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GenomeTools genome analysis system.
http://genometools.org
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gt ltrdigest: error: invalid HMM file #993

Open ZhijianZhou01 opened 2 years ago

ZhijianZhou01 commented 2 years ago

Problem description

When I use ltrdigest in gt, an error message called "invalid HMM file" appeared. I checked my HMM file (HMMER2.0 [2.3.2]). Does ltrdigest only support HMMER3.0? If I want to deal with HMMER2 files, which version of gt should I use？ Thanks!

Exact command line call triggering the problem

Example minimal input triggering the problem

What GenomeTools version are you reporting an issue for (as output by gt -version)?

The version of gt (GenomeTools) is 1.5.11.

Did you compile GenomeTools from source? If so, please state the make parameters used.

What operating system (e.g. Ubuntu, Mac OS X), OS version (e.g. 15.10, 10.11) and platform (e.g. x86_64) are you using?

System: Ubuntu16.04，64 bit.

satta commented 2 years ago

HMMER2 models should be auto-converted if you are running HMMER3 (i.e. if your hmmpress,hmmscan etc. are version 3). Can you share your model for me to reproduce the issue?