Fix include build dir

[daklauss]

One of the current issues were the build files not covered by codecov #482. With this PR, these reports should be covered by using the fixes option within the .codecov.yaml option. This should map all build/src reports to src. Still not sure wether it actually works as intended tbh. As a sideeffect, i also fixed the PR #484. It was part of .codecov.yaml not beeing properly configured. Codecov report can be found here.

Changed the Generate Coverage Report step so it spams the whole coverage report to stdout. Used it for bugfixing. I would leave it like this but if someone has a different opinion about to much "meaningless" output it is not a big deal to change it back.

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
see 79 files with indirect coverage changes

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• ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.

[jbreue16]

Doesnt seem like its fixed, or am I missing something?
https://app.codecov.io/gh/cadet/cadet-core/tree/fix-coverage-report

[daklauss]

Doesnt seem like its fixed, or am I missing something? https://app.codecov.io/gh/cadet/cadet-core/tree/fix-coverage-report

Looked a bit within the coverage report by printing the coverage report additionally directly to stdout as auch can see here within the Generate Coverage Report step. gcovr does generate a report for the build files and it always has, but because it is not able to compare the files with the CADET-Core repository the codecovaction does not upload it to codecov as you can see within the Upload Coverage to Codecov step. It just throws warnings:

warning - 2025-09-30 09:46:58,363 -- xcrun is not installed or can't be found.
warning - 2025-09-30 09:46:58,396 -- Running gcov on the following list of files:
warning - 2025-09-30 09:46:58,396 -- /home/runner/work/CADET-Core/CADET-Core/build/ThirdParty/sundials/src/nvec_ser/CMakeFiles/sundials_nvecserial_static.dir/nvector_serial.c.gcno
.
.
.
warning - 2025-09-30 09:46:58,446 -- /home/runner/work/CADET-Core/CADET-Core/build/src/build-tools/templateCodeGen.ltrans8.ltrans.gcno
warning - 2025-09-30 09:46:58,446 -- /home/runner/work/CADET-Core/CADET-Core/build/src/build-tools/CMakeFiles/templateCodeGen.dir/templateCodeGen.cpp.gcno
warning - 2025-09-30 09:47:02,239 -- coverage.py is not installed or can't be found.

[jbreue16]

At this point I'd say we cannot get a meaningful by line coverage for the binding files since they simply dont exist as such under src (only without the templated code). So lets put an end to this here.
Ill merge this PR since this still fixes #484