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@github-actions github-actions released this 22 Oct 16:30
· 47 commits to master since this release
v25.10.0
2db01e6
This commit was signed with the committer’s verified signature.
pditommaso Paolo Di Tommaso
GPG key ID: E6935EB42EE2957A
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Learn about vigilant mode.
  • Add publish-artifacts step to release process [75d8ebf]
  • Add type checking utils (#6482) [3e9a2c0]
  • Fix no secrets in AWS Batch jobs (#6499) [c76c325]
  • Prioritize Google Batch API exit codes with fallback to .exitcode file (#6498) [6ac2efc]
  • Show workspace roles in 'auth status', tweak error message on 403 (#6497) [0633d90]
  • Simplify S3 configuration options (#6496) [0b7f180]
  • Track remote input files in lineage (#6490) [b0660ca]
  • Bump nf-amazon@3.4.1 [0d5ced9]
  • Bump nf-google@1.23.3 [e6c7652]
  • Bump nf-tower@1.17.1 [2069c97]

25.09.2-edge - 21 Oct 2025

  • Add .command.log redirection in K8s container command (#6455) [e6eed79]
  • Add nextflow auth command for Seqera Platform authentication (#6463) [bedf02a]
  • Add nextflow launch command (#6491) [7c8fa3d]
  • Bring workflow outputs out of preview (#6487) [c41677b]
  • Fix e2e test infrastructure and add config.schema compatibility aliases (#6495) [d3cee2b]
  • Fix false error for executor.jobName config option (#6375) [81ae62b]
  • Fix false error with storeDir and val outputs (#6408) [1aa8c44]
  • Fix type casting in PluginSpec for ConfigScope (#6469) [b00644c]
  • Improve plugin create confirmation prompt (#6473) [215925c]
  • Improve release script validation [3e3a938]
  • Limit S3 client connections when using virtual threads (#6369) [295c60b]
  • Migrate SraExplorer to use HxClient for HTTP operations (#6467) [84e3e78]
  • Rename config.schema package to config.spec (#6485) [ef0d2d6]
  • Typed processes (#6368) [30f3c3c]
  • Update buildInfo on releaseInfo [46a8a2b]

25.09.1-edge - 9 Oct 2025

  • Improve build metadata generation and validation [6022537]
  • Fix Missing static type definition [67a5320]
  • Add rnaseq-nf tutorial (#6440) [a830125]

25.09.0-edge - 8 Oct 2025

  • Add listDirectory traversal API to RepositoryProvider abstraction (#6430) [1449fdf]
  • Add step to claim plugin in Gradle plugin migration docs (#6450) [3b70900]
  • Add support for comma-separated file paths in ProcessEntryHandler (#6434) [fe62764]
  • Add support for Java 25 (#6419) [dc8d474]
  • Add unit test for invalid workflow entry name error handling (#6409) [249eb1a]
  • Fix cache command to check session cloudCachePath [a88e2cd]
  • Fix cache command to use SysEnv for cloudcache path check (#6432) [771b8b6]
  • Fix cookie policy for Seqera Platform JWT token refresh (#6411) [c3959cf]
  • Fix CVE-2025-55163 in nf-google plugin [7d70617]
  • Fix default fields in trace config (#6403) [3eddfad]
  • Fix pod log warning with Fusion enabled (#6449) [8c78b31]
  • Fix SIGTERM forwarding in AWS Batch jobs (#6414) [abbef79]
  • Fix "Strings must not be null" error message (#6404) [24314b1]
  • Fix unstage controls in command.run when using storeDir (#6364) [a5756da]
  • Generate plugin spec (#6361) [ed6bb60]
  • Get exit code from pod to manage OOM in k8s (#6442) [f258a75]
  • Limit S3 concurrent downloads to fix Java Heap OOM (#6402) [fd71d0e]
  • Update Gradle build system to version 9.1.0 (#6418) [e2bb2f0]
  • Bump Google Cloud libraries to latest versions (#6438) [59a63f1]
  • Bump nextflow-gradle-plugin version 1.0.0-beta.10 [812ed7f]
  • Bump nf-amazon@3.3.0 [3561c26]
  • Bump nf-azure@1.20.1 [fae3c2d]
  • Bump nf-codecommit@0.5.0 [91514a6]
  • Bump nf-google@1.23.1 [153745a]
  • Bump nf-k8s@1.2.1 [c4f4eca]
  • Bump nf-tower@1.16.0 [ef91104]
  • Bump nf-wave@1.16.0 [be01d3f]

25.08.0-edge - 14 Sep 2025

  • Add Claude Code GitHub Action integration (#6389) [1073a1d]
  • Add Value type for dataflow values (value channels) (#6372) [8de2339]
  • Add descriptions to plugin MANIFEST.MF files (#6348) [d558ee3]
  • Add null checks in TowerClient onFlowComplete method (#6384) [de968f0]
  • Add plugins redirects (#6385) [3fb8a58]
  • Add test for prefetchMetadata call in pullPlugins method (#6396) [a5c19b8]
  • Add Type annotations (#6278) [0008707]
  • Fix CLI param override in strict config parser (#6377) [e146b41]
  • Fix GString equality checks with String (#6330) [01e1888]
  • Fix GitHub Actions commit message parsing to use only first line [5bc9162]
  • Fix NPE when contributors omit contribution field in manifest (#6383) [dd2154c]
  • Fix Platorm refresh token handling [ba78ef7]
  • Fix duplicate page and redirects in docs (#6386) [efba138]
  • Fix false warning for map config options (#6359) [872d124]
  • Fix groupTuple operator to handle GString vs String keys consistently (#6400) [206cc01]
  • Fix incorrect spelling in docs (#6336) [00150f2]
  • Fix null reference error in workflow output (#6374) [d1f43c5]
  • Fix typo in task config eval (#6392) [e60978f]
  • Implement Process Execution with Command-Line Parameter Mapping (#6381) [experimental] [6d5a0bd]
  • Improve secret loading documentation and rename ConfigNullProvider to EmptySecretProvider [9e4c975]
  • Minor TowerClient improment (#6387) [d743667]
  • New executor for Fujitsu Technical Computing Suite (TCS) (#5928) [dd87b2f]
  • Preserve method parameter names in nf-lang JAR (#6355) [83160d6]
  • Refactor Wave and Tower client to use lib-httpx library (#6354) [148a8a1]
  • Replace custom JWT refresh logic with standardized HxClient (#6398) [c68c1e9]
  • Replace custom retry strategy with HxClient in RepositoryProvider (#6351) [af8ba8c]
  • Simplify plugin download implementation (#6349) [a3db0f8]
  • Support standard environment variables for ANSI terminal output (#6362) [ede1344]
  • Update core plugins to use Nextflow Gradle plugin (#6379) [a7e4ea8]
  • Warn when file() matches a collection of files (#5507) [726bf48]
  • Workflow params (#5929) [876d805]
  • Bump netty deps to version 4.1.124.Final [9e8d596]

25.07.0-edge - 15 Aug 2025

  • Add -template option to plugin create command and improve class name normalization (#6334) [c2c879d]
  • Add read permissions to nextflow launcher (#6288) [3614aea]
  • Add support for Bitbucket API tokens instead of access tokens (#6337) [1d73b87]
  • Add token support for BitBucket, Gitea and Gitlab repository providers (#6212) [9d8943e]
  • Add version, kind, and spec to lineage schema (#6075) [6328613]
  • Add warning for Azure Batch lowPriority pools (#6261) [a32fd50]
  • Add Workflow onComplete and onError sections (#6275) [4fd97b9]
  • Add custom date time format support with configurable NXF_DATE_FORMAT (#6013) [163cd37]
  • BREAKING: Improve eval output hash with semantic names instead of raw commands (#6346) [d86be1a]
  • Fix Fail if splitFastq receives incomplete record (#6268) [0869a34]
  • Fix AWS transfer manager anonymous fallback (#6296) [ed5c99e]
  • Fix Azure Batch startTask concatenation issue (#6300) (#6305) [81d5c0d]
  • Fix AzureRepositoryProvider readBytes operation (#6286) [f6eb2f7]
  • Fix CSV writer with empty list (#6333) [46ae10d]
  • Fix ExecutorRetryConfig null pointer exception [ae66102]
  • Fix Job arrays exceeding queue size limit (#5920) (#6345) [66abf24]
  • Fix NPE in GoogleBatchMachineTypeSelector when spotPrice is null [a797a79]
  • Fix Reset terminal color after lint success/failure message (#6323) [17b05ba]
  • Fix bug in DefaultObserverFactory (#6259) [bec4bf7]
  • Fix bug with workflow output index file (#6328) [fa97230]
  • Fix bugs with workflow output and lineage (#6254) [21a6470]
  • Fix explicit it closure parameter (#6276) [99f9edf]
  • Fix formatting of channel factories (#6282) [f73f87b]
  • Fix new plugins registry download when OCI repositories require tokens (#6303) [12fbef3]
  • Fix silent failure when downloading a directory with AWS SDK v2 (#6266) [2d76d8f]
  • Fix submitted count when aborting submitted tasks (#6281) [d0d3e10]
  • Fix typos (#6291) [18c278b]
  • Fix error_action typo (#6283) [cc5a9c9]
  • Fix GitlabRepositoryProvider now handles leading slashes for content URLs (#6284) [b7fa6f4]
  • Fix Invoke workflow complete handler on all workflow errors (#4299) [9d24615]
  • Fix Improve Fusion license error message (#6313) [c3f397e]
  • Migration guide for workflow outputs (#6162) [9a4f79d]
  • Move AST transforms to nf-lang (#6247) [824dabb]
  • Register fully-qualified process names at compile-time (#6312) [9a70cdb]
  • Remove warning on missing config [14be407]
  • Rephrase nf-core extension pack description (#6273) [1446e54]
  • Unify nf-lang config scopes with runtime classes (#6271) [bfa67ca]
  • Update AWS Java SDK v2 guide #6269 [4a61e28]
  • Update Azure and AWS deps (#6343) [ff00e2d]
  • Update Gitea provider to gitea.com as default server (#6285) [cbfa232]
  • Update changelog [e2e prod] [b48c069]
  • Update nf-codecommit to AWS SDK v2 with corrected test (#6293) [1557a91]
  • Update standard types docs (#6329) [a76b760]
  • Update to plugin registry V1 (#6316) [9b1d1b6]
  • Update trace observers to V2 (#6257) [544b8c4]
  • Bump groovy 4.0.28 (#6304) [a468f8e]
  • Bump netty-codec-http2:4.1.124.Final [7e690b4]
  • Bump nextflow registry as default (#6339) [eaf1048]
  • Bump org.apache.commons:commons-lang3 from 3.12.0 to 3.18.0 (#6272) [b8ccddb]
  • Bump nf-wave@1.14.1 [5ee40f0]
  • Bump nf-tower@1.14.0 [fe399de]
  • Bump nf-k8s@1.1.1 [821f699]
  • Bump nf-google@1.22.2 [9a4e579]
  • Bump nf-codecommit@0.3.0 [3ec9e58]
  • Bump nf-azure@1.19.0 [8a7e050]
  • Bump nf-amazon@3.1.0 [2fb0f13]

25.06.0-edge - 6 Jul 2025

  • Add Git response max length check (#6190) [098fe84]
  • Add docker.registryOverride option (#6205) [e26abe4]
  • Add namespaces to nf-lang (#6176) [c839799]
  • Add support for Bitbucket API token (#6209) [f711f24]
  • Fix AWS NIO tests [069653d]
  • Fix JWT token refresh to Fusion validation request (#6231) [95dfdaf]
  • Fix Apptainer and singularity --no-https option (#6216) [66ead2c]
  • Fix class not found exception Google Life science executor (#6193) [7bfb935]
  • Fix false error on nested closure in config process directive (#6203) [481c773]
  • Fix false error when using stdin/stdout in a tuple (#6219) [5d7f12c]
  • Fix false warning in config schema validator (#6240) [4e55cee]
  • Fix http response err message [1f05451]
  • Fix mamba env create stalls at prompt [e7c9379]
  • Fix null reference error in lint command (#6202) [3e1837e]
  • Fix readBytes for non-GitHub providers (#6243) [fa79c12]
  • Fix replace List.getFirst with List.get(0) for compatibility [83428ee]
  • Fix same Conda env is re-created for same module (#6166) [b46f01f]
  • Fix stack overflow error with workflow metadata (#5988) [9d50c49]
  • Fix Maven publish with aws credentials [34d64ab]
  • Implement retry strategy for Git repository provider (#6195) [0f92282]
  • Implement unordered directory hash (#6197) [a0eeed8]
  • Minor Azure Batch disk slot calculation demoted to debug (#6234) [c65955c]
  • Remove deprecated GsonHelper class [700fadd]
  • Remove deprecated nexus-staging plugin [68b449b]
  • Rename IncludeModuleNode to IncludeEntryNode (#6217) [1f456d9]
  • Replace URLConnection with HttpClient (#6188) [d1e6836]
  • Return null result when repository provider has not auth [9d7fd9f]
  • Unwrap Failsafe exception cause in Wave client [0cb39df]
  • Update Google dependencies (#6229) [8bd42ac]
  • Update stalebot (#6228) [27174df]
  • Update Wave retryPolicy default values (#6222) [b8069a5]
  • Upgrade AWS instructions to AL2023 (#6183) [ed40709]
  • Upgrade to AWS Java SDK v2 (#6165) [fc99b44]
  • Upload Google Batch log on task exit (#6226) [78d9f47]
  • Bump Google instance type for testing [bde9ef1]
  • Bump Logback version 1.5.18 [e3d5ced]
  • Bump Slf4j version 2.0.17 [93199e0]
  • Bump gson version 2.13.1 [ab8e36a]
  • Bump nf-wave@1.14.0 [71ecf26]
  • Bump nf-tower@1.13.0 [53d1bfb]
  • Bump nf-google@1.22.1 [cdf56d1]
  • Bump nf-azure@1.18.0 [fc51406]
  • Bump nf-amazon@3.0.0 [ffe699b]

25.05.0-edge - 2 Jun 2025

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