Genome is not getting masked after running RepaetMasker (Not getting any error after run)

[vinitamehlawat]

Hi

I am using repeatMasker to mask my de novo genome, and assembly is at scaffold level. When I ran the repeatmasker with following command : RepeatMasker -xsmall /path/genome.fa . I got only 2 files in outpur dir with name Genome.fa and another Genome.fa_batch-1.masked . I didn't got any other output. I also checked my masked genome but i got only 1st scffold in masked file which is also without masking.

(This how I load RepeatMasker on hpc server: Module load perl/5.36.0 RepeatMasker/4.0.7 gcc-11.2.1/SKYLAKEX/ncbi-rmblastn/2.11.0)

Could you please suggest me to slove this issue.

Thank you Vinita