Semibin

* Add `SemiBin2` script
* Added naive ORF finder
* Add `--prodigal-output-faa` argument (113)
* Make command line arguments more flexible for --sequencing-type argument
* Argument checking is more exhaustive instead of exiting at first error
* Add `--quiet` argument
* Add `--compression` option
* Add `--tag-output` option
* Better `--help` (group required arguments separately)
* Make SemiBin.main.main2 callable with a list of arguments
* Add contig -> bin mapping table (123)

* Provide binning algorithm for assemblies from long read
* Add `--allow-missing-mmseqs2` flag to `check_install` subcommand
* Run Prodigal in multiple jobs without multiprocessing (106)
* Better command line arguments
* Better error checking

* Make `--training-type` argument optional

* Add self-supervised learning
* Fix output table to contain correct paths
* Accept `--epochs` as argument in the command line (previously it was
spelled `--epoches`

* Pretrained model from chicken caecum
* Output table with basic information on bins (including N50 & L50)
* When reclustering is used (default), output the unreclusted bins into a
directory called `output_prerecluster_bins`
* Added --verbose flag and silenced some of the output when it is not used
* Use coloredlogs (if package is available)

* Completely remove use of atomicwrites package