When converting the nexus example provided here below, we got this error message using the latest version of goalign::
Unknown token "" in taxlabel list
We are not sure whether this is a goalign issue or the following Nexus file format that is incorrect. However, it seems it is correct since it can be converted to fasta using squizz tool for instance or biopython
#NEXUS
[ Title fasta file]
begin taxa;
dimensions ntax= 6;
taxlabels
read0
read1
read2
read3
read4
read5
;
end;
begin characters;
dimensions nchar= 100;
format missing=? gap=- matchchar=. datatype=nucleotide interleave=yes;
matrix
[!Domain=Data;]
read0 GCATGCTACCCCCGACTTCGAGGCTGGGTGGAGTTACCTTTAGGGGGGGTTGTGTGGGAGTGATAGGAGAGAGACCCAGACAGTATAGCATGTTGTTGGC
read1 AATCATCC.ATAT.C.G.TTCA.G..TTC.CGA.GTTACA..A.T.TCCGGTC.G.TACCGCTG.CCC..ACTTTATTT.TGACTC.AGT..G.CAACAG
read2 .G.A..CCA.G..ACGG..TT.ATAC.AATTTT.CTAA.GGCTATCCCTACA.AACCT.ACCGGGCAT.TA.TGTGTCAC.GT.G.TT.GACG.AAA.AG
read3 ATCCCGCT.GATG.G.C..ATT..GTCCACT....GATC..CT..A.TA..TA.GAAAGCAAG..AACTCCTTGTA..A.T.AAGATCTTA.A..GGCAT
read4 AGGGATG.A.GAT.CTCG.AGTTGAT.C.CAGAAGTG.CA.T.C..TA.AAACAAAT.TTCCCAGATT.TTGACTGATA.GTAGGACCTCA..C..GACT
read5 TG.GA.ATTTGAG.GAGC...TTAGATTAT..TGCCGTCAATCAT.A.CGCAC.GTTTTAACGCCTT.ATCTCC.GACTCTCAC.GCTA.CCCGTGA.CT
;
end;
When converting the nexus example provided here below, we got this error message using the latest version of goalign::
Unknown token "" in taxlabel list
We are not sure whether this is a goalign issue or the following Nexus file format that is incorrect. However, it seems it is correct since it can be converted to fasta using squizz tool for instance or biopython