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FromConfigRegionsAdapter

Auto-generated from the config schema in the source — see the config guide for concepts. Provided by the config plugin. View source.

Supplies an assembly's reference names and sizes inline in the config, with no sequence.

Example usage

Supplies refNames+sizes with no sequence, as the adapter of an assembly's sequence (a ReferenceSequenceTrack):

{
  type: 'ReferenceSequenceTrack',
  trackId: 'my_refseq',
  adapter: {
    type: 'FromConfigRegionsAdapter',
    features: [
      { uniqueId: 'ctgA', refName: 'ctgA', start: 0, end: 50000 },
      { uniqueId: 'ctgB', refName: 'ctgB', start: 0, end: 6079 },
    ],
  },
}

Config slots

Adapter slots go inside the track's adapter: "adapter": { "type": "FromConfigRegionsAdapter", ... }. FromConfigRegionsAdapter has no uri shorthand — give it the location slots below. Slot types (fileLocation, frozen, ...) are explained in the config slot types reference. Slots a base configuration contributes are listed here too, so this table is the whole surface.

SlotDescription
adapterId
string = ''		stable identifier used as the adapter cache key; avoids hashing the (potentially large) features array. optional — falls back to hash.
features
frozen = []		one entry per reference sequence, each with a uniqueId, refName, start: 0 and end set to that sequence's length. This is what defines the assembly's reference names and sizes; no bases are supplied, so base-level views are empty.

Retired keys

An older config may still write these. Each loads without an error, and jbrowse validate reports it as stale.

KeyOn load
featureClassignored