clodius aggregate bedgraph requires the same sorting order in .bedgraph and negspy's chromOrder/chromInfo

hi,
clodius requires the chromosomes in bedgraphs to be sorted the same way as in negspy's chromOrder/chromInfo. B/c of this requirement it's hard to use genomes with an arbitrary sorting order, b/c it's hard to resort bedgraphs in any order besides the lexicographic one. Would it be possible to change clodius to accept lexsorted bedgraphs and resort the aggregated data using the order from negspy?