Setup

Seen with latest code from git while preparing the 1.73 release on Linux, but applies to all platforms.

Expected behaviour

$ python run_tests.py test_PDB_StructureAlignment.py
Python version: 2.7.15 | packaged by conda-forge | (default, Jul 27 2018, 10:26:36) 
[GCC 4.8.2 20140120 (Red Hat 4.8.2-15)]
Operating system: posix linux2
test_PDB_StructureAlignment ... ok

You can get aligner to work on windows command line by inserting the following lines into aligner.ccp
after line 8: #include <queue>

#ifdef _WIN32
#include "getopt.h"
#endif

#include "edlib.h"

Then adding getopt.h file. The one I used is here: https://raw.githubusercontent.com/skandhurkat/Getopt-for-Visual-Studio/master/getopt.h although that's likely not the origin of the fi

We should enable a slightly-modified table output format that is gff or bed-like and can thus be more easily read into IGV

Code:

#include <seqan3/argument_parser/all.hpp>

int main(int argc, char ** argv)
{
    seqan3::argument_parser parser{"App", argc, argv, seqan3::update_notifications::off};

    parser.info.author = "Foo Bar";
    parser.info.email = "foobar@example.com";
    parser.info.short_copyright = "BSD 3-Clause License";

    try
    {
        parser.parse();
    }
    catch (seqan3