Add task to check and clean up fasta files before submitting them to allele caller

[Michal-Babins]

📌 Explain the Request
Fasta files entering the allele calling workflow need to only keep the original identifier and need to have no newline characters / spaces after the header or sequence.

[Michal-Babins]

I have added the task to clean the fastas and pass that to the allele calling task.

I have ran tests on the ont_training_cholera data set. I ran theiaprok on the input reads to have an assembly to use. Those runs can be found here

Tests ran against the stylo assemblies can be found here