Staramr

* Fix a bug so that the Sequence column in resfinder.tsv uses the isolate sequence instead of the reference sequence

* Added quality module that adds PASS/Fail column and detail information in Summary.tsv
* Added following new optional arguments for Search.py
- --genome-size-lower-bound
- --genome-size-upper-bound
- --minimum-N50-value
- --minimum-contig-length
- --unacceptable-number-contigs
* Add DNA column in Resfinder report

* Added --output-mlst in Search.py

* Added [coloredlogs](https://pypi.org/project/coloredlogs/) library to format the output
* Added support for [MLST](https://github.com/tseemann/mlst)

* Renamed the following columns for clarification:
- `Plasmid Genes` to `Plasmid` in Summary table.
- `Gene` to `Plasmid` in PlasmidFinder table.
- `Gene` to `Gene/Plasmid` in Detailed Summary table.

* Add support for scanning against the PlasmidFinder database.
* Upgraded the testing package to use [Green test runner](https://github.com/CleanCut/green).
* Added Detailed_Summary table which combines results from Resfinder, Pointfinder (optional), and Plasmidfinder.
* Added `--ignore-invalid-files` command and check for duplicate sequence ids.