Move the code to collect MT copy number stats for MT report to the chanjo extension

[northwestwitch]

This PR adds a functionality or fixes a bug.

• Move chanjo-specific code to the chanjo extension instead of having it on the cases controllers - Simplify before addressing #4836

Testing on cg-vm1 server (Clinical Genomics Stockholm)

**Prepare for testing** 1. Make sure the PR is pushed and available on [Docker Hub](https://hub.docker.com/repository/docker/clinicalgenomics/scout-server-stage) 1. Fist book your testing time using the Pax software available at [https://pax.scilifelab.se/](https://pax.scilifelab.se). The resource you are going to call dibs on is `scout-stage` and the server is `cg-vm1`. 1. `ssh @cg-vm1.scilifelab.se` 1. `sudo -iu hiseq.clinical` 1. `ssh localhost` 1. (optional) Find out which scout branch is currently deployed on cg-vm1: `podman ps` 1. Stop the service with current deployed branch: `systemctl --user stop scout.target` 1. Start the scout service with the branch to test: `systemctl --user start scout@` 1. Make sure the branch is deployed: `systemctl --user status scout.target` 1. After testing is done, repeat procedure at [https://pax.scilifelab.se/](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 @hasta.scilifelab.se` 1. Book your testing time using the Pax software. `us; paxa -u -s hasta -r scout-stage`. You can also use the WSGI Pax app available at [https://pax.scilifelab.se/](https://pax.scilifelab.se). 1. (optional) Find out which scout branch is currently deployed on cg-vm1: `conda activate S_scout; pip freeze | grep scout-browser` 1. Deploy the branch to test: `bash /home/proj/production/servers/resources/hasta.scilifelab.se/update-tool-stage.sh -e S_scout -t scout -b ` 1. Make sure the branch is deployed: `us; scout --version` 1. 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. Deploy on stage and make sure that MT report is the same as before. Tip: use this case, which has chanjo data on the server

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

Review:

• [x] code approved by DN
• [x] tests executed by CR

[codecov[bot]]

Codecov Report

Attention: Patch coverage is 91.66667% with 2 lines in your changes missing coverage. Please review.

Project coverage is 84.21%. Comparing base (f59e50f) to head (67eaf47).

Files with missing lines	Patch %	Lines
scout/server/blueprints/cases/controllers.py	50.00%	1 Missing :warning:
scout/server/extensions/chanjo_extension.py	95.45%	1 Missing :warning:

Additional details and impacted files

```diff @@ Coverage Diff @@ ## main #4845 +/- ## ========================================== - Coverage 84.22% 84.21% -0.01% ========================================== Files 318 318 Lines 19250 19251 +1 ========================================== Hits 16213 16213 - Misses 3037 3038 +1 ```

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[sonarcloud[bot]]

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