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grenaud / glactools

command-line tools for the management of genotype likelihoods and allele counts
http://grenaud.github.io/glactools/
GNU General Public License v3.0
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acf2treemix no output #5

Open zyxplus opened 5 years ago

zyxplus commented 5 years ago

it shows: Program acf2treemix wrote 0 out of 5733 terminated gracefully I used glactools bplink2acf --fai refer.fai plink_prefix | glactools acf2treemix - | gzip >plink_prefix.gz

does the input data need to be extra modification? By the way, how many sites are needed to run treemix at least? I found out that not many sno left after using 'geno 0' in plink? Afraid to use this tool in the wrong way?

grenaud commented 5 years ago

I think this is very likely due to the fact that your root is undefined, I can add an option to forego the root but is this what you want?

grenaud commented 5 years ago

I have added a warning now. I could add an option to simply dump the populations without the root but do people actually do this?

grenaud commented 4 years ago

Is this fine? Can I close the issue?