🐛 Fix bugs introduced from tool refactor

Tool refactor broke with an improperly implemented pipefail. This fixes that and sets a default for required tool inputs for output type

What's Changed

• Update Production WF Docker Tables by @github-actions in #15
• 🔧 return pipefail by @dmiller15 in #16
• 🐛 fix hard filter by @migbro in #14
• ✏️ Added defaults by @migbro in #17

Full Changelog: v1.2.1...v1.2.2

📝 Ref Updates and minor bug fix

The locations for the protein hotspot files changes recently. This PR updates that. Also, a pipefail bug in the bcftools filter tool was found and addressed

What's Changed

• 🔧 Update ref pointers by @migbro in #13

Full Changelog: v1.2.0...v1.2.1

Introducing the Somatic Annotation Workflow

Somatic Annotation Workflow

This release adds the somatic annotation workflow to the repository. This workflow previously lived in the [somatic repo](Somatic Annotation Workflow). No functional updates were made to the workflow. Some small updates were made to the documentation and javascript styling.

What's Changed

• ✨ add somatic annot wf by @dmiller15 in #5
• 🤖 add docker tables by @dmiller15 in #6
• 🤖 new gha for submodule updating by @dmiller15 in #2
• 🐛 fix repo name by @dmiller15 in #9
• 🐛 fix github ref name by @dmiller15 in #10
• 🐛 add cross-repo secret token by @dmiller15 in #11
• 🐛 tumoronly is somatic by @dmiller15 in #12

New Contributors

• @dmiller15 made their first contribution in #5

Full Changelog: v1.1.0...v1.2.0

✨ Echtvar Update

Updates to use new version of Echtvar that

• Ports over Number in INFO field properly
• Ports over or overwrites Description properly

Also added default input and some minor cwl style improvements

What's Changed

• ✨ Echtvar Update by @migbro in #4

Full Changelog: v1.0.0...v1.1.0

🚀 Germline Prod Release

While default params are currently subject to change, the workflow as-is will produce production-quality results. Most changes included in this release revolved around:

• Removing old defaults
• Add documentation to create new proposed gnomAD input
• Updating documentation to reflect these changes

What's Changed

• 🚀 V1 Release by @migbro in #3

Full Changelog: v0.1.0...v1.0.0

🚀 Initial Release

Mostly a port over of existing tools and stat of work on germline annotation workflow. Will add more annotation workflows with subsequent releases.

What's Changed

• 🚀 Init repo by @migbro in #1

New Contributors

• @migbro made their first contribution in #1

Full Changelog: https://github.com/kids-first/kf-annotation-tools/commits/v0.1.0