Refiner: what is allowed in FASTA header lines?

Dfam-consortium / RepeatModeler

De-Novo Repeat Discovery Tool

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Refiner: what is allowed in FASTA header lines? #185

Open mcfrith opened 1 year ago

mcfrith commented 1 year ago

For Refiner in RepeatModeler-2.0.3: I assume that the FASTA header lines can contain anything I want, and it won't make any difference.

But when I happened to use headers line this: >aERV-int.8 chr8

I got this message: Could not parse identifier: chr8

I think this is either a code bug or a documentation bug.

rmhubley commented 1 year ago

You are correct this is a documentation issue. Refiner was designed as a internal component of RepeatModeler and hasn't received as much user-interface attention as the other programs. The FASTA description field is reserved for RepeatModeler use at this time. As Refiner is getting more attention we will work to remove this restriction in future releases.