"Use of unitialized value" errors during processing of 'hnh'

[JFWolters]

Hello,

I've run into an issue in which MFANNOT produces errors on certain sequences during processing of 'hnh'. It seems like something may be wrong with my hmmsearch.

During the execution of this command:
nice -19 /home/GLBRCORG/jwolters/packages/bin/hmmsearch --noali --max -E 0.0001 -o /home/GLBRCORG/jwolters/packages/Mfannot-master/examples/mfannot_test_20200117/temp/contig/contig1//hmmRes_endo/laglidadg /home/GLBRCORG/jwolters/packages/Mfannot-master/MFannot_data/models/HMM_models/id_by_gene/laglidadg.hmm /home/GLBRCORG/jwolters/packages/Mfannot-master/examples/mfannot_test_20200117/temp/contig/contig1/contig1.orf

The following error repeats many times:

Use of uninitialized value $char in concatenation (.) or string at (eval 82) line 496.
Use of uninitialized value $char in string ne at (eval 82) line 498.
substr outside of string at (eval 82) line 494.

While the following errors occur once following the others:

Use of uninitialized value $char in concatenation (.) or string at (eval 82) line 496.
Use of uninitialized value $char in string ne at (eval 82) line 498.
substr outside of string at (eval 82) line 500.
Use of uninitialized value in string eq at (eval 82) line 500.

I am using MFANNOT version 1.35. hmmsearch is using HMMER3.1b2.

For testing I've run MFANNOT on an example file as follows with all files attached.
mfannot -g 3 --d --T ~/packages/Mfannot-master/examples/mfannot_test_20200117/temp flattened_line_312.fasta >& mfannot_log

Due to a copy error on my file transfer system it appears the "contig" and "Contig" folders were merged in "temp". Sorry if that causes confusion.

Any assistance would be greatly appreciated.
mfannot_test_20200117.zip