Hi,

I'm having a bit of trouble getting hyphy to read in charpartitions from a nexus file.

MY nexus file darterfile.nex has the block
Code:

begin assumptions;
CHARPARTITION CodonPos = N: 759-1141,
		1: 1-127\3 129 132 133 135-756\3,
		2: 2-128\3 130 131 134 136-757\3,
		3: 3-126\3 137-758\3;
CHARPARTITION ATPasevs12S = ATPase:1-758,12S:759-1141;
end;
 

but when I run this HYPHY code:
Code:

DataSet ds	 = ReadDataFile ("darterfile.nex");
DataSetFilter filteredData = CreateFilter (ds,1);

fprintf(stdout,"MATRIX HAS ",Columns(DATA_FILE_PARTITION_MATRIX)," BY ",Rows(DATA_FILE_PARTITION_MATRIX),"\n");
for (i=0; i < Columns(DATA_FILE_PARTITION_MATRIX); i = i+1)
{
fprintf(stdout,DATA_FILE_PARTITION_MATRIX[i][1],"=",DATA_FILE_PARTITION_MATRIX[i][2],"\n");
}
 

I get told that the matrix has only a single row (1 BY 1)

I get the same thing if my charpartition command is in a "SETS" block or "PAUP" block. Any suggestions?

Cheers,
James