Update README.md

[aofarrel]

• Remove Travis CI shield
• Replace Docker command with a better one
• Remove non-functional Dockstore CLI instructions (I did some tinkering to see if I could get this to work but it seems the CWL is out of date, and it doesn't like the WDL either)

Would be willing to revert the deletion of of the Dockstore CLI stuff once the CWL is fixed.

[denis-yuen]

I may be missing context, is this used in our tutorials?
Gathering info to prioritize

[aofarrel]

Yes, this is the repo used in Getting Started with CWL and Getting Started with Nextflow. Due to the issues with this repo, I previously modified Getting Started with WDL to link to dockstore/bamstats-wdl instead. Ideally, we'd clean up this repo (which will take more than just a readme adjustment) and sunset dockstore/bamstats-wdl.

[denis-yuen]

Ok, created https://ucsc-cgl.atlassian.net/browse/SEAB-4500
Think it makes more sense to investigate if there is an issue with the CLI than remove if it is a part of the live tutorial

[coverbeck]

Was here, commenting so it doesn't show up in my review bucket (I think we should resolve the CLI issue that Denis points out first).

[amarjandu]

@aofarrel it looks like the version of CWL that the quay.io has is draft-3 and the cwl-runner that ds-cli uses dropped support for draft-3. 3672ac0 should have updated the versioning of the cwl file to be on v1.0.

When running this command it appears that I get the old version of the CWL file.

dockstore tool cwl --entry quay.io/collaboratory/dockstore-tool-bamstats:1.25:develop

Is there a way to update the version of the file, would we have to cut a new release on quay.io?

[denis-yuen]

Is there a way to update the version of the file, would we have to cut a new release on quay.io?

Yeah, that said. I think unless the build trigger has broken, cutting a new release on github should create a new tag on quay.io

[amarjandu]

@aofarrel I added a PR to fix the tutorial. #5

[denis-yuen]

Was here, commenting so it doesn't show up in my review bucket (I think we should resolve the CLI issue that Denis points out first).

ditto