fix develop nightly builds

[denis-yuen]

Description
This fixes dockstore-cli compatibility with dockstore 1.17 webservice.
Breakage was in large part due to the riskier cwlavro clean-up we had been putting off and to a lesser degree, regular dependency updates in our bom

Review Instructions
Check if nightly develop builds are back on track after merge

Issue
https://ucsc-cgl.atlassian.net/browse/SEAB-6808

Security
None

Please make sure that you've checked the following before submitting your pull request. Thanks!

• Check that you pass the basic style checks and unit tests by running ./mvnw clean install
• If this PR is for a user-facing feature, create and link a documentation ticket for this feature (usually in the same milestone as the linked issue). Style points if you create a documentation PR directly and link that instead.

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 69.97%. Comparing base (d290680) to head (9789fd1).
Report is 37 commits behind head on develop.

Additional details and impacted files

@@              Coverage Diff              @@
##             develop     #297      +/-   ##
=============================================
- Coverage      70.22%   69.97%   -0.25%     
+ Complexity      1068     1054      -14     
=============================================
  Files             47       47              
  Lines           6069     6069              
  Branches         801      801              
=============================================
- Hits            4262     4247      -15     
- Misses          1466     1475       +9     
- Partials         341      347       +6     

Flag	Coverage Δ
bitbuckettests	9.83% <0.00%> (ø)
confidentialtooltests	55.70% <100.00%> (-0.14%)	⬇️
confidentialworkflowtests	30.26% <100.00%> (+0.06%)	⬆️
nonconfidentialtests	32.29% <100.00%> (-0.10%)	⬇️
singularitytests	16.59% <50.00%> (ø)
unittests	8.35% <0.00%> (ø)

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🚨 Try these New Features:

• Flaky Tests Detection - Detect and resolve failed and flaky tests

[denis-yuen]

Oops, merge conflicted myself.

[sonarqubecloud]

Quality Gate passed

Issues
0 New issues
0 Accepted issues

Measures
0 Security Hotspots
100.0% Coverage on New Code
0.0% Duplication on New Code

See analysis details on SonarQube Cloud