partition overlap warning in BEAUTi

[Ruth_B]

Hi, I'm getting an error message on import of my concatenated dataset (two plastid markers in a combined matrix).

I have a partitions block at the end of my Nexus file, where the partitions are specified (and do not overlap).

Any suggestions on why I'm getting this error on importing the alignment to BEAUTi?

With thanks,

Ruth

[Guanyang Zhang]

Hi Ruth, 

I just found out the problems in my partition. I used comma to separate the the several subsets included in the same partition. And for whatever reason, BEAUTi would read more one site. I deleted the commas and only used spaces. And BEUTi is now reading the right number of sites and did not give the warning message. 

See below:

With commas, 

CHARSET PartitionOne12S = 1-588;

CHARSET PartitionTwo = 589-1429, 1430-2176\3, 1431-2176\3, 1432-2176\3, 2177-2902\3, 2178-2902\3, 2903-4201\3, 2904-4201\3, 4202-4747\3, 4203-4747\3, 4204-4747\3;

CHARSET PartitionThree = 2179-2902\3, 2905-4201\3;

Without commas

 CHARSET PartitionOne12S = 1-588; 

 CHARSET PartitionTwo = 589-1429 1430-2176\3 1431-2176\3 1432-2176\3 2177-2902\3 2178-2902\3 2903-4201\3 2904-4201\3 4202-4747\3 4203-4747\3 4204-4747\3; 

 CHARSET PartitionThree = 2179-2902\3 2905-4201\3;