotAttempts = 5

Set task.maxRetries to a non-zero value to restore Platform to prior behaviour.

How do I retry Spot failures while making them visible?

There is no mechanism in Nextflow to specifically report Spot retries. However you can set process.maxRetries = 5 to retry all failures (including Spot reclamations) a specified number of times before failure.

Feature updates and improvements​

Studios​

  • Added data studio API endpoints to the OpenAPI spec.

Permissions and roles​

  • New organization types added to allow free tier users to monitor their usage and limits.

Workflows​

  • Restore errorStrategy default Nextflow config for AWS and GCP launches. The Nextflow job now correctly terminates after pipeline completion.
  • The system now automatically terminates Azure jobs after all tasks complete.

Compute environments​

  • Updated list of EC2 families with NVMe disks available.

Launchpad​

  • Send only added/updated run parameters when launching a pipeline. This includes all defaults and parameters passed during the launch.

Pipelines​

  • Improved error messaging when pipeline info can't be fetched indicates whether the issue is due to a missing resource, or failed authentication due to expired credentials.

UI/UX​

  • New dynamic page title for easy bookmarking.

General​

  • Upgraded to Angular 17
  • Bumped Nextflow launcher to 24.10.3

Bug fixes​

Pipelines​

  • Allow unsetting schemaName when editing a pipeline.
  • Take into account the alternative mainScript path.

General​

  • Use preferred_username as fallback email field for OIDC login.
  • Drop the last characters in job definition name, if longer than the prescribed limit.
  • Prohibited duplicate Git credentials and added tie-break on lastUpdated for existing duplicates. Going forward, the system gives preference to the credentials updated last when multiple candidates exist. Additionally added a duplicate check when creating new credentials, to avoid new duplicate cases.

Compute environments​

  • Compute environment creation form allows pre- and post-run scripts to be longer than the accepted value of 1024 characters.

Workflows​

  • Disabled reset selection on data change in workflow list component.

Fusion v2.5.0

Fusion

Fusion 2.5.0 significantly enhances performance and efficiency in file operations.

Fusion now handles small files more effectively and intelligently manages Nextflow task files by minimizing intermediate file uploads. A key improvement is the selective retention of only essential task output files upon completion, reducing storage overhead. Network optimization has been implemented to decrease bandwidth usage by consolidating upload operations. Additionally, the underlying architecture has undergone substantial refactoring to support the future integration of diverse remote storage solutions, setting the foundation for expanded storage capabilities.

Feature updates and improvements​

  • Chunked async content management.
  • Nextflow-compatible pattern classifier.
  • Defined a default exit code on Fusion-IO errors.
  • Object API refactoring.
  • Bumped golang.org/x/crypto to 0.31.0.
  • Bumped golang.org/x/net to 0.33.0.

Bug fixes​

  • Fixed AsyncStore move issues.
  • Fixed log file deletion during spot instance reclamation.
  • Fixed transient object persistence.

How to pin this version​

fusion {
  enabled = true
  containerConfigUrl = 'https://fusionfs.seqera.io/releases/v2.5.0-amd64.json'
}
info

For ARM64 CPU architecture, use containerConfigUrl = 'https://fusionfs.seqera.io/releases/v2.5.0-arm64.json'.