Fix #4884 - enable Gens balsamic button

[dnil]

This PR adds a functionality or fixes a bug.

Gens button enabled also on cancer individuals table (if gens integration is enabled).

Testing on cg-vm1 server (Clinical Genomics Stockholm)

Prepare for testing

1. Make sure the PR is pushed and available on Docker Hub
2. Fist book your testing time using the Pax software available at https://pax.scilifelab.se/. The resource you are going to call dibs on is scout-stage and the server is cg-vm1.
3. ssh <USER.NAME>@cg-vm1.scilifelab.se
4. sudo -iu hiseq.clinical
5. ssh localhost
6. (optional) Find out which scout branch is currently deployed on cg-vm1: podman ps
7. Stop the service with current deployed branch: systemctl --user stop scout.target
8. Start the scout service with the branch to test: systemctl --user start scout@<this_branch>
9. Make sure the branch is deployed: systemctl --user status scout.target
10. After testing is done, repeat procedure at https://pax.scilifelab.se/, which will release the allocated resource (scout-stage) to be used for testing by other users.

Testing on hasta server (Clinical Genomics Stockholm)

Prepare for testing

1. ssh <USER.NAME>@hasta.scilifelab.se
2. Book your testing time using the Pax software. us; paxa -u <user> -s hasta -r scout-stage. You can also use the WSGI Pax app available at https://pax.scilifelab.se/.
3. (optional) Find out which scout branch is currently deployed on cg-vm1: conda activate S_scout; pip freeze | grep scout-browser
4. Deploy the branch to test: bash /home/proj/production/servers/resources/hasta.scilifelab.se/update-tool-stage.sh -e S_scout -t scout -b <this_branch>
5. Make sure the branch is deployed: us; scout --version
6. After testing is done, repeat the paxa procedure, which will release the allocated resource (scout-stage) to be used for testing by other users.

How to test:

1. how to test it, possibly with real cases/data

Expected outcome:
The functionality should be working
Take a screenshot and attach or copy/paste the output.

Review:

• code approved by CR
• tests executed by DN

[sonarqubecloud]

Quality Gate passed

Issues
0 New issues
0 Accepted issues

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

See analysis details on SonarCloud

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 84.77%. Comparing base (c73ea6b) to head (1803a48).

Additional details and impacted files

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##             main    #4885   +/-   ##
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  Coverage   84.77%   84.77%           
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  Files         319      319           
  Lines       19296    19296           
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  Hits        16358    16358           
  Misses       2938     2938           

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[dnil]

❌ Before:
✅ After:

[dnil]

Ping @mathiasbio - its on stage now, enabled for all cancer track cases as well. Is that as intended?

[northwestwitch]

Nice fix! 💯

[northwestwitch]

👍🏻

[mathiasbio]

Sorry for the late reply! Looks like it's working 🙏 Thank you! I don't know how this implementation works, if it will display the button even if GENS results are not uploaded. But either way it should be fine. We're planning to make this release SOON! (I keep saying this but it is true) and if the button is showing and not leading anywhere in the interim time it should be fine!

[dnil]

Good, and quite agree. It will be nice when they are loaded, but reaching a "missing gens data" page in the meantime is no biggie.

There is an old issue on gens to allow api polling for case data. Feel free to work on/nudge that one if you would wish to have the buttons more adaptive.