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refSeqOrder preservation from input fasta file #925
In reference to previous closed issue #867 "Custom Sorting Reference Sequence" and open issue #919 "The refSeqOrder is not customisable", I propose a new parameter to prepare-refseqs.pl of "--unsorted" which will use the sequence order from the input FASTA file or gff file to control the order in the generated json output file. Currently the output is always alphabetically sorted. I have a pull request (#924) hopefully implementing this new feature (this is my first pull request so be gentle).
referenced this issue
Jan 25, 2018
working branch: https://github.com/GMOD/jbrowse/compare/refseqorder