Append offset to subpaths output by vg chunk -p #2506
Merged
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Handlifying context expansion meant losing path ranks. Proper support of subpaths is still pending: vgteam/libhandlegraph#29.
This PR hacks context expansion (but only activates in vg chunk) to append a suffix with the subpath offset for subpaths. If missing edges implied by paths are behind tube map crashes, as suspected in #2504, then this should be a fix.
Todo: should this be on by default (as opposed to just in chunk?) Is it worth supporting more generally, or should we just wait for a better API?