Post by lukehol on Jul 30, 2021 9:24:23 GMT
Hi,
I'm trying the command:
gcta64 --bfile my_bfile --pheno phenotype.txt --fastGWA-mlm --grm-sparse sparse_GRM --out test
And I get this error about the phenotype file:
Reading phenotype data from [phenotype.txt]...
Warning: the file [phenotype.txt], line 2 has different number of columns.
Error: the file [phenotype.txt], line 2 has not enough elements
An error occurs, please check the options or data
The phenotype file appears to be correct. I have checked that every family and individual ID matches those in the fam file, so that's not it. Also, there are of course 3 columns and 3 elements in each row of the phenotype.txt (i.e. what the documentation asks for), so the error doesn't make sense.
I have uploaded my phenotypes file here - can anyone spot any problems with it? github.com/lukeholman/lukesfiles/blob/master/phenotype.txt
Many thanks!
I'm trying the command:
gcta64 --bfile my_bfile --pheno phenotype.txt --fastGWA-mlm --grm-sparse sparse_GRM --out test
And I get this error about the phenotype file:
Reading phenotype data from [phenotype.txt]...
Warning: the file [phenotype.txt], line 2 has different number of columns.
Error: the file [phenotype.txt], line 2 has not enough elements
An error occurs, please check the options or data
The phenotype file appears to be correct. I have checked that every family and individual ID matches those in the fam file, so that's not it. Also, there are of course 3 columns and 3 elements in each row of the phenotype.txt (i.e. what the documentation asks for), so the error doesn't make sense.
I have uploaded my phenotypes file here - can anyone spot any problems with it? github.com/lukeholman/lukesfiles/blob/master/phenotype.txt
Many thanks!