675 alternative computation of compartments in IDE model

[annawendler]

Changes

• In the simulation, we update the compartment sizes now using the flows calculated for the current time step.
• In the initialization, we compute the compartment sizes using the sum formula from the flows as before.
• The order of the member functions is changed to clarify which functions are used to compute the initial size of the compartments and which functions are used for later time steps.

Merge Request - GuideLine Checklist

• Check our git workflow before opening a Pull request/Merge request.
• Request a reviewer when your work is ready to review, before this please use the draft feature.

Checks by code author

• Every addressed issue is linked (use the "Closes #ISSUE" keyword below)
• New code adheres to coding guidelines
• No large data files have been added (files should in sum not exceed 100 KB, avoid PDFs, Word docs, etc.)
• Tests are added for new functionality and a local test run was successful
• Appropriate documentation for new functionality has been added (Doxygen in the code and Markdown files if necessary)
• Proper attention to licenses, especially no new third-party software with conflicting license has been added

Checks by code reviewer(s)

• Corresponding issue(s) is/are linked and addressed
• Code is clean of development artifacts (no deactivated or commented code lines, no debugging printouts, etc.)
• Appropriate unit tests have been added, CI passes and code coverage is acceptable (did not decrease)
• No large data files added in the whole history of commits(files should in sum not exceed 100 KB, avoid PDFs, Word docs, etc.)

Additional context

Please list additional information or things a reviewer should look out for.

Closes #675

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 96.35%. Comparing base (79158d1) to head (9d5af9f).
Report is 3 commits behind head on main.

❗ Current head 9d5af9f differs from pull request most recent head 6151dd0. Consider uploading reports for the commit 6151dd0 to get more accurate results

Additional details and impacted files

@@           Coverage Diff           @@
##             main     #702   +/-   ##
=======================================
  Coverage   96.34%   96.35%           
=======================================
  Files         129      129           
  Lines       10072    10087   +15     
=======================================
+ Hits         9704     9719   +15     
  Misses        368      368           

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

[lenaploetzke]

The pipeline currently failed only because of the lower patch coverage due to added lines. When PR #923 is merged, the code coverage will be at 100% also with the changes of this PR.

[mknaranja]

Thank you @lenaploetzke for these changes. I mostly have small suggestions (which however might change code lines in many occasions). Could you check them?