Illegal division by zero at RepeatMasker-4.1.7/ProcessRepeats line 8002.

[usersHuangKun]

Hi,
I am using RepeatMasker-4.1.7-p1 to mask repeats in a genome. I parallelized the process by dividing the genome into different scaffolds and running RepeatMasker on each. While the program successfully produced outputs for other chromosomes, one chromosome only generated a *.fa.cat.gz file but failed to produce .masked, .gff, or .html files, which is confusing. Below is the output message (with some parts omitted):

identifying Simple Repeats in batch 2988 of 2993
identifying matches to Metazoa sequences in batch 2978 of 2993
identifying Simple Repeats in batch 2991 of 2993
identifying Simple Repeats in batch 2990 of 2993
identifying Simple Repeats in batch 2982 of 2993
identifying Simple Repeats in batch 2958 of 2993
identifying Simple Repeats in batch 2993 of 2993
identifying Simple Repeats in batch 2978 of 2993
identifying Simple Repeats in batch 2942 of 2993
identifying Simple Repeats in batch 2964 of 2993
identifying Simple Repeats in batch 2943 of 2993
identifying Simple Repeats in batch 2984 of 2993
identifying Simple Repeats in batch 2940 of 2993
processing output: 
cycle 1 ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
cycle 2 ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
Illegal division by zero at /opt/biosoft/RepeatMasker-4.1.7/ProcessRepeats line 8002.
cycle 3 .............................................................................................................................................................................................................................................................

Reproduction steps
RepeatMasker -pa 32 -e ncbi -species Metazoa -dir repeatMasker/ -gff -no_is seq_2.fasta

*Environment (please include as much of the following information as you can find out):

How did you install RepeatMasker?
Compiled from source

The output of RepeatMasker -v
RepeatMasker version 4.1.7-p1

Operating system and version. The output of and can be used to find this.uname -a``lsb_release -a
Linux 172.17.39.204 5.14.0-284.11.1.el9_2.x86_64 #1 SMP PREEMPT_DYNAMIC Tue May 9 17:09:15 UTC 2023 x86_64 x86_64 x86_64 GNU/Linux

Thanks in advance for your help!

Best Regards,
KHuang

[rmhubley]

Do you have the *.cat.gz file from this run that I could use to track this down?

[usersHuangKun]

I sincerely apologize for not responding to your message in a timely manner. My *.cat.gz file is 95 MB, but the allowed upload size is less than 25 MB. I used RepeatMasker version 4.1.5 and successfully obtained all the files. However, in RepeatMasker version 4.1.7-p1, only the *.cat.gz file was generated. I sincerely apologize, but I have encountered the same issue with more than one genome sequence.
seq_2.fasta.cat.part_a.gz
seq_2.fasta.cat.part_b.gz
seq_2.fasta.cat.part_c.gz
seq_2.fasta.cat.part_d.gz