It is not possible to overwrite a parameter that is defined in AllCalculationMethods.pkml

[PavelBal]

OverwriteBlackBoxParameter.zip

Short version

In the attached project, there are four modules:

1. OriginalBrain: a minimal spatial structure with the "Brain" organ and the corresponding neighborhoods
2. OriginalBrain_overrideParam: same as 1, but the parameter Partition coefficient (interstitial/water) is overwritten by a constant
3. RenamePlasma: same as 1. but the container Plasma has been renamed.
4. RenamePlasma_overrideParam: as 3., but the parameter Partition coefficient (interstitial/water) is overwritten

Parameter OriginalBrain|Neighborhoods|Brain_int_Brain_cell|TestMolecule|Partition coefficient (interstitial/water) is a help parameter defined in AllCalculationMethods.pkml

      <HelpParameters>
        <KeyValue>
          <Parameter id="K-w01rtMKUGrdBV4WF2-Yg" name="Partition coefficient (interstitial/water)" icon="Parameter" persistable="0" isFixedValue="0" quantityType="Parameter" negativeValuesAllowed="1" formula="Interstitial partition coefficient method - Schmitt.PARAM_K_water_int_Schmitt" isDefault="1">
            <Info min="0" flag="52" seq="1" ref="0" bb="2" group="117" />
          </Parameter>
          <DescriptorCriteria operator="And">
            <DescriptorConditions>
              <MatchTagCondition tag="Neighborhood: Interstitial / Intracellular" />
            </DescriptorConditions>
          </DescriptorCriteria>
        </KeyValue>
      </HelpParameters>

When creating a simulation, the parameter is automatically added:

I try to overwrite this parameter by manually creating it in the neighborhood and setting it to a constant value (the use case would be when altering the structure, e.g., renaming or fully removing the Plasma container):

In the simulation that uses this module, the parameter again uses the black box formula and not the value defined by the user:

The expected behavior would be that the help parameter is only added when it is not present in the original structure.