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refresh-bio / FAMSA

Algorithm for ultra-scale multiple sequence alignments (3M protein sequences in 5 minutes and 24 GB of RAM)
GNU General Public License v3.0
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How to install/compile on linux? #12

Closed bioteksampath closed 4 years ago

bioteksampath commented 5 years ago

Hi... Thanks for this program seems very worth to try. I have problem with installation, could you plz suggest a better way to install?

Here is what I did

git clone https://github.com/refresh-bio/FAMSA.git cd FAMSA make -C ~/bin/FAMSA/bin/

Error; /usr/bin/ld: cannot find -lOpenCL collect2: error: ld returned 1 exit status make: *** [makefile:103: famsa-gpu] Error 1 make: Leaving directory '/home/AAFC-AAC/perumals/bin/FAMSA'

perhaps you may add installation instructions into the readme.txt file alternatively, you may deposit to conda ( which is very easy to install a program).

Thanks a lot! Regards sam

agudys commented 5 years ago

Hello Sam,

It looks that your machine does have OpenCL installed (which is required is you want FAMSA to use GPU). Please modify NO_GPU switch at the top of the makefile. You can find more detailed intructions in README.MD file in the repository (it's the best to view https://github.com/refresh-bio/FAMSA directly through browser).

Regards, Adam

agudys commented 4 years ago

The latest FAMSA version does not support GPU. Thus, all GPU-related problems should be gone.

Regards, Adam