[maker-devel] Maker Repeat Masking model_org option with D

[Macguigan, Daniel]

Hello,


I have a straightforward question, but I can't seem to find the answer anywhere. Is it possible to specify a species/clade for Dfam masking using the model_org option in the *maker_opts.ctl file? The comment on this option says "select a model organism for RepBase masking in RepeatMasker."


As an example, I currently have RepeatMasker configured to use Dfam. It works fine when I run RepeatMasker on its own with a command like this.


RepeatMasker -gff -species Arthropoda -dir ./RMask_dir


However, when I specify "model_org=Arthropoda" in the maker_opts.ctl file, I get a message "ERROR: Could not determine if RepBase is installed"


I am using RepeatMasker v.4.1.1 and Maker v.3.01.03.


Thanks,

Dan


--
Dan MacGuigan, PhD
he-him-his
Postdoctoral Fellow
Department of Biological Sciences
University at Buffalo
@DMacGuig
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://yandell-lab.org/pipermail/maker-devel_yandell-lab.org/attachments/20211020/90eb2bd8/attachment-0002.html>