New commands

module to predict conserved modules in variable parts of a pangenome
context to find which gene families are conserved in the same genomic context than sequences of interest
all to run all possible analysis with PPanGGOLiN.
panmodule to run the panModule workflow

Bug fixes

improved pseudogene reading and gff/gbff parsing
fixed gff parser to cope with bakta gff files (reported in #66)
fixed gexf formatting in the rare case of having '&' in the 'product' field of gene annotations (reported in #61)
fixed rare crash happening when a partition has only 1 gene family ( see #64 )
fixed compilation issue with gcc 10.* and above (reported in #69 )

Allow to compute K=2 if forced by the user in partition or rarefaction(by default, K is still picked between 3 and 20). (see #65 )
removed R, rpy2 and genoPlot-R dependencies (#47 shall never be a problem anymore)
added a new bokeh dependency
remove spot --draw_hotspots and related options. To realize the same thing, use draw --spots once the spots have been computed.
added a --spots option to draw to have interactive figures for spots of interest, replacing the former figures drawn with R.
align can compare a set of sequences of interest to a pangenome, and draw related elements, but cannot compare a genome to a pangenome anymore