biocommons / biocommons.seqrepo

non-redundant, compressed, journalled, file-based storage for biological sequences
Apache License 2.0
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Support circular sequences #70

Open reece opened 5 years ago

reece commented 5 years ago

Seqrepo does not currently provide special support for circular sequences. It should.

The easier implementation is with a boolean that assumes the origin at interbase position 0. An alternative is to support arbitrary origin locations by storing the origin position. For linear sequences, the value is unset. All coordinate computations would need to be modified to circularly permute based on this origin.

reece commented 1 year ago

As discussed in #113, we won't support circular sequences as a schema property.

Instead, we will add support for callers to request that a sequence is interpreted as circular.. Possible features:

github-actions[bot] commented 1 year ago

This issue is stale because it has been open 30 days with no activity. Remove stale label or comment or this will be closed in 7 days.

github-actions[bot] commented 1 year ago

This issue was closed because it has been stalled for 7 days with no activity.

github-actions[bot] commented 8 months ago

This issue is stale because it has been open 90 days with no activity. Remove stale label or comment or this will be closed in 7 days.