Version 24.12.0-edge

• Add Warning when Cloudinfo fails in Google Batch machine type selection (#5649) [5aef532]
• Add rate limiter to wave requests (#5608) [ecf6829]
• Allow named parameters with plugin subcommand (#5643) [f81da8c]
• Customise mermaid diagram theme in DAG template (#5553) [54713a1]
• Deprecate -with-weblog CLI opt [aa258b4]
• Disable AWS SDK v1 warning [cd00a26]
• Dump threads only with trace log level [87df7cd]
• Ensure job is killed when exception in task status check (#5561) [9eefd20]
• Fix CLI params normalization (#5661) [e2e prod] [b5d43ad]
• Fix Execution may hang reading trace file (#5683) [17d7a08]
• Fix Google Batch hang when internal error during scheduling (#5567) [18f7de1]
• Fix GroovyCompiler source and target compability [6dd92e3]
• Fix Only close the cache db if it is not null (#5631) [9386082]
• Fix Azure repos when clone URL is used (#5667) [dc6cc41]
• Fix shell directive with trace command in wrapper script (#4292) [8342889]
• Fixing getRepositoryUrl when project name is not provided (#5560) [335701e]
• Handle attribute caching with Lustre filesystem (#5650) [61674d2]
• Improve Fargate + Wave docs (#5562) [12be47e]
• Improve inspect mode (#5605) [8e2056e]
• Include all processes in inspect command (#5580) [0aa76af]
• Prevent the use existing work dir (#5682) [e14fc99]
• Remove 'defaults' conda channel from docs (#5607) [8b54181]
• Update Google Batch docs to clarify spot retry behaviour (#5644) [1878836]
• Update flux job id regular expression (#5662) [58a0b34]
• Use printf instead of echo to write trace file (#5397) [c6434d4]
• Bump groovy 4.0.24 missing deps [40670f7]
• Bump jgit to version 7.1.0 (#5587) [3d71468]
• Bump logback 1.5.13 + slf4j 2.0.16 [cc0163a]
• Bump logback 1.5.16 [5ac91f0]
• Bump [email protected] [182ddd4]
• Bump [email protected] [4d949d1]
• Bump [email protected] [741d0f3]
• Bump [email protected] [958820f]
• Bump [email protected] [fdc32c7]
• Bump [email protected] [c173c53]
• Bump [email protected] [b747dcf]
• Bump [email protected] [2650f07]

Version 24.10.4

• Fix CLI params normalization (#5661) [42a9d8a]
• Fix azure repos when clone URL is used (#5667) [eb092c9]
• Fix Prevent the use existing work dir (#5682) [7ed233e]

Version 24.10.3

• Fix Google Batch hang when internal error during scheduling (#5567) [79374c5]
• Fixing getRepositoryUrl when project name is not provided (#5560) [9910cec]
• Bump [email protected] [e80ded3]

Version 24.11.0-edge

• Add GHA to submit dependencies to dependabot (#5440) [80395a6]
• Add NotFoundException to retry condition for Google Batch [aa4d19c]
• Add Rahel Hirsch to run name generator (#5442) [ff2bc6a]
• Add env() function (#5506) [fa0e8e0]
• Add more scientists to run name generator (#5447) [38d9eda]
• Add singularity.libraryDir to config page (#5498) [b5e31bb]
• Add RepositoryProvider.revision now public property (#5500) [f0a4c52]
• Deprecate process shell block (#5508) [6f52755]
• Detecting errors in data unstaging (#5345) [3c8e602]
• Disable virtual threads on CI tests [ci slip] [69d07db]
• Fix Fargate warning on memory check (#5475) [bdf0ad0]
• Fix isContainerReady when wave is disabled (#5509) [3215afa]
• Fix missing wave response (#5547) [ee25217]
• Fix overlapping conda lock file (#5540) [9248c04]
• Fix overlapping conda lock exception (#5489) [eaaeb3d]
• Fix possible deadlock in dynamic maxRetry resolution (#5474) [25bbb62]
• Fix Wave GCP integration test (#5490) [ad56c89]
• Fixing bug when execution with stub and no stub defined (#5473) [f7fd56d]
• Fix Incorrect CPU value in Azure example (#5549) [fc5e2c2]
• Improve docs for using the GPU accelerator directive (#5488) [4b90852]
• Improve groupTuple docs with scatter/gather example (#5520) [b5c63a9]
• Prevent NPE with null AWS Batch response [12fc1d6]
• Target Java 17 as minimal Java version (#5045) [0140f95]
• Update 'nexus-staging' plugin to latest version (#5462) [0793451]
• Update gradle 'shadow' plugin version to 8.3.5 (#5463) [2a5f15f]
• Update install docs to reflect change from 'all' to 'dist' (#5496) [c911565]
• Update process snippets to comply with strict syntax (#5526) [be1694b]
• Update Wave dependencies [09ccd29]
• Bump aws sdk 1.12.777 (#5458) [8bad0b4]
• Bump bouncycastle to jdk18on:1.78.1 (#5467) [cd8c385]
• Bump com.azure:azure-identity from 1.11.3 to 1.12.2 (#5449) [cb70f1d]
• Bump commons-io:2.15.1 [767e4a0]
• Bump groovy 4.0.24 [dd71ad3]
• Bump netty-common to version 4.1.115.Final [d1bbd3d]
• Bump [email protected] [2b653b0]
• Bump [email protected] [6af7198]
• Bump [email protected] [9494f97]
• Bump [email protected] [7e2c8d8]
• Bump protobuf-java:3.25.5 to nf-google [488b790]

Version 24.10.2

• Prevent NPE with null AWS Batch response [3d49193]
• Fix overlapping conda lock file (#5540) [df66dea]
• Fix missing wave response (#5547) [eb85cda]
• Bump [email protected] [93d0940]
• Bump [email protected] [469a35d]

Version 24.10.1

• Fix overlapping file lock exception (#5489) [a2566d5]
• Fix isContainerReady when wave is disabled (#5509) [c69e371]
• Bump [email protected] [e7709a0]
• Bump [email protected] [54496ac]
• Bump [email protected] [fa22793]
• Bump netty-common to version 4.1.115.Final [90623c1]

Version 24.10.0

• Add manifest.contributors config option (#5322) [cf0f969]
• Add wave mirror and scan config [92e6977]
• Add wave mirror vs module bundles conflicts warning [b37a8a5]
• Add Workflow output definition (second preview) (#5185) [ea12846]
• Demote azure batch task status log level to trace (#5416) [d6c684b]
• Document formal script syntax (#5336) [a48ac58]
• Add Expose trace record meta info in the task context (#5402) [ffdd381]
• Fix NextflowMeta compilation error [500f49c]
• Fix XFileSystem serialization issue (#5411) [711864f]
• Fix closure rendering in yaml and json config (#5408) [d3a85ce]
• Fix failing docs snippet (#5430) [a818f4b]
• Fix http files stream (#5405) [e2e stage] [718dcbe]
• Fix nf-tower plugin to upload logs when early failures (#5434) [4222442]
• Fix support for micromamba (#4302) [1243130]
• Harmonise documentation for hybrid cloud execution (#5362) [a69407d]
• Prevent NPE when containerInfo is null [368a266]
• Remove invalid equals char (#5414) [7f39e6e]
• Bump [email protected] [f67e157]
• Bump [email protected] [7a572a1]
• Bump [email protected] [6524d8d]

Version 24.09.2-edge

• Add Google LS deprecation notice (#5400) [0ee1d9b]
• Add hybrid workflow documentation for Azure (#5361) [f81f27d]
• Add more out formats to config command (#5399) [8acdb6e]
• Change to scan.levels to scan.allowedLevels (#5401) [88a1b1b]
• Fix inspect concretize option [0ee29a8]
• Manage moduleBinaries feature flag in the pipeline script (#5348) [dd5fd20]
• Bump [email protected] [9427396]
• Bump [email protected] [fab01d5]

Version 24.09.1-edge

• Add retry policy in Channel.fromSRA factory (#5389) [fb1c8b2]
• Add retry policy to Google batch describe task (#5356) [64bb5a9]
• Add support for Wave container status API (#5384) [873703a] [9ed18a8]
• Fix Identify default git branch when downloading pipelines (#3593) (#5375) [4f74fc3]
• Fix issue when retrying with stub (#5359) [324b611]
• Fix include aborted in the ProgressRecord total count (#5365) [8eb0c39]
• Redirect logs to stderr during app bootstrap (#5206) [9491810]
• Remove unused reportsOpts (#5379) [e794e86]
• Sunsetting Spack support in Wave [3a54cb3] [7bbba67]
• Bump [email protected] [4204435]
• Bump [email protected] [cdecb3f]

Version 24.09.0-edge

• Add Fusion version pinning info to Fusion config scope (#5294) [be1cac3]
• Add container tip in the task error report (#5299) [62e2604]
• Add support for Java 23 (#5329) [6e10c37]
• Add Platform workflow prefix in AWS Batch job names (#5318) [42dd4ba]
• Fix AWS spot attempts with zero value (#5331) [bac2da1]
• Fix Azure Fusion env misses credentials when no key or SAS provided (#5328) [e11382c]
• Fix CI build taking only the commit msg header [9e702c4]
• Fix Inconsistency with camelCase and kebab-case config params #4702 (solve #4033) [349f4f6]
• Fix XPath default de-serializer issue (#5339) [290f2d0]
• Fix failOnIgnore causes task monitor to stop submitting tasks (#5293) [d687033]
• Fix large mermaid diagrams (#5302) [a46edfa]
• Improve Wave build timeout handling (#5304) [05bef7e]
• Include additional fields to manifest (#5314) [33fab52]
• Remove mini from Flux submit command (#5229) [a0f6902]
• Update container handling with charliecloud (#5300) [8e6068d]
• Update Documentation structure (#4766) [25e5eba]
• Update nextflow install docs (#5198) [7c45381]
• Bump groovy 4.0.23 (#5303) [fe3e3ac]
• Bump [email protected] [179093d]
• Bump [email protected] [41d37fa]
• Bump [email protected] [e38980f]