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You're right- that is not an allowed region_type. I've updated the seqspec schema so that seqspec check will validate region_type and sequence_type against a controlled vocabulary so the tool will now catch bugs like this.
And yes- your suggested change is the right one. I've updated the spec you've referenced in the repo. Thank you!
In the example specs there is a
region_type
calledlinker1
https://github.com/IGVF/seqspec/blob/0d408a38cec4e632f85a20bd95c26c56ad1ac1dc/specs/SHARE-seq/spec.yaml#LL457C1-L457C1
But it doesn't seem to be an allowed type https://github.com/IGVF/seqspec/blob/main/docs/SPECIFICATION.md
What is the correct
type
to use.Moreover,
region_type
has a number to it but I assume that that spec it is outdated and it should beregion_type: linker
andregion_id: linker-1
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