Merging with gff3-capable fork of 2.2.0 version?

[mmokrejs]

Hi Nathan,

are you aware of this forked repo?

https://github.com/hotdogee/exonerate-gff3 which is an improved version of exonerate-2.2.0 with GFF3 format output support

Maybe you could unite the efforts.

Some patches and compile/install tricks can be inferred from the ebuild https://data.gpo.zugaina.org/science/sci-biology/exonerate-gff3 https://cgit.gentoo.org/proj/sci.git/tree/sci-biology/exonerate-gff3/files/exonerate-gff3-9999-asneeded.patch?id=d209b24ac3b9de78f7048fb76467c42bad604263 # well this patch chnages the part you commented out but

There is also an on-top utility https://github.com/lufuhao/ExonerateTransferAnnotation .

There is a similar utility https://cgit.gentoo.org/proj/sci.git/commit/sci-biology/ESTate/ESTate-0.5.ebuild?id=4c181b3959260dbe65d3801005b99f1a6e4db33c