4/5000 Multiple threads

[liqianghou2022]

Hello, I would like to know if tree-qmc software supports multi-threading when merging gene trees？

[ekmolloy]

There is a parallel version of TREE-QMC (fork); however, it is still undergoing testing. You can use the fork with the following instructions:

1. Download code:

git clone https://github.com/ParAlg/TREE-QMC

2 Compile code:

cd TREE-QMC
g++ -std=c++17 -O3 -I external/MQLib/include -I external/toms743 -I external/parlaylib/include -o tree-qmc -pthread -mcx16 -march=native src/*.cpp external/toms743/toms743.cpp external/MQLib/bin/MQLib.a -lm -DVERSION=\"$(cat version.txt)\"

3 Export the number of threads n you want to use, for example

export PARLAY_NUM_THREADS=n

in bash.

4. Run code with the usual command options (although there is currently no support for -w f). If it's working, you should see "Parlay time" in the output - https://github.com/ParAlg/TREE-QMC/blob/main/test_parallel_192

If you have issues, please post here. We can keep you posted about testing.