feat: Transmissibility output

[MelReyCG]

This PR is after the #3247.

---

This PR aims to add a new component: the StencilOutput, that allow to add a CellToCellOutput task node in the xml to output ConnectionData (global id pairs, transmissibilities).

For now, by using the writeCSV="1" attribute, the CellToCellOutput will output this data in a CSV. Here is an exemple:

• XML excerpt

  <Solvers gravityVector="{0.0, 0.0, 0.0}">
    <SinglePhaseFVM
      name="singlePhaseFlowSolver"
      […]
    </SinglePhaseFVM>
  </Solvers>

  <Tasks>
    <CellToCellOutput
      name="stencilOutput"
      flowSolverName="singlePhaseFlowSolver"
      writeCSV="1"
      logLevel="1" />
  </Tasks>

  <Events maxTime="10.0">
    <SoloEvent
      name="stencilOutputEvent"
      targetCycle="1"
      target="/Tasks/stencilOutput" />
  </Events>

• First 10 lines of the generated HDF5

time [s] , A global id , B global id , AB transmissibility , BA transmissibility
       4 ,           0 ,        2715 , 7.55463e-18                          , -7.55463e-18                        
       4 ,           0 ,       47546 , 8.06167e-18                          , -8.06167e-18                        
       4 ,           0 ,      134459 , 6.63826e-18                          , -6.63826e-18                        
       4 ,           0 ,      165202 , 7.78139e-18                          , -7.78139e-18                        
       4 ,           1 ,        4642 , 1.83325e-17                          , -1.83325e-17                        
       4 ,           1 ,       53907 , 1.76737e-17                          , -1.76737e-17                        
       4 ,           1 ,      184341 , 1.81705e-17                          , -1.81705e-17                        
       4 ,           2 ,        5459 , 1.7414e-17                           , -1.7414e-17                         
       4 ,           2 ,       63907 , 1.86145e-17                          , -1.86145e-17                        
       4 ,           2 ,      177257 , 1.86145e-17                          , -1.86145e-17                        

(aligned here for readability)

[paveltomin]

not sure it makes much sense to print the same transmissibility value twice but it's ok, not a big deal

[karimifard]

Maybe it will be more useful to output two half-transmissibilities.

[paveltomin]

could you please check if all that will work for https://github.com/GEOS-DEV/GEOS/blob/develop/inputFiles/compositionalMultiphaseFlow/co2_hybrid_1d.xml ?
not sure hybrid discretization has the same things as TPFA

[dkachuma]

I suppose the key here is that fvManager.getFluxApproximation( m_solver->getDiscretizationName() ); might return null if the solver doesn't have a flux approximation. So I would add a validator (postProcessInput()) to the solverName field of this to ensure that the solver provided has the appropriate flux approximation.

[dkachuma]

I suppose the key here is that fvManager.getFluxApproximation( m_solver->getDiscretizationName() ); might return null if the solver doesn't have a flux approximation. So I would add a validator (postProcessInput()) to the solverName field of this to ensure that the solver provided has the appropriate flux approximation.

[CusiniM]

It seems that we are trying to only write a file for rank 0 but I don't see when you gather all stencil data there? This would only work for small cases....
In any case, why not using the timehistory and writing in a parallel format instead? @wrtobin opinions?

Besides debugging I don't really see why someone would want to write out transmissibilities.

[codecov]

Codecov Report

Attention: Patch coverage is 76.37795% with 60 lines in your changes missing coverage. Please review.

Project coverage is 56.00%. Comparing base (0cbc589) to head (9c93b4d).
Report is 75 commits behind head on develop.

Files with missing lines	Patch %	Lines
src/coreComponents/common/Units.hpp	14.58%	41 Missing ⚠️
...physicsSolvers/fluidFlow/StencilDataCollection.cpp	87.27%	14 Missing ⚠️
src/coreComponents/common/logger/Logger.hpp	0.00%	3 Missing ⚠️
...vers/multiphysics/CoupledReservoirAndWellsBase.hpp	0.00%	1 Missing ⚠️
.../unitTests/fluidFlowTests/testTransmissibility.cpp	98.48%	1 Missing ⚠️

Additional details and impacted files

@@             Coverage Diff             @@
##           develop    #3091      +/-   ##
===========================================
+ Coverage    55.91%   56.00%   +0.09%     
===========================================
  Files         1043     1046       +3     
  Lines        88934    89122     +188     
===========================================
+ Hits         49729    49915     +186     
- Misses       39205    39207       +2     

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[MelReyCG]

Just leaving a note here, no CI step is legitimately failing here. The CUDA builds were working but crash now because of a CI bug since I updated my branch.

[CusiniM]

This PR needs one more review.