PETSc reports ApPredict command line arguments as "unused options"

[RomanSyunyaev]

When running ApPredict with arguments (e.g. --ic50-herg, --hill-na, --model etc) the following warnings are printed at the end of execution:

WARNING! There are options you set that were not used!
WARNING! could be spelling mistake, etc!
Option left: name:--ic50-herg value: 0.574 source: command line

The arguments are correctly read and applied, since the output confirms the expected IC50/Hill values and model are used. The warnings come from PETSc, which flags any command options it doesn't use in the arguments.

Proposed solutions

1. Supress PETSc check by calling PetscCall(PetscOptionsSetValue(NULL, "-options_left", "no")); at startup.
2. Route ApPredict arguments through inbuilt PETSc methods to read the command-line arguments. This would resolve Invalid args are quietly ignored #2 simultaneously.
3. CallPetscOptionsClearValue(NULL, "-that_option")for each argument after Chaste's CommandLineArguments finished reading. Care is needed in this case since arguments can currently be readed more than once.