I am trying to do some analyses using Paml, actually, I am using PamlX. The problem is that everytime I try to put a tree there, it shows the same error:
Reading seq #87: M31866.1_07-83-GA-P-Guatemala-1989
Reading seq #88: JX121112.1_NJ95COB-Colombia-1995
Sequences read..
Counting site patterns.. 0:00
Compressing, 203 patterns at 432 / 432 sites (100.0%), 0:00
Collecting fpatt[] & pose[], 203 patterns at 432 / 432 sites (100.0%), 0:00
Counting frequencies..
Counting site patterns again, for JC69.. 0:00
Compressing, 170 patterns at 203 / 203 sites (100.0%), 0:00
Collecting fpatt[] & pose[], 170 patterns at 203 / 203 sites (100.0%), 0:00
30624 bytes for distance
54400 bytes for conP
31244186278559863 bytes for fhK
5000000 bytes for space
# seqs in tree file does not match. Read as the nexus format.
Species prob+-sd="100+-0"]?
C:\Users\xx\Downloads\pamlX1.3.1-win32\paml4.9j\paml4.9j\bin\codeml.exe -- killed
Can you help me? How should I build the tree to use here?
Antônio Augusto Fonseca Jr. how you build the tree is not the issue. Your problem is probably a formatting issue. What is the file format for the tree that you're trying to use?
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