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ekimb / pasha

parallel algorithms for small hitting set approximations
MIT License
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Using pasha for experiments #1

Closed anuradhawick closed 4 years ago

anuradhawick commented 4 years ago

Hello,

Really appreciate this implementation and I can see that it works faster than the original java implementation. I am planning to use UHS in some of my research work and wonder if I could use the binaries compiled from this repo. What does runpasha.sh do? Does it generate all UHS kmers for all the k values and L values?

Thanks.

ekimb commented 4 years ago

Hey there!

runpasha.sh was an artifact of some recent tests - sorry about that!

The repo does not have precompiled binaries, but you can compile binaries by cloning the repo and compiling with g++:

g++ -O3 -o pasha rand.cpp -fopenmp

and execute with:

./pasha $K $L $THREADS $DECYCPATH $ADDPATH

Feel free to let me know if you have any other questions or close the issue if this helps!

anuradhawick commented 4 years ago

Thanks. I found that you have pre-computed UHS for several K values and L values. Very useful.