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Add raw mol2/bhff dataset and bm2_long
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.gitignore

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*.bak
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*.ori
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*.old
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.vscode

README.md

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Two input decks are included in this repository:
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* `bm1` is a short benchmark (~100 ms/iteration on a 64-core ThunderX2 node) based on a small ligand (26 atoms)
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* `bm2` is a long benchmark (~25 s/iteration on a 64-core ThunderX2 node) based on a big ligand (2672 atoms)
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* `bm2` is a long benchmark (~25 s/iteration on a 64-core ThunderX2 node) based on a big ligand (2672 atoms)* `bm2` is a long benchmark (~25 s/iteration on a 64-core ThunderX2 node) based on a big ligand (2672 atoms)
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* `bm2_long` is a very long benchmark based on `bm2` but with 1048576 poses instead of 65536
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They are located in the [`data`](data/) directory, and `bm1` is run by default.
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All implementations accept a `--deck` parameter to specify an input deck directory.

data/bm2_long/forcefield.in

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data/bm2_long/ligand.in

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data/bm2_long/params.txt

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-f /home/tom/Desktop/bude/bude-1.2.10-release/BUDE-1.2.10/inputData/heavy_by-atom_2016-v1.bhff -p /home/tom/Desktop/bude/bude-1.2.10-release/example/virtual_screen/1GCZ/inputs/bude_1gcz_proA.mol2 -l /home/tom/Desktop/bude/bude-1.2.10-release/example/virtual_screen/1GCZ/inputs/bude_1gcz_proA.mol2 -o output -n 1048576 --force

data/bm2_long/poses.in

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data/bm2_long/protein.in

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