Closed taprs closed 10 months ago
Hi, could you show me the content of your speciestree.txt
?
Here it is:
(zostera:0.261188,((polygonifolius:0.0158094,coloratus:0.0182822)0.806137:0.0266174,(pusillus:0.0230147,(obtusifolius:0.0181003,(trichoides:0.0109874,acutifolius:0.013523)0.386264:0.0102274)0.345251:0.0108846)0.679006:0.0221993)1:0.261188);
I should have thought about matching the tree labels with the input data! Maybe it would be good to have a check for that for people as absent-minded as I. Also I noticed the file did not have a newline in the end.
Yes, the label in your speciestree.txt
should match the parameters given by -sr
option.
Inputting the correct species tree solved the issue for me.
Hi again! I found a few bugs which are not absolutely prohibitive but would be good to fix at some point. I think I will post them here one by one.
I run substitution rate correction with
wgd viz
inwgd 2.0.22
as follows:and get the following StopIteration output:
Removing the
-sr "species1.fa;species1.fa"
portion of the command results in a successful run. Can you reproduce this?