genotype phenotype files not match

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Andrew

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Jun 17, 2010, 12:03:41 PM6/17/10
to BIMBAM HELP, ytg...@gmail.com
I did imputation on Windows XP and found an weird error:
-bimbam: genotype phenotype files not match

and the log file as below.
##
## COMMAND: d:\Statistica_experimental_mehtods\bimbam\bimbam.exe
test_batch.TXT
## randseed = 1276789447
## BIMBAM: Use default priors
## BIMBAM: genotype phenotype files not match

Command used:
./bimbam -g Ht.geno_Chr1_1.txt -p Pheno6923.txt -pos Ht.pos_Chr1_1.txt
-g hap.phased.cnj.b36.chr1.inp -p 0 -pos Panel.pos_Chr1_1.txt -wmg 1 -
o test

In fact, I succeeded in using the same files to impute genotypes a
couple months ago.

Same problem showed up even when "Phenotype 6923.txt" was changed to
"0".

Any ideas on this?
Thanks,




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