Version 24.05.0-edge

• Add Managed Identity to Azure authentication documentation (#5062) [ab5b3eb]
• Add support for Azure managed identity (#4897) [21ca16e]
• Add support for EC-encrypted private keys for K8s executor [4dbb519]
• Add workflow.failOnIgnore config option (#4686) [ci fast] [172edc3]
• Allow requester pays for S3 buckets (#5027) [0070c1b]
• Dump threads on abort condition [e374097]
• Enable build with Java 21 (#5030) [4c54db6]
• Fix Azure system-assigned managed identity [a639a17]
• Fix Java 22 version in launcher [29d6f1d]
• Fix executions hangs on finalisation exception (#5070) [38434b8]
• Fix support for Azure managed identity clientId [306814e]
• Fix support for s5cmd 2.2.2 (#5069) [7e78bd4]
• Fix the cleanup of local secret file (#5061) [e28537c]
• Fix typo in error message [f5c2355]
• Fix unique operator hangs when applied to value (#5053) [88b8ab0]
• Improve retry strategy for Google cloud errors when writing task helper files (#5037) [f8b324a]
• Remove GA4GH plugin (#5056) [0471b2e]
• Remove ending slashes for publish targets [891ed11]
• Bump Gradle 8.8 final [ee54606]
• Bump aws-sdk 1.12.740 [acad2a1]
• Bump azure-compute-batch:1.0.0-beta.2 [c08dc49]
• Bump azure-storage-blob 12.26.1 [c76ff5e]
• Bump nf-wave@1.4.3 [01922f1]
• Bump nf-google@1.13.3 [c064d20]
• Bump nf-azure@1.7.0 [eeca7d6]
• Bump nf-amazon@2.6.0 [d3f53c1]

Version 23.10.3

• Bump nf-google@1.8.3-patch2 [6960daa]
• Bump nf-azure@1.3.3-patch2 [fbd3c1b]
• Bump nf-amazon@2.1.4-patch2 [f5b9582]
• Fix security vulnerabilities (#5057) [6d8765b]

Version 24.04.2

• Fix handling of tags with slash on Bitbucket (#5031) [ci fast] [76cd305]
• Fix the default for async finalizer (#5013) [f5fba70]
• Fix the invocation of function with gstring (#5020) [04317f0]
• Fix escapes dollar char in local secret provider (#5021) [d8f8bf5]
• Improve Charliecloud registry handling (#5018) [ci fast] [42496db]
• Enable the use of Java 22 (#4970) [ci fast] [cbf24f9]

Version 23.10.2

• Update Platform API endpoint (#4855) [04cedce]
• Fix semaphore in parallel polling monitor (#4927) [d173cea]
• Fix security vulnerabilities (#5014) [a28b404]
• Bump nf-wave@1.0.1-patch1 [3852dd1]
• Bump nf-tower@1.6.3-patch1 [d692711]
• Bump nf-google@1.8.3-patch1 [b48a142]
• Bump nf-ga4gh@1.1.0-patch1 [911c162]
• Bump nf-console@1.0.6-patch1 [9d6b64c]
• Bump nf-codecommit@0.1.5-patch1 [f43964f]
• Bump nf-cloudcache@0.3.3-patch1 [fb9059c]
• Bump nf-azure@1.3.3-patch1 [8c39862]
• Bump nf-amazon@2.1.4-patch1 [1d3726d]

Version 24.04.1

• Fix nf-google plugin dependency [725e286]
• Fix nf-amazon plugin dependency [c234b09]
• Bump nf-google@1.13.2 [633989a]
• Bump nf-amazon@2.5.2 [e31f70e]

Version 24.04.0

• Add 'preview' to workflow runtime metadata (#4985) [935bb1e]
• Add enabled property to output dsl (#5008) [284415b]
• Fix Taskbar API is not supported error [0ea09cc]
• Fix inspect should not write history entry [c713ad5]
• Fix unexpected container resolution [a5ecf8a]
• Improve icon loading error handling [c72e16f]
• Remove Fusion symlink resolution (#5004) [071ea74]
• Remove seqera and defaults from Conda default channels (#5003) [ec5ebd0]
• Use protected visibility for updateStatus method [6871ba0]
• Workflow output definition (#4784) [cf0546b]
• Bump Fusion 2.3 (#5005) [7176c11]
• Bump groovy-console 4.0.21-patch.2 [eb97831]
• Bump nf-amazon@2.5.1 [96ee633]
• Bump nf-console@1.1.3 [e835904]
• Bump nf-google@1.13.1 [5dcb4c7]
• Bump nf-wave@1.4.2 [73c668a]

24.04.0-edge - 13 May 2024

• Add Wave and Fusion info to workflow metadata (#4945) [bb7e1c8]
• Add k8s.cpuLimits config option (#3027) [3c6e96d]
• Add account config option for grid executors (#4975) [a09e37d]
• Add git to docs deps [aa9e127]
• Add resourceLimits directive (#2911) [7c9d965]
• Add support for Job arrays (#3892) [ca9bc9d]
• Add support for clusterOptions as a list of values (#4993) [dd173e3]
• Add threads dump for troubleshooting purposes [8992ebd]
• Fix Gstring casting exception when clusterOptions is a closure [74004fb]
• Fix Missing error code when no entry is specified [f507e9a]
• Fix NPE in LogsCheckpoint class [deb3076]
• Fix Prevent maxForks less than zero [7676dd9]
• Fix Use fully qualified S3 uris in error message (#4923) [f1cffd1]
• Fix Wave container resolution with singularity and ociMode [54ad624]
• Fix collectFile saving to GCS with sort: false (#4965) [1418553]
• Fix console "Plugin manager not initialised" warn (#4989) [5ff4453]
• Fix console icon (#4991) [b8a2370]
• Fix docs formatting [c02e58c]
• Fix docs snippet [6499649]
• Fix flaky docs test (#4957) [ea8246f]
• Fix groovy console issue (#4988) [b9bf641]
• Fix job array docs (#4984) [6a3347e]
• Fix missing include error message (#4981) [aad100e]
• Fix script error text alignment (#4681) [1dc4e4e]
• Fix security vulnerability in logback (#4947) [0ffcc4c]
• Fix semaphore in parallel polling monitor (#4927) [5c37fcc]
• Fix remove commented out test lines in Azure Batch Pool opts tests. (#4914) [cb607f0]
• Guarantees K8s pod name is unique on resume (#4959) [361cef8]
• Improve config resolution docs (#4950) [019eb86]
• Improve documentation about azcopy installation requirements for custom Azure Batch worker pools (#4911) [5c410db]
• Improve error message for image pull time-out for Singularity/Apptainer/Charliecloud (#4974) [73015fb]
• Remove unused const [6e91285]
• Run task finalisation asynchronously (#4890) [e0e9422]
• Strip auth secret from logs [acf63e0]
• Update TES executor to TES API v1.1 (#4195) [7b32c2d]
• Update aws.md to include Cluster access (#4951) [459d725]
• Update developer diagrams (#4922) [dcff41a]
• Update operator return types (#4976) [a614fbe]
• Update stale documentation in overview.md (#4968) [6a58c6d]
• Use for instead eachLine in error formatting [4a821f4]
• azure batch autopool feature more comprehensive documentation (#4941) [adbd890]
• Bump Gradle 8.7 [8b5cf3c]
• Bump nf-wave@1.4.1 [830b032]
• Bump nf-tower@1.9.1 [163683c]
• Bump nf-google@1.13.0 [6d99a22]
• Bump nf-ga4gh@1.3.0 [89695ed]
• Bump nf-console@1.1.2 [357b143]
• Bump nf-amazon@2.5.0 [6c62a60]

24.03.0-edge - 15 Apr 2024

• Add custom jobName for Google Batch [df40d55]
• Add escher to name generator class [2e6496e]
• Add retry policy to Google Batch client [c4981dc]
• Add retry strategy for publishing (#4839) [c9c7032]
• Add support for Azure custom startTask (#4913) [27d01e3]
• Add task tip extension point [eadad5b]
• Allow secrets to be used in pipeline script (#4171) [df866a2]
• Do not print a new line when stdout is empty (#4892) [658a5ec]
• Fix Azure pool creation [2ee4d11]
• Fix Use of secrets in the includeConfig path [00c9f22]
• Fix coloured ANSI log bug (#4898) [a04d698]
• Fix eval output type via bash -c wrapping (#4887) [2165a14]
• Fix exception handling in local executor [74d7d7a]
• Fix support for GCS requester pays bucket option [d9d61cf]
• Fix test when missing Google secret [33dc3ce]
• Improve Charliecloud support (#4879) [287471c]
• Improve control on azcopy install (#4883) [01447d5]
• Improve error message when Google creds file is corrupted [a550e52]
• Improve getting started docs (#4764) [b59111b]
• Improve retry logic for AWS Batch executor [62926c2]
• Nextflow launch script: improving search for JAVA_CMD (#4830) [ebbbe9e]
• Publish built-in reports as Tower reports (#4760) [b710d92]
• Remove not needed dsl=2 + error in example (#4812) [7c5779d]
• Remove unused code from AssetManager [7736516]
• Revert "Fix failing CI tests (#4861)" [7ba2e25]
• Update NameGenerator (#4907) [248201a]
• Update Platform API endpoint (#4855) [4842423]
• Update Wave to API v1alpha2 (#4906) [9c35087]
• Update docs (#4852) [6e2d1a9]
• Updated docs on Google Cloud setup and credentials (#4896) [7e8b5e2]
• Updated dodcs note on singularity default command (#4825) [567f533]
• Bump groovy 4.0.20 [66c1a16]
• Bump groovy 4.0.21 [9e08390]
• Bump nf-wave@1.4.0 [fc70dc8]
• Bump nf-tower@1.9.0 [b0c4e2c]
• Bump nf-google@1.12.0 [6ae25fa]
• Bump nf-azure@1.6.0 [967c2ac]
• Bump nf-amazon@2.4.2 [ddda969]

24.02.0-edge - 10 Mar 2024

• Add K8s job ttlSecondsAfterFinished option (#4434) [93627be]
• Add NXF_CACHE_DIR environment var (#4655) [4b00170]
• Add colours to ansi logs (#4573) [5e2ce9e]
• Add eval output type (#4493) [df97811]
• Fix Always emit publish event for symlinks on resume (#4790) [bb5c4f9]
• Fix Do not create local plugin path in embedded mode [9d6dd6a]
• Fix Error while publishing S3 file with blanks [b74c022]
• Fix Missing dependency for console command [baf2911]
• Fix typo in Azure Batch docs ('Azore') (#4735) [192bf8d]
• Fix typo in error message [a7f2330]
• Remove experimental admonition for podman [17d0dce]
• Remove square brackets from job name in LSF executor (#4799) [6e0ac72]
• Remove unneeded const [09c957f]
• Rename Tower -> Seqera Platform in docs and log messages (#4727) [7caffef]
• Update Azure dependencies [1bcbaf0]
• Update copyright info [e3089f0]
• Use alias for HistoryFile.Record [17217a1]
• minor cli docstring fix (#4759) [ee4b4a2]
• Bump Grengine 3.0.2 [42ca2b6]
• Bump groovy 4.0.19 [854dc1f]
• Bump snakeyaml 2.2 [0748077]
• Bump nf-amazon@2.4.1 [0eb8407]
• Bump nf-azure@1.5.1 [d63be8c]
• Bump nf-cloudcache@0.4.1 [57b7004]
• Bump nf-console@1.1.1 [b7f703f]
• Bump nf-tower@1.8.1 [b8ffb18]
• Bump nf-wave@1.3.1 [0c542ed]
• Bump amazoncorretto 17.0.10-al2023 [3e695ad]

24.01.0-edge - 5 Feb 2024

• Add support for custom fuse device plugin (#4612) [a1e3319]
• Fix Ignore stored process message when ansi log is enabled (#4645) [f9ba47e]
• Fix Wave container replicable checksum [da382dd]
• Fix azure retry policy (#4638) [85bab69]
• Fix handling of wave.s5cmdConfigUrl setting (#4707) [3a19386]
• Fix typo in Hyperqueue section (#4635) [d5a6a96]
• Fix typo in OCI mode warning message (#4633) [e216a87]
• Fix typo in the docs (#4636) [ci-skip] [4727f17]
• Improve detection of sys home variable [8812138]
• Improve handling of publish error (#4703) [fc9f768]
• LocalSecretsProvider: invalid permissions tests made more robust (#4663) [682a680]
• Remove Glacier auto-retrieval (#4705) [5f0ec50]
• Remove preview from cmd secret [dc04022]
• Set scratch default to false when using Fusion (#4675) [9d17e40]
• Slight change in wording for error message about userEmulation (#4680) [a9c8a84]
• Truncate max size exceeded error message (#4644) [36090b7]
• Use AZURE_STORAGE_SAS_TOKEN environment variable (#4627) [2e02afb]
• Use canonical init method for plugins initialization [e7a20af]
• Bump nf-wave@1.3.0 [8b9905c]
• Bump nf-tower@1.8.0 [bfc94e4]
• Bump nf-google@1.11.0 [01ff035]
• Bump nf-ga4gh@1.2.0 [3df3418]
• Bump nf-console@1.1.0 [e90d73a]
• Bump nf-codecommit@0.2.0 [4379c94]
• Bump nf-cloudcache@0.4.0 [2bc698c]
• Bump nf-azure@1.5.0 [07415ce]
• Bump nf-amazon@2.4.0 [b991e14]
• Bump Groovy 4 (#4443) [9d32503]
• Bump actions/checkout@v4 [d1b3195]
• Bump logback@1.4.12 + guava@33.0.0-jre [331ff42]
• Bump nextflow 23.12.0-edge as min version [63e8370]
• Bump tj-actions/changed-files from 35 to 41 in /.github/workflows (#4622) [d67aef5]

23.12.0-edge - 20 Dec 2023

• Add AWS_SESSION_TOKEN to Fusion environment (#4581) [552f29b]
• Add ability to disable Cloudinfo service (#4606) [f725189]
• Add experimental support for Fargate compute type for AWS Batch (#3474) [47cf335]
• Add support for Instance template to Google Batch [df7ed29]
• Add support for Singularity/Apptainer auto pull mode for OCI containers [b7f1a19]
• Fix BitBucket get source API with custom branch [5893783]
• Fix Fusion tags documentation (#4551) [687e2e9]
• Fix Harden regular expression to used to strip secrets in logs (#4563) [832bff2]
• Fix bug with Fusion symlink resolution (#4593) [09e8558]
• Fix container environment with special chars (#4594) [e0fe952]
• Fix custom notification template [ccf4f59]
• Fix fusion symlink test (#4604) [681ace8]
• Fix smoke tests [d3c2f33]
• Improve GLS tests [58590b1]
• Load nf-amazon when AWS SES is enabled [887f06f]
• Move build num & timestamp to BuildInfo class [ec8083d]
• Move app version to BuildInfo class [c7d749e]
• Remove deprecated Wave observer [0e009ef]
• Remove undocumented userEmulation mode (#4596) [f6c7978]
• Remove unused DSL2 check [e9ee3b2]
• Replace each iterator with class for [f7662e6]
• Bump nf-amazon@2.3.0 [0b40b7b]
• Bump nf-google@1.10.0 [bcb20fc]
• Bump nf-wave@1.2.0 [aa98181]
• Bu...

Version 24.04.0-edge

• Add Wave and Fusion info to workflow metadata (#4945) [bb7e1c8]
• Add k8s.cpuLimits config option (#3027) [3c6e96d]
• Add account config option for grid executors (#4975) [a09e37d]
• Add git to docs deps [aa9e127]
• Add resourceLimits directive (#2911) [7c9d965]
• Add support for Job arrays (#3892) [ca9bc9d]
• Add support for clusterOptions as a list of values (#4993) [dd173e3]
• Add threads dump for troubleshooting purposes [8992ebd]
• Fix Gstring casting exception when clusterOptions is a closure [74004fb]
• Fix Missing error code when no entry is specified [f507e9a]
• Fix NPE in LogsCheckpoint class [deb3076]
• Fix Prevent maxForks less than zero [7676dd9]
• Fix Use fully qualified S3 uris in error message (#4923) [f1cffd1]
• Fix Wave container resolution with singularity and ociMode [54ad624]
• Fix collectFile saving to GCS with sort: false (#4965) [1418553]
• Fix console "Plugin manager not initialised" warn (#4989) [5ff4453]
• Fix console icon (#4991) [b8a2370]
• Fix docs formatting [c02e58c]
• Fix docs snippet [6499649]
• Fix flaky docs test (#4957) [ea8246f]
• Fix groovy console issue (#4988) [b9bf641]
• Fix job array docs (#4984) [6a3347e]
• Fix missing include error message (#4981) [aad100e]
• Fix script error text alignment (#4681) [1dc4e4e]
• Fix security vulnerability in logback (#4947) [0ffcc4c]
• Fix semaphore in parallel polling monitor (#4927) [5c37fcc]
• Fix remove commented out test lines in Azure Batch Pool opts tests. (#4914) [cb607f0]
• Guarantees K8s pod name is unique on resume (#4959) [361cef8]
• Improve config resolution docs (#4950) [019eb86]
• Improve documentation about azcopy installation requirements for custom Azure Batch worker pools (#4911) [5c410db]
• Improve error message for image pull time-out for Singularity/Apptainer/Charliecloud (#4974) [73015fb]
• Remove unused const [6e91285]
• Run task finalisation asynchronously (#4890) [e0e9422]
• Strip auth secret from logs [acf63e0]
• Update TES executor to TES API v1.1 (#4195) [7b32c2d]
• Update aws.md to include Cluster access (#4951) [459d725]
• Update developer diagrams (#4922) [dcff41a]
• Update operator return types (#4976) [a614fbe]
• Update stale documentation in overview.md (#4968) [6a58c6d]
• Use for instead eachLine in error formatting [4a821f4]
• azure batch autopool feature more comprehensive documentation (#4941) [adbd890]
• Bump Gradle 8.7 [8b5cf3c]
• Bump nf-wave@1.4.1 [830b032]
• Bump nf-tower@1.9.1 [163683c]
• Bump nf-google@1.13.0 [6d99a22]
• Bump nf-ga4gh@1.3.0 [89695ed]
• Bump nf-console@1.1.2 [357b143]
• Bump nf-amazon@2.5.0 [6c62a60

Version 24.03.0-edge

• Add custom jobName for Google Batch [df40d55]
• Add escher to name generator class [2e6496e]
• Add retry policy to Google Batch client [c4981dc]
• Add retry strategy for publishing (#4839) [c9c7032]
• Add support for Azure custom startTask (#4913) [27d01e3]
• Add task tip extension point [eadad5b]
• Allow secrets to be used in pipeline script (#4171) [df866a2]
• Do not print a new line when stdout is empty (#4892) [658a5ec]
• Fix Azure pool creation [2ee4d11]
• Fix Use of secrets in the includeConfig path [00c9f22]
• Fix coloured ANSI log bug (#4898) [a04d698]
• Fix eval output type via bash -c wrapping (#4887) [2165a14]
• Fix exception handling in local executor [74d7d7a]
• Fix support for GCS requester pays bucket option [d9d61cf]
• Fix test when missing Google secret [33dc3ce]
• Improve Charliecloud support (#4879) [287471c]
• Improve control on azcopy install (#4883) [01447d5]
• Improve error message when Google creds file is corrupted [a550e52]
• Improve getting started docs (#4764) [b59111b]
• Improve retry logic for AWS Batch executor [62926c2]
• Nextflow launch script: improving search for JAVA_CMD (#4830) [ebbbe9e]
• Publish built-in reports as Tower reports (#4760) [b710d92]
• Remove not needed dsl=2 + error in example (#4812) [7c5779d]
• Remove unused code from AssetManager [7736516]
• Revert "Fix failing CI tests (#4861)" [7ba2e25]
• Update NameGenerator (#4907) [248201a]
• Update Platform API endpoint (#4855) [4842423]
• Update Wave to API v1alpha2 (#4906) [9c35087]
• Update docs (#4852) [6e2d1a9]
• Updated docs on Google Cloud setup and credentials (#4896) [7e8b5e2]
• Updated dodcs note on singularity default command (#4825) [567f533]
• Bump groovy 4.0.20 [66c1a16]
• Bump groovy 4.0.21 [9e08390]
• Bump nf-wave@1.4.0 [fc70dc8]
• Bump nf-tower@1.9.0 [b0c4e2c]
• Bump nf-google@1.12.0 [6ae25fa]
• Bump nf-azure@1.6.0 [967c2ac]
• Bump nf-amazon@2.4.2 [ddda969]

Version 24.02.0-edge

• Add K8s job ttlSecondsAfterFinished option (#4434) [93627be]
• Add NXF_CACHE_DIR environment var (#4655) [4b00170]
• Add colours to ansi logs (#4573) [5e2ce9e]
• Add eval output type (#4493) [df97811]
• Fix Always emit publish event for symlinks on resume (#4790) [bb5c4f9]
• Fix Do not create local plugin path in embedded mode [9d6dd6a]
• Fix Error while publishing S3 file with blanks [b74c022]
• Fix Missing dependency for console command [baf2911]
• Fix typo in Azure Batch docs ('Azore') (#4735) [192bf8d]
• Fix typo in error message [a7f2330]
• Remove experimental admonition for podman [17d0dce]
• Remove square brackets from job name in LSF executor (#4799) [6e0ac72]
• Remove unneeded const [09c957f]
• Rename Tower -> Seqera Platform in docs and log messages (#4727) [7caffef]
• Update Azure dependencies [1bcbaf0]
• Update copyright info [e3089f0]
• Use alias for HistoryFile.Record [17217a1]
• minor cli docstring fix (#4759) [ee4b4a2]
• Bump Grengine 3.0.2 [42ca2b6]
• Bump groovy 4.0.19 [854dc1f]
• Bump snakeyaml 2.2 [0748077]
• Bump nf-amazon@2.4.1 [0eb8407]
• Bump nf-azure@1.5.1 [d63be8c]
• Bump nf-cloudcache@0.4.1 [57b7004]
• Bump nf-console@1.1.1 [b7f703f]
• Bump nf-tower@1.8.1 [b8ffb18]
• Bump nf-wave@1.3.1 [0c542ed]
• Bump amazoncorretto 17.0.10-al2023 [3e695ad]

Version 24.01.0-edge

• Add support for custom fuse device plugin (#4612) [a1e3319]
• Fix Ignore stored process message when ansi log is enabled (#4645) [f9ba47e]
• Fix Wave container replicable checksum [da382dd]
• Fix azure retry policy (#4638) [85bab69]
• Fix handling of wave.s5cmdConfigUrl setting (#4707) [3a19386]
• Fix typo in Hyperqueue section (#4635) [d5a6a96]
• Fix typo in OCI mode warning message (#4633) [e216a87]
• Fix typo in the docs (#4636) [ci-skip] [4727f17]
• Improve detection of sys home variable [8812138]
• Improve handling of publish error (#4703) [fc9f768]
• LocalSecretsProvider: invalid permissions tests made more robust (#4663) [682a680]
• Remove Glacier auto-retrieval (#4705) [5f0ec50]
• Remove preview from cmd secret [dc04022]
• Set scratch default to false when using Fusion (#4675) [9d17e40]
• Slight change in wording for error message about userEmulation (#4680) [a9c8a84]
• Truncate max size exceeded error message (#4644) [36090b7]
• Use AZURE_STORAGE_SAS_TOKEN environment variable (#4627) [2e02afb]
• Use canonical init method for plugins initialization [e7a20af]
• Bump nf-wave@1.3.0 [8b9905c]
• Bump nf-tower@1.8.0 [bfc94e4]
• Bump nf-google@1.11.0 [01ff035]
• Bump nf-ga4gh@1.2.0 [3df3418]
• Bump nf-console@1.1.0 [e90d73a]
• Bump nf-codecommit@0.2.0 [4379c94]
• Bump nf-cloudcache@0.4.0 [2bc698c]
• Bump nf-azure@1.5.0 [07415ce]
• Bump nf-amazon@2.4.0 [b991e14]
• Bump Groovy 4 (#4443) [ci fast] [9d32503]
• Bump actions/checkout@v4 [d1b3195]
• Bump logback@1.4.12 + guava@33.0.0-jre [331ff42]
• Bump nextflow 23.12.0-edge as min version [63e8370]
• Bump tj-actions/changed-files from 35 to 41 in /.github/workflows (#4622) [d67aef5]