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Program gff3_sort encountered an error.

Open wjx121 opened this issue 10 months ago • 0 comments

When I run “gff3_sort -g Cl.rename.FINAL.gff3 -og sorted.gff3”

INFO Checking GFF3 file (Cl.rename.FINAL.gff3)... INFO Reading gff3 file... INFO Sorting and printing out... Traceback (most recent call last): File "/Users/wjx/miniconda3/bin/gff3_sort", line 8, in sys.exit(script_main()) File "/Users/wjx/miniconda3/lib/python3.7/site-packages/gff3tool/bin/gff3_sort.py", line 437, in script_main main(args.gff_file, output=args.output_gff, isoform_sort=args.isoform_sort, sorting_order=sorting_order, logger=logger_stderr, reference=args.reference) File "/Users/wjx/miniconda3/lib/python3.7/site-packages/gff3tool/bin/gff3_sort.py", line 257, in main otherlines.extend(gff3.collect_descendants(grandchild)) File "/Users/wjx/miniconda3/lib/python3.7/site-packages/gff3tool/lib/gff3/gff3.py", line 172, in collect_descendants collected_list.extend(self.collect_descendants(child)) File "/Users/wjx/miniconda3/lib/python3.7/site-packages/gff3tool/lib/gff3/gff3.py", line 172, in collect_descendants collected_list.extend(self.collect_descendants(child)) File "/Users/wjx/miniconda3/lib/python3.7/site-packages/gff3tool/lib/gff3/gff3.py", line 172, in collect_descendants collected_list.extend(self.collect_descendants(child)) [Previous line repeated 993 more times] File "/Users/wjx/miniconda3/lib/python3.7/site-packages/gff3tool/lib/gff3/gff3.py", line 171, in collect_descendants collected_list.append(child) RecursionError: maximum recursion depth exceeded while calling a Python object

wjx121 avatar Aug 21 '23 11:08 wjx121