Error message when ran the updated get_alleles.py

Hi, When I ran the updated get_alleles.py to process a genome file, I encountered the following error message and the output file contains no content.

Error prompted in the terminal

Traceback (most recent call last):
  File "/fs03/kr58/jiahui/OmpK_type/getallelets/get_alleles.py", line 444, in <module>
    main()
  File "/fs03/kr58/jiahui/OmpK_type/getallelets/get_alleles.py", line 415, in main
    orthologs = list(get_alleles(
  File "/fs03/kr58/jiahui/OmpK_type/getallelets/get_alleles.py", line 357, in get_alleles
    for orf in extract_orfs(assembly, ref, verbose=verbose, **kwargs):
  File "/fs03/kr58/jiahui/OmpK_type/getallelets/get_alleles.py", line 343, in extract_orfs
    assembly.seq(a.ctg, new_ref_start, new_ref_end, a.strand))
  File "/fs03/kr58/jiahui/OmpK_type/getallelets/get_alleles.py", line 129, in seq
    return self.aligner.seq(ctg, start, end) if strand == 1 else mp.revcomp(self.aligner.seq(ctg, start, end))
  File "python/mappy.pyx", line 268, in mappy.revcomp
TypeError: object of type 'NoneType' has no len()

The following are the command line and the reference sequence file, as well as the inquiry files used.

Command line code used

python get_alleles.py /fs03/kr58/jiahui/OmpK_type/getallelets/ffn/ARE29922.1_OmpK35_gene_references.ffn /fs03/kr58/jiahui/assemblies_all_1300/KPEH351.fasta --all ompk35 -i 80 -c 60 -p > ompk35_alleles_KPEH351.tsv

Reference genome ARE29922.1_OmpK35_gene_references.ffn.txt

Inquiry genome KPEH351.fasta.txt

tomdstanton / GetAlleles

Error message when ran the updated get_alleles.py #5