Develop

See merge request !1

uploading the test data for the arabidopsis into the local directory; later should be downloaded as part of the pipeline

make sure the chromosome names are trimmed after the first whitespace (shouldn't be needed if upstream code is not changed)

simplify how the genome files are calculated and remove the sequence after the first whitespace for the chromosome names

added the forgotten calculation of absolute values for tab; uncommented reordering of the columns based on the external file

TAD and DIST definition should use absolute values when calculating differences between chromosome coordinates

TAD and DIST definitions should use absolute values when calculating differences between chromosome coordinates

TAD and DIST definition should use absolute values when calculating differences between chromosome coordinates

avoiding PLOT_CHR for now, commented output and call to plotting script; increased RE input reads from 250000 to 750000