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Mugsy alignment of 2 genomes

Hello =)

I'm new at Mugsy.

when I write the following command:

mugsy --directory ./output --prefix Dsub_Dmel_alignment Scaffolds_chcu_soapdenovo2_L3P8_K47.scafSeq dmel-all-chromosome-r6.14.fasta

I get this error:

 Parsing sequences for Scaffolds_chcu_soapdenovo2_L3P8_K47  num_seqs:22344
 Parsing sequences for dmel_all_chromosome_r6  num_seqs:1
 Can't find species 211000022278256 type=golden_path_region; loc=211000022278256 at /data3/mugsy_x86-64-v1r2.3/mugsy line 501.

What this means? Anyone can help me understand why I have this error?

Thanks, marta

genome alignment
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updated by skoplik • skoplik • written by martha • martha

It would help to add context. What command are you running when you get this error?

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written by GenoMax GenoMax

I know this is super duper old, but did anyone find a fix for this? I am having the same issue.

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written by skoplik • skoplik

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