Pre-compiled Eigensoft package for Ubuntu?
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5.8 years ago
dam4l ▴ 180

Hi,

I would like to use Eigenstrat on my computer (downloaded from https://github.com/DReichLab/EIG). I have a Mac and have downloaded Virtual Box and installed Ubuntu.

The first thing I would like to do is convert my files from PLINK format to a format compatible with Eigenstrat. First, I wanted to check to see if your convertf program is working by going to the /bin directory and typing in ./convertf. I received the following error message:

"error while loading shared libraries: libgsl.so.0: cannot open shared object file: No such file or directory"

I returned to the README file in the Eigensoft package and noticed that it requires that the system has GSL + lapack + OpenBLAS packages installed (which mine does not) and recommends re-making the package. I have tried installing these packages, but I have not been successful in doing so.

I am very new to both Ubuntu and Eigenstrat, so I don't have the know-how to compile the package easily (it will be a very lengthy process of google searches and trial and error). Does a pre-compiled version of this exist that can be downloaded and function properly with little to no modification? Any input would be greatly appreciated.

snp eigenstrat ubuntu pca • 2.9k views
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This site has eigensoft binaries for OS X. Is there a reason you are using Ubuntu?
Disclaimer: This is not the latest version (it is v.5.x) but in case you are unable to make the ubuntu install work this could be an option. Please use/try at your own risk.

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Thanks for your reply. I'm using Ubuntu because I wasn't aware that there was a non-linux based option for eigensoft.

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