settable pod5, samtools and modkit optimization parameters
- fix #4
- adds new runtime settable parameters for pod5, modkit and samtools that can be used to configure maximize resource usage—namely, cpu and mem
- the default values were taken from the existing ones, except for the threads, which is usually twice the existing one (this is safe)
- updated all workflows and processes by adding any new parameters to the end of the flow/process input
- updates the documentation with the new parameters