Code cleanup (using namespace std)

[HomesGH]

Description

This PR deletes all using namespace std;. Therefore, std:: functions (e.g., string, array, map, ...) had to be declared explicitly.
Check the changes with the following bash commands:

Deleted in src:
git diff --word-diff=porcelain --word-diff-regex=. origin/master HEAD src | grep "^-" | grep -v "\-\-\-" | sort | uniq -c

Added in src:
git diff --word-diff=porcelain --word-diff-regex=. origin/master HEAD src | grep "^+" | grep -v "+++" | sort | uniq -c

Replace src with tools to get the same output for the tools folder. Omit it for changes in the whole project.

Most of the "weird" strings like ng, f or if (isnan arise from line 1258 in Simulation.cpp.

This PR also adds some static code analysis to prevent the usage of using namespace std; in the future.

Related Pull Requests

• Various fixes and update of ResultWriter #255

Resolved Issues

• using namespace std in the codebase #259

How Has This Been Tested?

Some check scripts where added which build the code with different options (but not combined). All runs succeeded.

Open issues:

• Static code analysis has to be enabled in GitHub Actions
• Some cmake options seem to be not working and are not provided by ccmake. E.g. FMM_FFT, QUICKSCHED (maybe set indirectly?) and WITH_PAPI
• using Log is used multiple times -> solved in discussion (see below)

[github-advanced-security]

CodeQL found more than 10 potential problems in the proposed changes. Check the Files changed tab for more details.

[amartyads]

Overall looks good to me, but the using Logger thing is again weird. Do we have bleedthrough of that too, or do we not need that in files where we already have #include utils/Logger.h"?

[FG-TUM]

I carefully approve but would like to have a second opinion before merging. @amartyads

[amartyads]

I also tentatively approve from my side