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How can I autoindex the HPRC graph using '--workflow map' correctly?

Open tanger-code opened this issue 1 year ago • 2 comments

Hi. I have tried some ways to autoindex the HPRC graph, but I can't index it correctly. When I use the command vg autoindex --workflow map -g chr21.gfa -T tmp, I seem to remember that it said timeout. And then I vg mod -X 32 the graph, and use command vg autoindex --workflow map -g chr21.mod32.gfa -T tmp, it also failed: image

The graph I used is the hprc-v1.1-mc-grch38.chr21.vg, and convert it to gfa graph.

Do you have any suggestions for indexing this graph?

tanger-code avatar Nov 02 '23 07:11 tanger-code

How much RAM do you have?

glennhickey avatar Nov 02 '23 14:11 glennhickey

About 300GB

tanger-code avatar Nov 02 '23 14:11 tanger-code