Hello All,
I converted a fasta file of mine to the Nexus format using ALTER (http://sing.ei.uvigo.es/ALTER/). I receive the error below when executing on the full file path of the nexus file. I checked the Nexus file against the issues describes in the manual and it seems to be OK. The sample files from Mr.Bayes work. Does anyone have an idea of what might be the problem? Thank you for your help!
Chris
The Error:
MrBayes > execute C:\Users\ckan9\OneDrive\UCSC Research\Urchin Introgression\sliding_window\MrBayesTesting\SPU_010116_fasta_nosprp.fa.alter.nex
Expecting ';'
Instead found 'Research' in command 'Execute' at position 38
The top of the Nexus file:
#NEXUS
BEGIN DATA;
dimensions ntax=9 nchar=5529;
format missing=?
interleave=yes datatype=DNA gap=- match=.;
matrix
spurp ATGACTTCTCTCAGGTCTTCCTTCACCTTGAGGTTCCTCCTTACCCTAAG
sdro ATGAGTCCTCTGAGGCCTTCCTTCACCTTGAGGTTCCTCCTTGCCCTAAG
spal ATGASTCCTCTSRGGCCTTCCTTCACCTTGAGGTTCCTCCTTGCCCTAAG
sfra ATGACTCCTCTCAGGCCTTCCCTCACCTTGAGGTTCCTCCTTGCCCTAAG
sint ATGACTCCTCTCGGGCCTTCCTTCACCTTGARGTTCCTCCTTGCCCTAAG
hpul ATGACTYCTCTCGGGCCTTYCTTCACCTTGAGGTTCCTCCTTGCCCTAAG
snud ATGACTCCTCTCAGGTCTTCCTTCACCTTGCGGTTCCTCCTTGCCCTAAG
afra ATGACTCCTCTCAGGCCTTCCTTCACCTTGAGGTTCCTCCTTGCCCTATG
pdep ATGACTCCTCTCAGGCCTTCCTTCACCTTGAGGTTCCTCCTTGCCCTAAG
•
written
by
ckan91 •
You are missing a semi-colon ";" at the end of the file.
The last block of my nexus file looks like this. I tried adding an extra ";" and it didn't work. How should I change it instead?
sdro ATAGAGGGTTCTTTGAAGAATCTGACWTT
spal ATAGAGGRTTCTTTGAAGAATCTGACRTT
sfra ATAGAGGATTCTTTGAAGAATCGGACATT
sint ATAGAGGGTTCTTTGAAGAATCTGACATT
hpul ATAGAGGGTTCTTTGAAGAATCTGACATT
snud ATAGAGGATTCTTTGAAGAATCTGACATT
afra ATAGAGGGTTCTTTGAAGAATCTGACATT
pdep ATAGAGGATTCTTTGAAGAATCTGACATT
;
end;
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