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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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Options not working in glf2acf #3

Closed nwales closed 6 years ago

nwales commented 6 years ago

Hi Gabriel,

I'm wanted to test out some different PL options in the glf2acf conversion, but I am getting an error.

The default option works great, with a command like this: glactools glf2acf file.glf.gz > file.default_PL.acf.gz

But when I add a PL option to the same command: glactools glf2acf --minPL 30 file.glf.gz > file.30_PL.acf.gz

I get this error message: The last argument is the <glf file>

I also tried the -u option for uncompressed output and it gives the same error message. Could you please let me know if options should be entered differently or if there is a bug to fix?

Thanks! Nathan

grenaud commented 6 years ago

Hey Nathan, I just fixed it. Thanks for reporting this! Do a git status git pull origin master make

and try again. Let me know if this works and I will close the issue.

nwales commented 6 years ago

It's perfect. Thanks for the quick fix!