897 new add initialization method from flows for lct model 1

[lenaploetzke]

Changes and Information

Please briefly list the changes (main added features, changed items, or corrected bugs) made:

• added functionality to compute an initial vector for the LCT-SECIR model based on flows

If need be, add additional information and what the reviewer should look out for in particular:

-/-

Merge Request - Guideline Checklist

Please check our git workflow. Use the draft feature if the Pull Request is not yet ready to review.

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 (with and without OpenMP)
• 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
• (For ABM development) Checked benchmark results and ran and posted a local test above from before and after development to ensure performance is monitored.

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, code coverage and performance 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.)
• On merge, add 2-5 lines with the changes (main added features, changed items, or corrected bugs) to the merge-commit-message. This can be taken from the briefly-list-the-changes above (best case) or the separate commit messages (worst case).

Closes #897.

[codecov]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 96.27%. Comparing base (d439941) to head (0181407).

Additional details and impacted files

@@            Coverage Diff             @@
##             main    #1005      +/-   ##
==========================================
+ Coverage   96.24%   96.27%   +0.03%     
==========================================
  Files         127      128       +1     
  Lines       10886    10992     +106     
==========================================
+ Hits        10477    10583     +106     
  Misses        409      409              

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

[annawendler]

Looks really nice :)

I was thinking that initializer_subcompartments might be a more suitable name than initializer_flows as you are calculating initial values of the subcompartments for given flows.

[lenaploetzke]

I was thinking that initializer_subcompartments might be a more suitable name than initializer_flows as you are calculating initial values of the subcompartments for given flows.

I do not think that initializer_subcompartments is a better name, because e.g. the realistic initialization also initializes subcompartments. The naming should include that we are using flows for initialization.

[lenaploetzke]

The LCT model has been updated in the meantime, so small changes had to be made here