New module: ANGSD/SOAPSNPCALIBRATION

[ASendellPrice]

This PR adds a new module, angsd/soapsnpcalibration, which runs SOAPsnp calibration via angsd. The module generates calibration files (counts/qual matrices) needed when performing genotype likelihood estimation using -GL 3 (soapSNP model).

This module was requested during review of module `angsd/dosaf' (PR #12359), as a prerequisite/companion step for SOAPsnp-based GL estimation.

PR checklist

Closes #12405

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[ASendellPrice]

@mashehu This PR is for the new module for performing the -GL 3 calibration step requested during PR #12406