MOB-suite: Addition of MGE detection and minor bug fixes v3.1.0

MOB-suite v3.1.0 adds in a reporting of mobile genetic elements (MGE) based on the repetitive masking file comprised of IS/TN elements. It will report the blast HSP results combined with the molecule_type and primary MOB-cluster. This MGE report file will be created by default with MOB-recon and is optional with MOB-typer by specifying a report file.

This release also addresses several different issues:

MOB-recon and MOB-typer will now report out the original contig_id supplied in fasta files instead of converting spaces to "_" #99, #87 #85
MOB-recon has re-implemented the maximum contig size and plasmid size restrictions #101
MOB-recon has removed the -t flag as typer is always invoked #100
MOB-recon and MOB-typer will no longer restrict threads to 1 for tblastn searches #96 #104
Removed ETE3 lock file mechanism #93
Default argument values are now visible when using --help #91