Creating XG from GFA takes a very long time for graphs whose IDs do not start at 1

[jeizenga]

I think the culprit is this line:
https://github.com/vgteam/xg/blob/master/src/xg.cpp#L591

[ekg]

Yes, that's why. This call will pad the id space. It needs to start at a low number and be mostly contiguous for this to work comfortably. There are many ways to fix this. A translation into the index space is one mechanism that would be quick to implement.

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On Wed, Jun 19, 2019, 22:03 Jordan Eizenga ***@***.***> wrote: I think the culprit is this line: https://github.com/vgteam/xg/blob/master/src/xg.cpp#L591 — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#2?email_source=notifications&email_token=AABDQENWGDZMDJDXTJXSU3DP3KGI7A5CNFSM4HZM4UH2YY3PNVWWK3TUL52HS4DFUVEXG43VMWVGG33NNVSW45C7NFSM4G2PTG5Q>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AABDQEKLVHL35LX77B5Y3WLP3KGI7ANCNFSM4HZM4UHQ> .