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Question: Phylonet -a taxa map parameter
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Hello,

I'm trying to use create gene trees using Phylonet from multiple loci per species. I'm trying to use the -a parameter which allows multiple alleles to be sampled. My code within my nexus file:

InferNetwork_MPL (all) 5 -n 10 -a pre_B120:pre_GHA; gil_B163:gil_131a; mil_125a:mil_128b,mil_94v,mil_GHA; bour_51v:bour_563,bour_GH; lem_98a:lem_98b,lem_B157; art_B82:art_B83; gon_B162:gon_GHA;

I receive this error:

    Error at [50,37]: mismatched input ':' expecting ';'

Error at [50,37]: mismatched input ':' expecting ';'

Error at [50,37]: mismatched input ':' expecting ';'

Error at [50,36]: mismatched input ',' expecting ';'

Error at [50,36]: mismatched input ',' expecting ';'

Error at [50,37]: mismatched input ':' expecting ';'

Error at [50,36]: mismatched input ',' expecting ';'

Error at [50,37]: mismatched input ':' expecting ';'

Error at [50,36]: mismatched input ',' expecting ';'

Error at [50,37]: mismatched input ':' expecting ';'

Error at [50,37]: mismatched input ':' expecting ';'

Any help will be appreciated!

Entering edit mode
0

I've been following the instructed usage of

-a <a:a1,a2; b:b1,b2>
ADD REPLYlink 12 months ago
acj1n18
• 0
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Please use ADD COMMENT/ADD REPLY when responding to existing posts to keep threads logically organized. This comment belongs under @Joseph's answer.

ADD REPLYlink 12 months ago
genomax
68k
0
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It doesn't like the ":" in your taxa name.

ADD COMMENTlink 12 months ago Joseph Hughes ♦ 2.7k

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