'VariantCallData' object has no attribute 'bad_read'

[sconlan]

I have an error that I can't seem to track down. Running straingr 1.3.3 (bwa 0.7.17) with something like:

straingr call refs_concat.fasta 1034_Staph_Mockcomm_5_acvrk.bam --hdf5-out 1034_Staph_Mockcomm_5_acvrk.out.hdf5 --summary 1034_Staph_Mockcomm_5_acvrk.out.tsv --tracks all`

errors with:

2024-02-28 17:23:46,908 - INFO:root:Loading reference refs_concat.fasta...
2024-02-28 17:23:46,934 - INFO:root:Reference length: 5300120
2024-02-28 17:23:46,942 - INFO:root:Start analyzing aligned reads...
Traceback (most recent call last):
  File "/data/conlans/mymamba/envs/strainge/bin/straingr", line 11, in <module>
    sys.exit(straingr_cli())
  File "/data/conlans/mymamba/envs/strainge/lib/python3.7/site-packages/strainge/cli/main.py", line 110, in __call__
    self.run(args)
  File "/data/conlans/mymamba/envs/strainge/lib/python3.7/site-packages/strainge/cli/registry.py", line 83, in run
    rc = subcommand_func(**args_dict)
  File "/data/conlans/mymamba/envs/strainge/lib/python3.7/site-packages/strainge/cli/straingr.py", line 468, in __call__
    call_data = caller.process(reference, sample_bam)
  File "/data/conlans/mymamba/envs/strainge/lib/python3.7/site-packages/strainge/variant_caller.py", line 992, in process
    self._assess_allele(call_data, scaffold, refpos, read)
  File "/data/conlans/mymamba/envs/strainge/lib/python3.7/site-packages/strainge/variant_caller.py", line 1080, in _assess_allele
    call_data.bad_read(scaffold, refpos)
AttributeError: 'VariantCallData' object has no attribute 'bad_read'

I've looked through the code and can't figure out where this bad_read attr is coming from. The only thing I'm doing differently from the tutorial is pointing --hdf5-out to a new hdf5 file instead of the per sample hdf5 files generated by straingst kmerize in an earlier stage of the readthedocs walkthrough, but I don't think that's it.