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nextgraph Segmentation fault #157

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tingyang-commits opened this issue Nov 10, 2022 · 1 comment
Open

nextgraph Segmentation fault #157

tingyang-commits opened this issue Nov 10, 2022 · 1 comment

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@tingyang-commits
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Describe the bug
NextDenovo/bin/nextgraph -a 3 -f 01.ctg_graph.input.seqs 03.ctg_graph/01.ctg_graph.input.ovls/seed_cns10.input.ovls -o seed_cns10.gfa

Error message
[INFO] 2022-11-10 10:05:24 Initialize graph and reading...
[INFO] 2022-11-10 10:06:50 Initial Node(s): 310430, Edge(s): 898125
[INFO] 2022-11-10 10:07:16 Depth stat, Mid: 2.000 Max: 4000.000 Repeat: 3.000 L:N:H: 0.534:0.346:0.120
[INFO] 2022-11-10 10:07:16 Outdegree stat, Mid: 1.000 Max: 2000.000 Repeat: 1.500 L:N:H: 0.889:0.111:0.001
[INFO] 2022-11-10 10:07:18 Chimeric node ratio: 0.332% (candidate: 1.033%)
[INFO] 2022-11-10 10:07:24 Assembly done and outputting...
[WARNING] 2022-11-10 10:07:24 Output with GFA2 format has not been fully tested.
Segmentation fault
Try to figure out which ovls files cause the error, i run each ovls with the command: NextDenovo/bin/nextgraph -a 3 -f 01.ctg_graph.input.seqs 03.ctg_graph/01.ctg_graph.input.ovls/seed_cns*.input.ovls -o seed_cns*.gfa, and foreach ovls, it could work well, but when combined all ovls files, it produced Segmentation fault

@moold
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moold commented Nov 11, 2022

Did you run it successfully with the -a 1 parameter?

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