5.5.0

Changelog

CWL

• Add podman support; and other fixes from recent cwltool #3799
• Add streaming feature for cwltoil #3694
• Warn users if a different cwltool version is installed #3686
• Turn on all Kubernetes CWL tests that are expected to work on Singularity #3720
• Fix CWL in toil docs jobstore usage #3728
• DOC: update versions of CWL support
• Allow filestore bypass #3652

Misc

• Numerous Type Hints. #3705 #3701 #3693 #3691 #3663 #3688 #3642 #3684 #3682 #3680 #3666 #3675
• Single source of truth for job state #3776
• Do not set default for statePollingWait #3774
• Use absolute local paths when exportFile/importFile do not detect a schema #3767
• Multi-zone balancing within regions for AWS autoscaling groups #3746
• Migrate cloud-config to ignition #3488
• 🎡 Wheel Of Issues 🎰 #3760
• Add back addBatchSystemFactory function #3754
• Redirect stderr to /dev/null of lsf conf queries #3751
• Set number of cores based on job.cores for OpenMP applications #3739
• Google jobstore batching #3740
• Locations of CLI option docs
• Add AWS provisioner storage system #3727
• Set cls.bucket #3726
• Stream vs dowload jobs #3722
• Update Toil's main python test version to 3.8. #3669
• Move Travis tests to Gitlab #3675

Bug Fixes

• Don't leak symlinks #3795
• Prevent exception from being raised when modifying dir permissions for clean up #3778
• Fix scontrol output parsing #3793
• Fix AttributeError #3742
• Workaround for S3 in us-east-1 #3710
• Time data format #3708
• Fix leader.py batch system std files prefix glob #3679

Thank you to our contributors: @mr-c, @adamnovak, @w-gao, @jonathanxu18, @Hexotical, @ionox0, @gmloose, @juanesarango, @mhpopescu, @mberacochea, @nikhil!