Recent Releases of streamflow

streamflow - 0.2.0.dev13

What's Changed

Fix requirement propagation in CWLTranslator by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/688
Refactor private functions by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/684
Always wait for DataLocation to be available by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/690
Refactor unit tests by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/691
Fix concurrent output retrieval by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/689
Improved WorkflowBuilder by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/692
Fixed cleanup in unit tests by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/695
Fixed invalidate_location method by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/694
Improved is_available method of the FileToken class by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/696
Added ROLLBACK status by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/697
Refactored TransferStep by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/698
Added recoverable attribute to the Token object in the FailureManager by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/699
Implemented fault tolerance based on Database module by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/169
Refactored the no-cycles check for stacked deployment definitions by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/705
Improved handling of File literals by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/693
Check if bindings exist in the workflow by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/708
Removed comparison operators from Hardware class by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/711
Fixed CloneTransformer persistence by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/719
Fix InitialWorkDirRequirement for nested dirs by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/735
Capture TimeoutError when retrieving disk usage by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/737
Fixed persistence of CWLCommandOutputProcessor classes by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/740
Improve JSONSchema specificaton by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/745
Add a check to verify object instantiation in persistence tests by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/741
Added llms.txt to StreamFlow documentation by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/754
Fixed preparation of workdir for list and object inputs by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/732
Refactor the invocation of FailureManager within the Step by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/753
Improved token processing logic in CWLObjectTokenProcessor by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/758
Make Scheduler helper methods raise exceptions by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/759
Remove the StreamWrapperContextManager class by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/760
Fixed tag sorting in the GatherStep by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/761
Improve StreamFlow type system by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/762
Fixed CWLMapCommandOutputProcessor persistence by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/765
Make StreamFlowContext constructor self-contained by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/767
Improved Combinator persistence tests by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/764
Fixed CWLCommand persistence by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/771
Improved provenance of the task executions by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/772
Fixed the transferBufferSize parameter in the FutureConnector by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/775
Fixed subworkflows case in the RunCrateProvenanceManager by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/774
Remove support for nested Token objects by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/777
Fixed DefaultRetagTransformer within scatter by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/742

Dependencies

Bump aiohttp from 3.11.13 to 3.11.14 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/700
Bump aiohttp from 3.11.14 to 3.11.16 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/712
Bump aiohttp from 3.11.16 to 3.11.18 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/715
Bump aiohttp from 3.11.18 to 3.12.2 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/724
Bump aiohttp from 3.12.2 to 3.12.6 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/729
Bump aiohttp from 3.12.6 to 3.12.8 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/731
Bump aiohttp from 3.12.8 to 3.12.9 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/733
Bump aiohttp from 3.12.9 to 3.12.12 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/738
Bump aiohttp from 3.12.12 to 3.12.13 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/744
Bump aiohttp from 3.12.13 to 3.12.14 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/757
Bump aiohttp from 3.12.14 to 3.12.15 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/773
Bump asyncssh from 2.20.0 to 2.21.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/718
Bump bcrypt from 4.2.1 to 4.3.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/683
Bump cachetools from 5.5.2 to 6.0.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/722
Bump cachetools from 6.0.0 to 6.1.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/746
Bump cwltool from 3.1.20250110105449 to 3.1.20250715140722 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/769
Bump cwl-utils from 0.37 to 0.38 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/726
Bump cwl-utils from 0.38 to 0.39 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/770
Bump importlib-metadata from 8.6.1 to 8.7.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/716
Bump jinja2 from 3.1.5 to 3.1.6 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/687
Bump jsonschema from 4.23.0 to 4.24.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/723
Bump jsonschema from 4.24.0 to 4.24.1 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/766
Bump jsonschema from 4.24.1 to 4.25.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/768
Bump kaleido from 0.4.2 to 1.0.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/749
Bump kubernetes-asyncio from 32.0.0 to 32.3.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/707
Bump kubernetes-asyncio from 32.3.0 to 32.3.2 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/717
Bump pandas from 2.2.3 to 2.3.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/734
Bump pandas from 2.3.0 to 2.3.1 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/756
Bump plotly from 6.0.0 to 6.0.1 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/702
Bump plotly from 6.0.1 to 6.1.2 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/727
Bump plotly from 6.1.2 to 6.2.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/750
Bump rdflib from 7.1.3 to 7.1.4 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/706

Dev Dependencies

Bump bandit from 1.8.3 to 1.8.5 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/747
Bump bandit from 1.8.5 to 1.8.6 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/755
Bump cwltest from 2.5.20241122133319 to 2.6.20250314152537 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/701
Bump pytest from 8.3.4 to 8.3.5 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/685
Bump pytest from 8.3.5 to 8.4.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/730
Bump pytest from 8.4.0 to 8.4.1 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/748
Bump pytest-asyncio from 0.25.3 to 0.26.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/704
Bump pytest-asyncio from 0.26.0 to 1.0.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/743
Bump pytest-asyncio from 1.0.0 to 1.1.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/763
Bump pytest-cov from 6.0.0 to 6.1.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/709
Bump pytest-cov from 6.1.0 to 6.1.1 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/713
Bump pytest-cov from 6.1.1 to 6.2.1 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/739
Bump pytest-xdist from 3.6.1 to 3.7.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/725
Bump pytest-xdist from 3.7.0 to 3.8.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/751
Bump pyupgrade from 3.19.1 to 3.20.0 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/721
Bump sphinx from 8.2.1 to 8.2.3 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/686
Bump sphinx-llms-txt from 0.3.0 to 0.3.1 by @dependabot[bot] in https://github.com/alpha-unito/streamflow/pull/776

Full Changelog: https://github.com/alpha-unito/streamflow/compare/0.2.0.dev12...0.2.0.dev13

- Python
Published by github-actions[bot] 11 months ago

streamflow - 0.2.0.dev12

Breaking Changes

Drop support for Python 3.8 by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/561

What's Changed

Fix PyPI release pipeline by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/450
Moved the _retrieve_output calls inside try-except clauses by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/451
Fix workdir handling in SlurmConnector by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/456
Re-introduced log level option in DockerComposeConnector by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/457
Fixed StreamFlow name by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/458
Fixed prefix of input union types by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/455
Fixed record field name in CWLObjectTokenProcessor by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/460
Fixed workdir of wrapped deployments by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/461
Added NoContainerCWLDockerTranslator by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/453
Check job status when it terminates by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/452
Refactor command tokens by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/469
Fix remote write by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/471
Fix SingularityConnector environment variables by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/470
Fixed output step when it is an empty list by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/472
Optimize scheduling logic by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/474
Fix input directory path by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/475
Improve performance of local copies by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/476
Added get_stream_writer method to Connector by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/477
Implementing stacked locations scheduling by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/480
Update Apptainer version in CI pipeline by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/482
Make ContainerConnector extend ConnectorWrapper by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/481
Removed duplicate package import by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/492
Created CWLWorkflow class by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/504
Fixed CONTENT_LIMIT checks by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/491
Added explicit return in _copy_remote_to_remote by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/515
Moved Graph reference from CWLTokenProcessor to CWLWorkflow by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/516
Changed propagation of failure termination by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/373
Improved description about location storage in the Hardware class by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/423
Temporarily disable MacOS X GitHub Actions by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/459
Fixed minor bugs by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/535
Enable StreamFlow JSON Schema dump by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/543
Fix MacOS X CI on GitHub Actions by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/547
Fixed job input for the CWL InitialWorkDirRequirement by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/536
Fix follow_symlink function return value by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/542
Fix ValueFromTransformer without input deps by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/553
Handle lists in CWL glob field by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/555
Fixed optional CWL parameter by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/466
Add support for Python 3.13 by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/539
Fix report feature in case of empty workflow by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/568
Improved SSHConnector error message by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/574
Support stacked storage in scheduling by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/552
Fix requirement eval in CWL WorkflowStep by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/578
Improved job propagation after scheduling by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/580
Simplify DataManager logic for local transfers by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/582
Fixed InputInjectorStep in remote location data case by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/566
Simplify data movement logic by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/583
Improve LocalConnector performance by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/585
Fix concurrency in DefaultScheduler by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/584
Enable multi-workflow reports by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/581
Refactor DataManager class and fix local copy by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/587
Fixed workdir inheritance in wrapped deployments by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/588
Stop loading contents on Directory objects by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/594
Improve logging of copy methods by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/599
Added check to mkdir return code by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/595
Modernize pytest suite by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/600
Improve mount handling on SingularityConnector by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/601
Fix PBSConnector behaviour by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/606
Add local field to ExecutionLocation by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/593
Refactored unit tests by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/615
Fixed Hardware operation methods by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/616
Improve MacOS CI performance by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/609
Propagate DataLocation relations to stacked envs by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/608
Migrate CWL parsing from cwltool to cwl-utils by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/58
Add isort to the lint pipeline by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/621
Refactored remotepath module by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/618
Update coverage command and add badge by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/625
Improved ssh retry mechanism by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/501
Fixed some CWL translator issues by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/628
Optimize remote commands through StreamFlowPath by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/626
Fixed remote ports by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/643
Modernize base Docker image and Helm version by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/655
Fix remote files handling by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/648
Migrate Docker container to Debian by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/658
Added timeout to SSHConnector by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/644
Refactor SSHConnector class by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/661
Improve CWL parsing performance by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/660
Fixed ChannelOpenError handling on the SSHConnector by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/664
Remove useless LocalConnector deps by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/665
Uniform StreamFlow output format to CWL ecosystem by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/667
Fixed tag hierarchy check by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/670
Fix ANTLR4 script generator by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/674
Remove unused code by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/673
Handle single-element output lists in CWL by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/672
Fix CWL pickValue with all_non_null option by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/677
Improved remote file creation by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/679
Update Linux GitHub runners to 24.04 by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/680
Update PostgreSQL plugin documentation by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/681

Dependencies

Bump aiohttp from 3.9.5 to 3.10.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/514
Bump aiohttp from 3.10.1 to 3.10.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/521
Bump aiohttp from 3.10.2 to 3.10.4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/524
Bump aiohttp from 3.10.4 to 3.10.5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/526
Bump aiohttp from 3.10.5 to 3.10.6 by @dependabot in https://github.com/alpha-unito/streamflow/pull/551
Bump aiohttp from 3.10.6 to 3.10.8 by @dependabot in https://github.com/alpha-unito/streamflow/pull/554
Bump aiohttp from 3.10.8 to 3.10.9 by @dependabot in https://github.com/alpha-unito/streamflow/pull/557
Bump aiohttp from 3.10.9 to 3.10.10 by @dependabot in https://github.com/alpha-unito/streamflow/pull/563
Bump aiohttp from 3.10.10 to 3.11.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/592
Bump aiohttp from 3.11.0 to 3.11.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/597
Bump aiohttp from 3.11.2 to 3.11.4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/602
Bump aiohttp from 3.11.4 to 3.11.6 by @dependabot in https://github.com/alpha-unito/streamflow/pull/605
Bump aiohttp from 3.11.6 to 3.11.7 by @dependabot in https://github.com/alpha-unito/streamflow/pull/607
Bump aiohttp from 3.11.7 to 3.11.8 by @dependabot in https://github.com/alpha-unito/streamflow/pull/612
Bump aiohttp from 3.11.8 to 3.11.9 by @dependabot in https://github.com/alpha-unito/streamflow/pull/613
Bump aiohttp from 3.11.9 to 3.11.10 by @dependabot in https://github.com/alpha-unito/streamflow/pull/617
Bump aiohttp from 3.11.10 to 3.11.11 by @dependabot in https://github.com/alpha-unito/streamflow/pull/632
Bump aiohttp from 3.11.11 to 3.11.12 by @dependabot in https://github.com/alpha-unito/streamflow/pull/657
Bump aiohttp from 3.11.12 to 3.11.13 by @dependabot in https://github.com/alpha-unito/streamflow/pull/678
Bump aiosqlite from 0.20.0 to 0.21.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/656
Bump antlr4-python3-runtime from 4.13.1 to 4.13.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/519
Bump asyncssh from 2.14.2 to 2.17.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/534
Bump asyncssh from 2.17.0 to 2.18.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/575
Bump asyncssh from 2.18.0 to 2.19.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/622
Bump asyncssh from 2.19.0 to 2.20.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/668
Bump bcrypt from 4.1.3 to 4.2.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/508
Bump bcrypt from 4.2.0 to 4.2.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/604
Bump cachetools from 5.3.3 to 5.4.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/499
Bump cachetools from 5.4.0 to 5.5.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/527
Bump cachetools from 5.5.0 to 5.5.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/647
Bump cachetools from 5.5.1 to 5.5.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/671
Bump cwl-utils from 0.33 to 0.34 by @dependabot in https://github.com/alpha-unito/streamflow/pull/538
Bump cwl-utils from 0.34 to 0.35 by @dependabot in https://github.com/alpha-unito/streamflow/pull/564
Bump cwl-utils from 0.36 to 0.37 by @dependabot in https://github.com/alpha-unito/streamflow/pull/663
Bump importlib-metadata from 7.1.0 to 7.2.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/487
Bump importlib-metadata from 7.2.1 to 8.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/488
Bump importlib-metadata from 8.0.0 to 8.2.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/510
Bump importlib-metadata from 8.2.0 to 8.4.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/529
Bump importlib-metadata from 8.4.0 to 8.5.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/544
Bump importlib-metadata from 8.5.0 to 8.6.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/645
Bump jinja2 from 3.1.4 to 3.1.5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/635
Bump jsonschema from 4.22.0 to 4.23.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/495
Bump kaleido from 0.2.1 to 0.4.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/598
Bump kaleido from 0.4.1 to 0.4.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/603
Bump kubernetes-asyncio from 29.0.0 to 30.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/479
Bump kubernetes-asyncio from 30.1.0 to 30.1.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/489
Bump kubernetes-asyncio from 30.1.1 to 30.3.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/517
Bump kubernetes-asyncio from 30.3.0 to 30.3.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/522
Bump kubernetes-asyncio from 30.3.1 to 31.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/545
Bump kubernetes-asyncio from 31.1.0 to 31.1.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/619
Bump kubernetes-asyncio from 31.1.1 to 32.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/631
Bump pandas from 2.2.2 to 2.2.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/548
Bump plotly from 5.22.0 to 5.23.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/507
Bump plotly from 5.23.0 to 5.24.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/533
Bump plotly from 5.24.0 to 5.24.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/546
Bump plotly from 5.24.1 to 6.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/651
Bump psutil from 5.9.8 to 6.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/485
Bump psutil from 6.0.0 to 6.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/570
Bump psutil from 6.1.0 to 6.1.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/633
Bump psutil from 6.1.1 to 7.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/662
Bump rdflib from 7.0.0 to 7.1.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/576
Bump rdflib from 7.1.1 to 7.1.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/640
Bump rdflib from 7.1.2 to 7.1.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/642
Bump referencing from 0.35.1 to 0.36.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/641
Bump referencing from 0.36.1 to 0.36.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/649
Bump yattag from 1.15.2 to 1.16.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/520
Bump yattag from 1.16.0 to 1.16.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/586

Dev Dependencies

Bump bandit from 1.7.8 to 1.7.9 by @dependabot in https://github.com/alpha-unito/streamflow/pull/483
Bump bandit from 1.7.9 to 1.7.10 by @dependabot in https://github.com/alpha-unito/streamflow/pull/550
Bump bandit from 1.7.10 to 1.8.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/611
Bump bandit from 1.8.0 to 1.8.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/639
Bump bandit from 1.8.2 to 1.8.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/666
Bump black from 24.4.2 to 24.8.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/513
Bump black from 24.8.0 to 24.10.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/559
Bump black from 24.10.0 to 25.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/653
Bump codecov/codecov-action from 4 to 5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/596
Bump codespell from 2.2.6 to 2.3.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/465
Bump codespell from 2.3.0 to 2.4.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/646
Bump codespell from 2.4.0 to 2.4.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/654
Bump cwltest from 2.5.20240425111257 to 2.5.20240714110256 by @dependabot in https://github.com/alpha-unito/streamflow/pull/497
Bump cwltest from 2.5.20240714110256 to 2.5.20240906231108 by @dependabot in https://github.com/alpha-unito/streamflow/pull/537
Bump cwltest from 2.5.20240906231108 to 2.5.20241122133319 by @dependabot in https://github.com/alpha-unito/streamflow/pull/610
Bump cwltool from 3.1.20240404144621 to 3.1.20240508115724 by @dependabot in https://github.com/alpha-unito/streamflow/pull/454
Bump cwltool from 3.1.20240508115724 to 3.1.20240708091337 by @dependabot in https://github.com/alpha-unito/streamflow/pull/493
Bump cwltool from 3.1.20240708091337 to 3.1.20241112140730 by @dependabot in https://github.com/alpha-unito/streamflow/pull/591
Bump cwltool from 3.1.20241112140730 to 3.1.20241217163858 by @dependabot in https://github.com/alpha-unito/streamflow/pull/630
Bump cwltool from 3.1.20241217163858 to 3.1.20250110105449 by @dependabot in https://github.com/alpha-unito/streamflow/pull/638
Bump docker/build-push-action from 5 to 6 by @dependabot in https://github.com/alpha-unito/streamflow/pull/484
Bump flake8-bugbear from 24.4.26 to 24.8.19 by @dependabot in https://github.com/alpha-unito/streamflow/pull/532
Bump flake8-bugbear from 24.8.19 to 24.10.31 by @dependabot in https://github.com/alpha-unito/streamflow/pull/579
Bump flake8-bugbear from 24.10.31 to 24.12.12 by @dependabot in https://github.com/alpha-unito/streamflow/pull/623
Bump helm/kind-action from 1.10.0 to 1.11.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/627
Bump helm/kind-action from 1.11.0 to 1.12.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/634
Bump isort from 5.13.2 to 6.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/650
Bump isort from 6.0.0 to 6.0.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/682
Bump pytest from 8.1.1 to 8.2.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/462
Bump pytest from 8.2.1 to 8.2.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/473
Bump pytest from 8.2.2 to 8.3.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/505
Bump pytest from 8.3.1 to 8.3.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/512
Bump pytest from 8.3.2 to 8.3.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/549
Bump pytest from 8.3.3 to 8.3.4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/614
Bump pytest-asyncio from 0.24.0 to 0.25.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/624
Bump pytest-asyncio from 0.25.0 to 0.25.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/636
Bump pytest-asyncio from 0.25.1 to 0.25.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/652
Bump pytest-cov from 5.0.0 to 6.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/577
Bump pyupgrade from 3.15.2 to 3.16.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/478
Bump pyupgrade from 3.16.0 to 3.17.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/511
Bump pyupgrade from 3.17.0 to 3.18.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/567
Bump pyupgrade from 3.18.0 to 3.19.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/572
Bump pyupgrade from 3.19.0 to 3.19.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/629
Bump sphinx from 7.3.7 to 7.4.5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/500
Bump sphinx from 7.4.5 to 7.4.6 by @dependabot in https://github.com/alpha-unito/streamflow/pull/502
Bump sphinx from 7.4.6 to 7.4.7 by @dependabot in https://github.com/alpha-unito/streamflow/pull/506
Bump sphinx from 7.4.7 to 8.0.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/518
Bump sphinx from 8.0.2 to 8.1.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/565
Bump sphinx from 8.1.3 to 8.2.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/669
Bump sphinx from 8.2.0 to 8.2.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/676
Bump sphinx-rtd-theme from 2.0.0 to 3.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/556
Bump sphinx-rtd-theme from 3.0.0 to 3.0.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/560
Bump sphinx-rtd-theme from 3.0.1 to 3.0.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/590

Full Changelog: https://github.com/alpha-unito/streamflow/compare/0.2.0.dev11...0.2.0.dev12

- Python
Published by github-actions[bot] over 1 year ago

streamflow - 0.2.0.dev11

What's Changed

Add support for Python 3.12 by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/256
Added possibility to load ports and steps in a different workflow by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/274
Fixed minor issue with port-targets documentation by @paoloviviani in https://github.com/alpha-unito/streamflow/pull/276
Update Node.js version in CI pipeline by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/286
Update CWL v1.2 conformance tests by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/288
Refactor conftest.py by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/287
Fixed Config persistence by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/289
Fixed loop termination combinator persistence by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/290
Removed deprecated pkg_resources API by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/291
Replace cgi and logging.warn with new APIs by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/292
Improve test_download logic by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/293
Add warning messages for default connector params by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/294
Add optional param to composite processors by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/295
Fix copy remote-to-remote using ConnectorWrapper by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/301
Adjusted local-to-remote copy with folders by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/308
Fixed remote-to-local copy of nested directories by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/309
Fixed template environment variables by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/310
Fixed SSHClientConnection closing by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/311
Fixed incomplete stream reading by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/314
Fix valueFrom type checking behaviour by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/323
Fixed data location invalidation by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/324
Fixed job name by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/325
Fixed typo errors by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/326
Added missing task creation in some gathers by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/327
Fixed symbolic link remote input data error by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/328
Added StreamWrapper documentation by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/329
Fixed CWLConditionalStep persistence by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/330
Fixed provenance issues by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/331
Improved error message of batch systems when job fails by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/332
Added check after the creation data by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/336
Add no regression test for Sphinx documentation by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/337
Reduce size of database metadata by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/338
Fixed get method of RemotePathMapper by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/343
Move CWL 1.2 conformance to main branch by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/346
Improved scatter/gather performance by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/348
Added new queries to the Database by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/356
Added retries and retryDelay parameters in the SSHConnector configuration by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/361
Fixed some bugs by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/333
Fix Codecov GitHub action by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/374
Fix CWL Docker Requirement config example by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/375
Remove SSH deployment from MacOS CI by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/376
Fix Codecov GitHub Action by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/379
Fix Codecov GitHub Action by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/380
Add codecov.yml configuration file by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/382
Support for nested Location objects by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/383
Add __slots__ attribute to Token objects by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/385
Fixed provenance for the size tokens by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/370
Remove __eq__ and __hash__ from Location by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/389
Refactor the Location class hierarchy by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/390
Fixed asyncio.Event synchronizations when an exception occurs by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/395
Fixed input ports of DotProductSizeTransformer by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/396
Fixed wrapped connector calls for QueueManagerConnector classes by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/403
Fix ListMergeCombinator port names by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/407
Update MacOS X CI/CD pipeline by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/408
Fixed glob on symbolic link path by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/417
Removed scheduling_policy attribute in Target class by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/421
Removed scheduling_groups attribute by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/422
Changed retrieval of location hardware in the SSHConnector class by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/424
Refactor test_scheduler by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/425
Fixed ValueFromTransformer by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/446
Fixed scheduler timeout in Python<3.11 by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/449

Dependencies

Bump actions/setup-node from 3 to 4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/263
Bump actions/setup-python from 4 to 5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/306
Bump actions/upload-artifact from 3 to 4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/318
Bump aiohttp from 3.8.6 to 3.9.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/283
Bump aiohttp from 3.9.0 to 3.9.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/296
Bump aiohttp from 3.9.1 to 3.9.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/364
Bump aiohttp from 3.9.2 to 3.9.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/367
Bump aiohttp from 3.9.3 to 3.9.4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/429
Bump aiohttp from 3.9.4 to 3.9.5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/431
Bump aiosqlite from 0.19.0 to 0.20.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/388
Bump asyncssh from 2.14.0 to 2.14.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/277
Bump asyncssh from 2.14.1 to 2.14.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/322
Bump bandit from 1.7.5 to 1.7.6 by @dependabot in https://github.com/alpha-unito/streamflow/pull/313
Bump bandit from 1.7.6 to 1.7.7 by @dependabot in https://github.com/alpha-unito/streamflow/pull/360
Bump bandit from 1.7.7 to 1.7.8 by @dependabot in https://github.com/alpha-unito/streamflow/pull/405
Bump bcrypt from 4.0.1 to 4.1.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/299
Bump bcrypt from 4.1.1 to 4.1.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/320
Bump bcrypt from 4.1.2 to 4.1.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/448
Bump black from 23.9.1 to 23.10.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/260
Bump black from 23.10.0 to 23.10.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/264
Bump black from 23.10.1 to 23.11.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/275
Bump black from 23.11.0 to 23.12.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/315
Bump black from 23.12.0 to 23.12.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/335
Bump black from 23.12.1 to 24.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/362
Bump black from 24.1.0 to 24.1.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/366
Bump black from 24.1.1 to 24.2.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/381
Bump black from 24.2.0 to 24.3.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/413
Bump black from 24.3.0 to 24.4.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/430
Bump black from 24.4.0 to 24.4.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/439
Bump black from 24.4.1 to 24.4.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/440
Bump cachetools from 5.3.1 to 5.3.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/265
Bump cachetools from 5.3.2 to 5.3.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/394
Bump codecov/codecov-action from 3 to 4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/369
Bump cwltest from 2.3.20230825125225 to 2.4.20231031143732 by @dependabot in https://github.com/alpha-unito/streamflow/pull/273
Bump cwltest from 2.4.20231031143732 to 2.4.20231222081524 by @dependabot in https://github.com/alpha-unito/streamflow/pull/344
Bump cwltest from 2.4.20231222081524 to 2.4.20240129145612 by @dependabot in https://github.com/alpha-unito/streamflow/pull/368
Bump cwltest from 2.4.20240129145612 to 2.5.20240304113812 by @dependabot in https://github.com/alpha-unito/streamflow/pull/398
Bump cwltest from 2.5.20240304113812 to 2.5.20240425111257 by @dependabot in https://github.com/alpha-unito/streamflow/pull/438
Bump cwltool from 3.1.20230906142556 to 3.1.20231016170136 by @dependabot in https://github.com/alpha-unito/streamflow/pull/259
Bump cwltool from 3.1.20231016170136 to 3.1.20231020140205 by @dependabot in https://github.com/alpha-unito/streamflow/pull/262
Bump cwltool from 3.1.20231020140205 to 3.1.20231114134824 by @dependabot in https://github.com/alpha-unito/streamflow/pull/281
Bump cwltool from 3.1.20231114134824 to 3.1.20231207110929 by @dependabot in https://github.com/alpha-unito/streamflow/pull/307
Bump cwltool from 3.1.20231207110929 to 3.1.20240112164112 by @dependabot in https://github.com/alpha-unito/streamflow/pull/350
Bump cwltool from 3.1.20240112164112 to 3.1.20240404144621 by @dependabot in https://github.com/alpha-unito/streamflow/pull/427
Bump cwl-utils from 0.29 to 0.30 by @dependabot in https://github.com/alpha-unito/streamflow/pull/271
Bump cwl-utils from 0.30 to 0.31 by @dependabot in https://github.com/alpha-unito/streamflow/pull/279
Bump cwl-utils from 0.31 to 0.32 by @dependabot in https://github.com/alpha-unito/streamflow/pull/302
Bump cwl-utils from 0.32 to 0.33 by @dependabot in https://github.com/alpha-unito/streamflow/pull/426
Bump flake8-bugbear from 23.9.16 to 23.11.26 by @dependabot in https://github.com/alpha-unito/streamflow/pull/297
Bump flake8-bugbear from 23.11.26 to 23.11.28 by @dependabot in https://github.com/alpha-unito/streamflow/pull/300
Bump flake8-bugbear from 23.11.28 to 23.12.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/304
Bump flake8-bugbear from 23.12.2 to 24.1.17 by @dependabot in https://github.com/alpha-unito/streamflow/pull/353
Bump flake8-bugbear from 24.1.17 to 24.2.6 by @dependabot in https://github.com/alpha-unito/streamflow/pull/372
Bump flake8-bugbear from 24.2.6 to 24.4.21 by @dependabot in https://github.com/alpha-unito/streamflow/pull/436
Bump flake8-bugbear from 24.4.21 to 24.4.26 by @dependabot in https://github.com/alpha-unito/streamflow/pull/442
Bump github/codeql-action from 2 to 3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/316
Bump helm/kind-action from 1.8.0 to 1.9.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/377
Bump helm/kind-action from 1.9.0 to 1.10.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/437
Bump importlib-metadata from 6.8.0 to 7.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/305
Bump importlib-metadata from 7.0.0 to 7.0.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/334
Bump importlib-metadata from 7.0.1 to 7.0.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/402
Bump importlib-metadata from 7.0.2 to 7.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/416
Bump importlib-resources from 6.1.1 to 6.1.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/391
Bump importlib-resources from 6.1.2 to 6.1.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/401
Bump importlib-resources from 6.1.3 to 6.3.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/412
Bump importlib-resources from 6.3.2 to 6.4.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/414
Bump jinja2 from 3.1.2 to 3.1.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/347
Bump jinja2 from 3.1.3 to 3.1.4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/447
Bump jsonschema from 4.19.1 to 4.19.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/270
Bump jsonschema from 4.19.2 to 4.20.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/282
Bump jsonschema from 4.20.0 to 4.21.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/352
Bump jsonschema from 4.21.0 to 4.21.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/358
Bump jsonschema from 4.21.1 to 4.22.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/444
Bump kubernetes-asyncio from 28.2.0 to 28.2.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/284
Bump kubernetes-asyncio from 28.2.1 to 29.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/355
Bump mukunku/tag-exists-action from 1.4.0 to 1.5.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/317
Bump mukunku/tag-exists-action from 1.5.0 to 1.6.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/371
Bump pandas from 2.1.1 to 2.1.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/269
Bump pandas from 2.1.2 to 2.1.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/280
Bump pandas from 2.1.3 to 2.1.4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/312
Bump pandas from 2.1.4 to 2.2.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/357
Bump pandas from 2.2.0 to 2.2.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/392
Bump pandas from 2.2.1 to 2.2.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/428
Bump plotly from 5.17.0 to 5.18.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/267
Bump plotly from 5.18.0 to 5.19.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/384
Bump plotly from 5.19.0 to 5.20.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/415
Bump plotly from 5.20.0 to 5.21.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/434
Bump plotly from 5.21.0 to 5.22.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/445
Bump psutil from 5.9.5 to 5.9.6 by @dependabot in https://github.com/alpha-unito/streamflow/pull/258
Bump psutil from 5.9.6 to 5.9.7 by @dependabot in https://github.com/alpha-unito/streamflow/pull/321
Bump psutil from 5.9.7 to 5.9.8 by @dependabot in https://github.com/alpha-unito/streamflow/pull/359
Bump pytest from 7.4.2 to 7.4.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/266
Bump pytest from 7.4.3 to 7.4.4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/341
Bump pytest from 7.4.4 to 8.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/365
Bump pytest from 8.0.0 to 8.0.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/387
Bump pytest from 8.0.1 to 8.0.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/393
Bump pytest from 8.0.2 to 8.1.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/406
Bump pytest-cov from 4.1.0 to 5.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/419
Bump pytest-xdist from 3.3.1 to 3.4.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/278
Bump pytest-xdist from 3.4.0 to 3.5.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/285
Bump pytest-xdist from 3.5.0 to 3.6.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/441
Bump pyupgrade from 3.14.0 to 3.15.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/257
Bump pyupgrade from 3.15.0 to 3.15.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/386
Bump pyupgrade from 3.15.1 to 3.15.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/420
Bump rdflib from 6.3.2 to 7.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/193
Bump sphinx from 7.2.6 to 7.3.7 by @dependabot in https://github.com/alpha-unito/streamflow/pull/435
Bump sphinx-rtd-theme from 1.3.0 to 2.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/298
Bump yattag from 1.15.1 to 1.15.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/268

Full Changelog: https://github.com/alpha-unito/streamflow/compare/0.2.0.dev10...0.2.0.dev11

- Python
Published by github-actions[bot] about 2 years ago

streamflow - 0.2.0.dev10

What's Changed

Added parameter to choose the deployments to use in pytests by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/232
Fix getexisting_parent behaviour by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/253

Dependencies

Bump aiohttp from 3.8.5 to 3.8.6 by @dependabot in https://github.com/alpha-unito/streamflow/pull/255
Bump asyncssh from 2.13.2 to 2.14.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/250
Bump black from 23.7.0 to 23.9.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/233
Bump codespell from 2.2.5 to 2.2.6 by @dependabot in https://github.com/alpha-unito/streamflow/pull/252
Bump docker/build-push-action from 4 to 5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/237
Bump docker/login-action from 2 to 3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/235
Bump docker/setup-buildx-action from 2 to 3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/236
Bump docker/setup-qemu-action from 2 to 3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/234
Bump flake8-bugbear from 23.7.10 to 23.9.16 by @dependabot in https://github.com/alpha-unito/streamflow/pull/239
Bump jsonschema from 4.19.0 to 4.19.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/244
Bump kubernetes-asyncio from 25.11.0 to 26.9.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/247
Bump kubernetes-asyncio from 26.9.0 to 27.6.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/249
Bump kubernetes-asyncio from 27.6.0 to 28.2.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/254
Bump mukunku/tag-exists-action from 1.3.0 to 1.4.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/242
Bump pandas from 2.1.0 to 2.1.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/245
Bump plotly from 5.16.1 to 5.17.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/240
Bump pyupgrade from 3.10.1 to 3.12.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/246
Bump pyupgrade from 3.12.0 to 3.13.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/248
Bump pyupgrade from 3.13.0 to 3.14.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/251
Bump sphinx from 7.2.5 to 7.2.6 by @dependabot in https://github.com/alpha-unito/streamflow/pull/238

Full Changelog: https://github.com/alpha-unito/streamflow/compare/0.2.0.dev9...0.2.0.dev10

- Python
Published by github-actions[bot] over 2 years ago

streamflow - 0.2.0.dev9

What's Changed

Connector and CWL Runner fixes by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/216
Fix Python dependencies conflict in Mac OS CI by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/214
Fix template_map error when service has no file by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/223
Fix scheduler behaviour when retry_delay is set by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/224
Fix potential race condition on sqlite row_factory by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/225
Add configurable time option in HPC connectors by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/227
Fix Flux Docker version to 0.28.0 by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/230
Update CWL v1.2 conformance tests by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/231
Avoid opening too many SSH sessions by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/229

Dependencies

Bump actions/checkout from 3 to 4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/221
Bump antlr4-python3-runtime from 4.13.0 to 4.13.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/222
Bump cwltool from 3.1.20230719185429 to 3.1.20230906142556 by @dependabot in https://github.com/alpha-unito/streamflow/pull/226
Bump cwl-utils from 0.28 to 0.29 by @dependabot in https://github.com/alpha-unito/streamflow/pull/220
Bump pandas from 2.0.3 to 2.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/217
Bump pytest from 7.4.0 to 7.4.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/219
Bump pytest from 7.4.1 to 7.4.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/228
Bump sphinx from 7.2.3 to 7.2.4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/215
Bump sphinx from 7.2.4 to 7.2.5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/218

Full Changelog: https://github.com/alpha-unito/streamflow/compare/0.2.0.dev8...0.2.0.dev9

- Python
Published by github-actions[bot] almost 3 years ago

streamflow - 0.2.0.dev8

What's Changed

Updated MacOS CI in GitHub Actions by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/204
Change jsonschema loader by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/205
Enable distributed inheritance for plugins by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/208
Fix Flux and Mac OS CI steps by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/209
Adjust JSONSchema ids by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/211
Update docs to v0.2.0 by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/213

Dependencies

Bump cwltest from 2.3.20230527113600 to 2.3.20230825125225 by @dependabot in https://github.com/alpha-unito/streamflow/pull/212
Bump jsonschema from 4.18.6 to 4.19.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/197
Bump kubernetes-asyncio from 24.2.3 to 25.11.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/206
Bump mukunku/tag-exists-action from 1.2.0 to 1.3.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/198
Bump plotly from 5.15.0 to 5.16.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/199
Bump plotly from 5.16.0 to 5.16.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/201
Bump sphinx from 7.1.2 to 7.2.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/203
Bump sphinx from 7.2.2 to 7.2.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/210
Bump sphinx-rtd-theme from 1.2.2 to 1.3.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/207

Full Changelog: https://github.com/alpha-unito/streamflow/compare/0.2.0.dev7...0.2.0.dev8

- Python
Published by github-actions[bot] almost 3 years ago

streamflow - 0.2.0.dev7

What's Changed

Updated CWL v1.2 conformance tests by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/168
Added type definitions to ext CLI by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/180
Migrated JSONSchema to Draft 2019-09 by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/185
Fixed type checking in conftest by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/195
Moved black configuration to pyproject.toml by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/196

Dependencies

Bump aiohttp from 3.8.4 to 3.8.5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/187
Bump asyncssh from 2.13.1 to 2.13.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/170
Bump black from 23.3.0 to 23.7.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/178
Bump codespell from 2.2.4 to 2.2.5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/165
Bump cwltool from 3.1.20230601100705 to 3.1.20230624081518 by @dependabot in https://github.com/alpha-unito/streamflow/pull/172
Bump cwltool from 3.1.20230624081518 to 3.1.20230719185429 by @dependabot in https://github.com/alpha-unito/streamflow/pull/189
Bump flake8-bugbear from 23.6.5 to 23.7.10 by @dependabot in https://github.com/alpha-unito/streamflow/pull/179
Bump importlib-metadata from 6.6.0 to 6.7.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/167
Bump importlib-metadata from 6.7.0 to 6.8.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/177
Bump jsonschema from 4.17.3 to 4.18.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/175
Bump jsonschema from 4.18.0 to 4.18.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/184
Bump jsonschema from 4.18.3 to 4.18.4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/186
Bump jsonschema from 4.18.4 to 4.18.6 by @dependabot in https://github.com/alpha-unito/streamflow/pull/194
Bump pandas from 2.0.2 to 2.0.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/173
Bump pytest from 7.3.2 to 7.4.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/171
Bump pytest-asyncio from 0.21.0 to 0.21.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/182
Bump pyupgrade from 3.6.0 to 3.7.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/166
Bump pyupgrade from 3.7.0 to 3.8.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/174
Bump pyupgrade from 3.8.0 to 3.9.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/176
Bump pyupgrade from 3.9.0 to 3.10.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/191
Bump sphinx from 7.0.1 to 7.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/188
Bump sphinx from 7.1.0 to 7.1.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/190
Bump sphinx from 7.1.1 to 7.1.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/192

Full Changelog: https://github.com/alpha-unito/streamflow/compare/0.2.0.dev6...0.2.0.dev7

- Python
Published by github-actions[bot] almost 3 years ago

streamflow - 0.2.0.dev6

- Python
Published by github-actions[bot] about 3 years ago

streamflow - 0.2.0.dev5

What's Changed

Fix InitialWorkDirRequirement with subdirs by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/118
Improved StreamFlow provenance support by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/122
Improved CLI for plugin inspection by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/130
Added package and version to plugin description by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/134

Dependencies

Bump aiosqlite from 0.18.0 to 0.19.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/115
Bump cwltool from 3.1.20230325110543 to 3.1.20230425144158 by @dependabot in https://github.com/alpha-unito/streamflow/pull/129
Bump cwl-utils from 0.23 to 0.24 by @dependabot in https://github.com/alpha-unito/streamflow/pull/114
Bump cwl-utils from 0.24 to 0.25 by @dependabot in https://github.com/alpha-unito/streamflow/pull/133
Bump importlib-metadata from 6.3.0 to 6.5.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/119
Bump importlib-metadata from 6.5.0 to 6.6.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/124
Bump kubernetes-asyncio from 24.2.2 to 24.2.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/132
Bump pandas from 2.0.0 to 2.0.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/125
Bump psutil from 5.9.4 to 5.9.5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/120
Bump pytest from 7.3.0 to 7.3.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/117
Bump pyupgrade from 3.3.1 to 3.3.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/128
Bump sphinx from 6.1.3 to 6.2.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/123
Bump sphinx from 6.2.0 to 6.2.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/126
Bump sphinx from 6.2.1 to 7.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/131

Full Changelog: https://github.com/alpha-unito/streamflow/compare/0.2.0.dev4...0.2.0.dev5

- Python
Published by github-actions[bot] about 3 years ago

streamflow - 0.1.6

What's Changed

Updated JS imports from cwltool by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/121

Full Changelog: https://github.com/alpha-unito/streamflow/compare/0.1.5...0.1.6

- Python
Published by github-actions[bot] about 3 years ago

streamflow - 0.2.0.dev4

What's Changed

Fix StreamFlow MPI example by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/95
Added explicit version check for DockerCompose by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/96
Updated and fixed StreamFlow Dockerfile by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/97
Fixed Docker and Helm features by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/109
Added flux framework connector by @vsoch in https://github.com/alpha-unito/streamflow/pull/107
Added configurable DockerRequirement conversion by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/111

Dependencies

Bump black from 23.1.0 to 23.3.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/105
Bump cwltool from 3.1.20230302145532 to 3.1.20230325110543 by @dependabot in https://github.com/alpha-unito/streamflow/pull/103
Bump flake8-bugbear from 23.2.13 to 23.3.12 by @dependabot in https://github.com/alpha-unito/streamflow/pull/91
Bump flake8-bugbear from 23.3.12 to 23.3.23 by @dependabot in https://github.com/alpha-unito/streamflow/pull/102
Bump importlib-metadata from 6.0.0 to 6.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/100
Bump importlib-metadata from 6.1.0 to 6.3.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/112
Bump pandas from 1.5.2 to 1.5.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/92
Bump pandas from 1.5.3 to 2.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/108
Bump plotly from 5.11.0 to 5.13.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/93
Bump plotly from 5.13.1 to 5.14.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/106
Bump plotly from 5.14.0 to 5.14.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/110
Bump pytest from 7.2.2 to 7.3.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/113
Bump pytest-asyncio from 0.20.3 to 0.21.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/101
Bump pytest-xdist from 3.2.0 to 3.2.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/90
Bump rdflib from 6.2.0 to 6.3.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/104

New Contributors

@vsoch made their first contribution in https://github.com/alpha-unito/streamflow/pull/107

Full Changelog: https://github.com/alpha-unito/streamflow/compare/0.2.0.dev3...0.2.0.dev4

- Python
Published by github-actions[bot] about 3 years ago

streamflow - 0.2.0.dev3

What's Changed

Colored output for Streamflow Run by @paoloviviani in https://github.com/alpha-unito/streamflow/pull/17
Changed test pipeline by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/33
Prepend isEnabledFor to logger calls by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/37
Added regression test scheduler by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/39
Code reformat with pyupgrade by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/40
Workflow Run RO-Crate support by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/45
Added extension points to StreamFlowPlugin by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/46
Revised setup.py classifiers by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/49
Fix scheduler validation path by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/50
Better job naming strategy for CWL by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/51
Fixed cwl-runner entrypoint with no workflows entry by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/52
Added nested files to main entity by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/53
Avoid Sqlite race conditions during tests by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/57
Added no regression tests for persistence by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/56
Use JSON format for PBS output by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/63
Moving aiotarstream to the deployment module by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/64
Register job directories after creating them by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/65
Moving some logic from Translator to utils by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/66
Added persistence of Command class structure by @LanderOtto in https://github.com/alpha-unito/streamflow/pull/74
Fixed MacOS compatibility by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/77
Stricter type checking for CWL outputs by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/70
Fix CWL map processors behaviour by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/81
Added support for nested connectors by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/86
Migrate from setup.py to pyproject.toml by @GlassOfWhiskey in https://github.com/alpha-unito/streamflow/pull/89

Dependencies

Bump actions/checkout from 2 to 3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/29
Bump actions/setup-node from 2 to 3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/22
Bump actions/setup-python from 2 to 4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/20
Bump actions/upload-artifact from 2 to 3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/36
Bump aiohttp from 3.8.3 to 3.8.4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/72
Bump antlr4-python3-runtime from 4.10 to 4.11.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/23
Bump antlr4-python3-runtime from 4.11.1 to 4.12.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/76
Bump asyncssh from 2.13.0 to 2.13.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/75
Bump bandit from 1.7.4 to 1.7.5 by @dependabot in https://github.com/alpha-unito/streamflow/pull/85
Bump black from 22.12.0 to 23.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/60
Bump cachetools from 5.2.0 to 5.2.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/35
Bump cachetools from 5.2.1 to 5.3.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/47
Bump codespell from 2.2.2 to 2.2.4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/84
Bump cwltool from 3.1.20221008225030 to 3.1.20221201130942 by @dependabot in https://github.com/alpha-unito/streamflow/pull/25
Bump cwltool from 3.1.20221201130942 to 3.1.20230127121939 by @dependabot in https://github.com/alpha-unito/streamflow/pull/55
Bump cwltool from 3.1.20230127121939 to 3.1.20230201224320 by @dependabot in https://github.com/alpha-unito/streamflow/pull/61
Bump cwltool from 3.1.20230201224320 to 3.1.20230209161050 by @dependabot in https://github.com/alpha-unito/streamflow/pull/69
Bump cwltool from 3.1.20230209161050 to 3.1.20230213100550 by @dependabot in https://github.com/alpha-unito/streamflow/pull/71
Bump cwltool from 3.1.20230213100550 to 3.1.20230302145532 by @dependabot in https://github.com/alpha-unito/streamflow/pull/79
Bump cwl-utils from 0.20 to 0.21 by @dependabot in https://github.com/alpha-unito/streamflow/pull/26
Bump cwl-utils from 0.21 to 0.22 by @dependabot in https://github.com/alpha-unito/streamflow/pull/54
Bump cwl-utils from 0.22 to 0.23 by @dependabot in https://github.com/alpha-unito/streamflow/pull/62
Bump docker/build-push-action from 2 to 3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/21
Bump docker/build-push-action from 3 to 4 by @dependabot in https://github.com/alpha-unito/streamflow/pull/59
Bump docker/login-action from 1 to 2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/19
Bump docker/setup-buildx-action from 1 to 2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/24
Bump docker/setup-qemu-action from 1 to 2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/28
Bump flake8-bugbear from 22.12.6 to 23.1.17 by @dependabot in https://github.com/alpha-unito/streamflow/pull/44
Bump flake8-bugbear from 23.1.17 to 23.1.20 by @dependabot in https://github.com/alpha-unito/streamflow/pull/48
Bump flake8-bugbear from 23.1.20 to 23.2.13 by @dependabot in https://github.com/alpha-unito/streamflow/pull/73
Bump importlib-metadata from 5.2.0 to 6.0.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/30
Bump jsonref from 1.0.1 to 1.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/43
Bump mukunku/tag-exists-action from 1.0.0 to 1.2.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/27
Bump pytest from 7.2.0 to 7.2.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/41
Bump pytest from 7.2.1 to 7.2.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/80
Bump pytest-xdist from 3.1.0 to 3.2.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/67
Bump sphinx from 6.0.0 to 6.1.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/31
Bump sphinx from 6.1.0 to 6.1.2 by @dependabot in https://github.com/alpha-unito/streamflow/pull/34
Bump sphinx from 6.1.2 to 6.1.3 by @dependabot in https://github.com/alpha-unito/streamflow/pull/38
Bump sphinx-rtd-theme from 1.1.1 to 1.2.0 by @dependabot in https://github.com/alpha-unito/streamflow/pull/68
Bump yattag from 1.15.0 to 1.15.1 by @dependabot in https://github.com/alpha-unito/streamflow/pull/78

New Contributors

@paoloviviani made their first contribution in https://github.com/alpha-unito/streamflow/pull/17
@LanderOtto made their first contribution in https://github.com/alpha-unito/streamflow/pull/39

Full Changelog: https://github.com/alpha-unito/streamflow/compare/0.2.0.dev2...0.2.0.dev3

- Python
Published by github-actions[bot] over 3 years ago