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Erro in vg index step cannot get the gbwt result

Open ld9866 opened this issue 1 year ago • 1 comments

Dear developer: Under your suggestion, we want to convert the results of MC to GBWT format, but we are not familiar with the conversion steps. We encountered some problems in vg index, showing insufficient memory, but our running memory is 1TB, I would like to ask whether our code and thinking are correct, and how should we solve this problem? vg mod -X 256 test.full.vg > test.full.mod.vg vg index -x test.full.xg -g test.full.gcsa -k 16 -t 8 test.full.mod.vg error: InputGraph::InputGraph(): Memory use of input kmers (1149.82 GB) exceeds memory limit (1024 GB) vg gbwt -g test.full.gbwt -t 8 -x test.full.xg test.full.vg

ld9866 avatar Dec 26 '23 08:12 ld9866

I am having a similar issue. I was able to successfully run vg autoindex, but cannot find the .xg file. I explicitly flagged for .xg output, I wonder if I ran out of storage to produce the .xg file or if it was embedded in the .gbz file.

AlphaJulietAlpha avatar Jan 10 '24 00:01 AlphaJulietAlpha