Fix Code Coverage workflow

[laceysanderson]

This PR fixes the code coverage workflow:

• update environment to Drupal 9.4.x and PHP 8.1
• Fix all syntax errors in the code (causes code coverage to fail as it crawls all files
• Fix deprecation notices caused by update of environment
• Add better configuration for code climate to ensure only pertinent files are included in the counts

You can access the code coverage here: https://codeclimate.com/github/tripal/t4d8

• The main page gives an overall summary which we clearly hope to improve.
• To see the actual code for the 9.4.x branch click on code near the top. This shows all files. Those with no badge under coverage are not being analyzed. Click on the Test Coverage header to get it to sort by coverage to see where we need to improve. You can also search by path.
• I believe this needs specific permissions or at least to be logged into code climate: click on repo settings near the top and then test coverage and scroll to the bottom to see the most recent reports. This gives you access for each branch.
• You can also check the test coverage github action and under the step where phpunit is run you will see the results of the code coverage as well :-)

[laceysanderson]

Note: This doesn't need to be reviewed as long as tests pass.