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lh3 / minigraph

Sequence-to-graph mapper and graph generator
https://lh3.github.io/minigraph
MIT License
417 stars 38 forks source link

running minigraph #98

Open Gon1976 opened 1 year ago

Gon1976 commented 1 year ago

Hi, Yesterday I run minigraph without problem, now I try to run with two genomes but I have this error /home/nanocruzi/installs/minigraph/minigraph -cxggs -t8 refGenome.fasta JJ_Genoma.fasta A_Genoma.fasta > Refvstwo.gfa [M::main::0.1051.00] loaded the graph from "refGenome.fasta" [M::mg_index::1.8421.53] indexed the graph [M::mg_opt_update::1.9611.50] occ_max1=100; lc_max_occ=3 [M::ggen_map::2.1441.45] loaded file "JJ_Genoma.fasta" [M::ggen_map::145.8937.40] mapped 481 sequence(s) to the graph [M::mg_ggsimple_cigar::146.2407.38] inserted 1631 events, including 0 inversions [M::mg_index::147.9417.31] indexed the graph [M::mg_opt_update::148.0587.31] occ_max1=100; lc_max_occ=3 Violación de segmento (`core' generado)

can you help me thanks

adadiehl commented 10 months ago

Check that all your input files exist. I had the same issue and it traced back to a typo in the fasta file path. It seems minigraph does not handle file not found errors gracefully in the current build.