"-gxe" not working - Githubissues

genetics-statistics / GEMMA

Genome-wide Efficient Mixed Model Association

https://github.com/genetics-statistics/GEMMA

GNU General Public License v3.0

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"-gxe" not working #27

Closed tcarv closed 7 years ago

tcarv commented 8 years ago

Hi Xiang,

Any time I try to run GEMMA with the "-gxe" option it gives me the following error:

Start Eigen-Decomposition... pve estimate =0.130578 se(pve) =0.195554 gsl: brent.c:202: ERROR: function value is not finite 0.00% Default GSL error handler invoked. Segmentation fault (core dumped)

The only way it seems to run is if all the values in the "-gxe" file are 0. Is this issue specific to me?

Thanks

pjotrp commented 8 years ago

Eigen segfault. If you are linking against OpenBLAS this could be the same issue as https://github.com/xianyi/OpenBLAS/issues/703. Upgrade OpenBLAS to latest.

pcarbo commented 7 years ago

@tcarv Could you please provide the full gemma command that you tried to run?