- The software uses the regex:
r'^(\S+)\t(\S+)\tCDS\t(\d+)\t+(\d+)\t+(\S+)\t+(\S+)\t+(\S+)\t+.*Parent=([\s\S]+?);'andr'^(\S+)\t(\S+)\tCDS\t(\d+)\t+(\d+)\t+(\S+)\t+(\S+)\t+(\S+)\t+.*Parent=([\S\s]+?)$'to parse the CDS feature lines in the gff file. - The software uses the regex:
r'^(\S+)\t(\S+)\t\S+\t(\d+)\t+(\d+)\t+(\S+)\t+(\S+)\t+(\S+)\t+.*ID=([\s\S]+?);Parent=([\s\S]+?);'andr'^(\S+)\t(\S+)\t\S+\t(\d+)\t+(\d+)\t+(\S+)\t+(\S+)\t+(\S+)\t+.*ID=([\s\S]+?);Parent=([\s\S]+?)$'to parse the mRNA feature lines in the gff file.
The annotation quality of non-chromosome segments in GFF files is poor, and gffread fails to run. Delete the annotation lines of non-chromosome sequences in GFF files
