Commit 43d9c5d8 authored by Célestin Marot's avatar Célestin Marot
Browse files

available for reproducible research

parent 1f40a271
Quality tetrahedral mesh generation with HXT : reproducible benchmark
=====================================================================
This repository contains information to help you reproduce the result in the paper entitled
> Quality tetrahedral mesh generation with HXT
In this paper, three programs are tested and compared: Gmsh, TetGen and HXT.
Those software are not supplied in this repository, but you get simply download
them as follow:
* Gmsh and HXT: download Gmsh's Gitlab repository [here](https://gitlab.onelab.info/gmsh/gmsh).
* TetGen: download [here](http://wias-berlin.de/software/index.jsp?id=TetGen)
You also need a C and C++ compiler: GCC 9.3.0 is the compiler used in the paper.
## Compilation
To compile **Gmsh**, create a build directory, open a terminal in the build
directory and simply modify `GMSH_DIR` to point to where the top-level gmsh
directory is located:
cmake -DCMAKE_BUILD_TYPE=Release -DCMAKE_C_FLAGS="-march=native" -DCMAKE_CXX_FLAGS="-march=native" GMSH_DIR
make -j
export GMSH=$(PWD)/gmsh
To compile **HXT's tetrahedral mesh generator**, create another build
directory, open a terminal in that directory and again, adapt these command:
cmake -DCMAKE_BUILD_TYPE=Release -DCMAKE_C_FLAGS="-march=native" -DCMAKE_CXX_FLAGS="-march=native" PATH_TO_GMSH/contrib/hxt/tetMesh
export HXTTETMESH=$(PWD)/tetMesh_CLI
To compile **TetGen**, simply enter the command
make
export TETGEN=$(PWD)/tetgen
in TetGen's top-level directory
verify that all program works correctly by asking them to show the help:
$GSMH -h
$HXTTETMESH -h
$TETGEN -h
## Create STL files for TetGen
Open each \*.msh in the *meshes* directory with gmsh and export the mesh to the stl format with the same basename.
## Running the performance benchmark
Once the STL files are created, the 3 programs are compiled correctly and the
environment variables `$GSMH`, `$HXTTETMESH` and `$TETGEN` are set, simply go
in this directory and launch the benchmarks with the commands:
bash gmsh_bench.sh
bash hxt_bench.sh "1 2 4 8" # adapt to the nbr. of threads to be tested
bash hxt_reprod_bench.sh "1 2 4 8" # same
bash tetgen_bench.sh
## Running the mesh quality benchmarks
The mesh quality benchmark procedure is explained in qualities/README.md
\ No newline at end of file
......@@ -14,8 +14,8 @@ bash benchmark_speed.sh \
/Done reconstructing mesh/ {bndRecov=$7+0}
/Done meshing 3D/ {refine=$7 - emptyMesh - bndRecov}
/Done optimizing mesh/ {opti=$7+0}
/[0-9]+ nodes [0-9]+ elements/ {ntet=$5}
END{print emptyMesh,bndRecov,refine,opti,ntet}' \
/[0-9]+ nodes [0-9]+ elements/ {npts=$3; ntet=$5;}
END{print emptyMesh, bndRecov, refine, opti, ntet, npts}' \
$GMSH -3 -format msh41 -bin -optimize_threshold 0.35 -o tmp.msh
rm tmp.msh
\ No newline at end of file
mesher Gmshrotor HxtReprotor TetGenrotor Gmshpiston HxtReppiston TetGenpiston Gmshrim HxtReprim TetGenrim
numTets 493632 542012 560094 241982 268493 224860 4729987 6064318 5474329
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dihedralAngleHist83 31619.000000 35661.000000 38133.000000 15738.000000 17770.000000 15302.000000 313467.000000 402578.000000 385083.000000
dihedralAngleHist84 31039.000000 34961.000000 36980.000000 15076.000000 16925.000000 15113.000000 302925.000000 390998.000000 374481.000000
dihedralAngleHist85 29835.000000 33759.000000 35609.000000 14829.000000 16530.000000 14659.000000 292567.000000 379097.000000 363507.000000
dihedralAngleHist86 29527.000000 33526.000000 34979.000000 14392.000000 15944.000000 13918.000000 285946.000000 368265.000000 353791.000000
dihedralAngleHist87 29489.000000 32900.000000 34546.000000 13785.000000 15526.000000 13201.000000 276604.000000 357714.000000 344915.000000
dihedralAngleHist88 27635.000000 31145.000000 32914.000000 13367.000000 15039.000000 13152.000000 267691.000000 349114.000000 335223.000000
dihedralAngleHist89 27374.000000 31103.000000 32687.000000 13341.000000 14520.000000 13076.000000 258108.000000 336972.000000 326232.000000
dihedralAngleHist90 30628.000000 34219.000000 35119.000000 12457.000000 14417.000000 12633.000000 253368.000000 330338.000000 318707.000000
dihedralAngleHist91 29313.000000 33138.000000 34007.000000 12729.000000 14491.000000 13022.000000 243909.000000 318880.000000 307085.000000
dihedralAngleHist92 24236.000000 27820.000000 29010.000000 11482.000000 13037.000000 11145.000000 233440.000000 306925.000000 297745.000000
dihedralAngleHist93 23135.000000 26311.000000 28016.000000 11232.000000 12606.000000 10677.000000 225780.000000 297515.000000 288097.000000
dihedralAngleHist94 22429.000000 25610.000000 27165.000000 10663.000000 12290.000000 10316.000000 218481.000000 287564.000000 278547.000000
dihedralAngleHist95 21271.000000 24471.000000 26137.000000 10403.000000 11582.000000 10062.000000 210321.000000 278089.000000 269363.000000
dihedralAngleHist96 20936.000000 23438.000000 25050.000000 10102.000000 11381.000000 9834.000000 202132.000000 269394.000000 261188.000000
dihedralAngleHist97 19546.000000 22204.000000 24403.000000 9778.000000 10867.000000 9424.000000 194585.000000 258791.000000 251866.000000
dihedralAngleHist98 19105.000000 21631.000000 23334.000000 9414.000000 10598.000000 9319.000000 187486.000000 249399.000000 243142.000000
dihedralAngleHist99 18045.000000 20675.000000 22685.000000 9214.000000 10465.000000 8900.000000 181474.000000 240681.000000 236386.000000
dihedralAngleHist100 17438.000000 19924.000000 22097.000000 8821.000000 10214.000000 8657.000000 174799.000000 231742.000000 228518.000000
dihedralAngleHist101 16430.000000 19063.000000 21239.000000 8491.000000 10075.000000 8542.000000 168924.000000 222924.000000 220878.000000
dihedralAngleHist102 16070.000000 18245.000000 20704.000000 8230.000000 9729.000000 8481.000000 162268.000000 215349.000000 214176.000000
dihedralAngleHist103 15180.000000 17422.000000 19920.000000 7865.000000 9386.000000 8429.000000 157941.000000 207878.000000 207622.000000
dihedralAngleHist104 15338.000000 17108.000000 19450.000000 7532.000000 8990.000000 8309.000000 151835.000000 200990.000000 200050.000000
dihedralAngleHist105 14959.000000 16894.000000 19050.000000 7350.000000 8653.000000 8621.000000 146145.000000 192733.000000 193535.000000
dihedralAngleHist106 14631.000000 16017.000000 18651.000000 7054.000000 8343.000000 8322.000000 141532.000000 186226.000000 187407.000000
dihedralAngleHist107 14273.000000 15522.000000 18184.000000 7090.000000 8073.000000 8720.000000 136355.000000 178317.000000 179817.000000
dihedralAngleHist108 13869.000000 15088.000000 17612.000000 6758.000000 7859.000000 8221.000000 131448.000000 171117.000000 173237.000000
dihedralAngleHist109 13455.000000 14496.000000 16724.000000 6663.000000 7567.000000 8064.000000 124872.000000 163239.000000 164031.000000
dihedralAngleHist110 12601.000000 13621.000000 15895.000000 6267.000000 7155.000000 7518.000000 119721.000000 156802.000000 155746.000000
dihedralAngleHist111 11734.000000 12969.000000 15390.000000 6063.000000 6526.000000 6928.000000 114572.000000 148322.000000 146907.000000
dihedralAngleHist112 11580.000000 12840.000000 14337.000000 5665.000000 6462.000000 6641.000000 109126.000000 140973.000000 137808.000000
dihedralAngleHist113 11104.000000 11816.000000 13721.000000 5487.000000 6098.000000 5900.000000 103570.000000 133604.000000 129692.000000
dihedralAngleHist114 10527.000000 11614.000000 12739.000000 5063.000000 5478.000000 5689.000000 100790.000000 127717.000000 121925.000000
dihedralAngleHist115 9866.000000 10583.000000 12150.000000 4834.000000 5283.000000 5270.000000 92910.000000 118934.000000 112438.000000
dihedralAngleHist116 9387.000000 10195.000000 11490.000000 4695.000000 5091.000000 4892.000000 88524.000000 112297.000000 104425.000000
dihedralAngleHist117 9561.000000 10004.000000 10679.000000 4339.000000 4696.000000 4486.000000 84140.000000 105915.000000 97302.000000
dihedralAngleHist118 8022.000000 8524.000000 9830.000000 3978.000000 4303.000000 4048.000000 79409.000000 99859.000000 90590.000000
dihedralAngleHist119 7311.000000 7971.000000 8869.000000 3803.000000 3795.000000 3736.000000 75275.000000 94251.000000 84044.000000
dihedralAngleHist120 6780.000000 7129.000000 8081.000000 3391.000000 3673.000000 3393.000000 71463.000000 88948.000000 77806.000000
dihedralAngleHist121 6067.000000 6658.000000 6828.000000 3265.000000 3382.000000 2905.000000 66976.000000 83520.000000 66047.000000
dihedralAngleHist122 5681.000000 6187.000000 6233.000000 3149.000000 3249.000000 2540.000000 63168.000000 79080.000000 59115.000000
dihedralAngleHist123 5391.000000 5737.000000 5464.000000 2806.000000 2957.000000 2277.000000 59361.000000 74745.000000 53007.000000
dihedralAngleHist124 4868.000000 5369.000000 4675.000000 2726.000000 2850.000000 1862.000000 55626.000000 70505.000000 46430.000000
dihedralAngleHist125 4459.000000 5075.000000 4228.000000 2523.000000 2735.000000 1634.000000 53124.000000 67161.000000 40753.000000
dihedralAngleHist126 4354.000000 4700.000000 3517.000000 2525.000000 2522.000000 1436.000000 50035.000000 63282.000000 35416.000000
dihedralAngleHist127 4104.000000 4527.000000 3045.000000 2513.000000 2457.000000 1277.000000 47484.000000 60451.000000 30282.000000
dihedralAngleHist128 3804.000000 4329.000000 2737.000000 2244.000000 2335.000000 1048.000000 45819.000000 57317.000000 26241.000000
dihedralAngleHist129 3671.000000 4027.000000 2398.000000 2276.000000 2287.000000 941.000000 43492.000000 54807.000000 22185.000000
dihedralAngleHist130 3448.000000 3764.000000 1947.000000 2083.000000 2078.000000 754.000000 41766.000000 52373.000000 18927.000000
dihedralAngleHist131 3457.000000 3737.000000 1610.000000 1995.000000 2016.000000 661.000000 39749.000000 50187.000000 15784.000000
dihedralAngleHist132 3232.000000 3549.000000 1446.000000 1892.000000 1960.000000 543.000000 38180.000000 47842.000000 13308.000000
dihedralAngleHist133 3013.000000 3271.000000 1165.000000 1879.000000 1803.000000 467.000000 36894.000000 45550.000000 11124.000000
dihedralAngleHist134 3043.000000 3062.000000 1021.000000 1728.000000 1819.000000 372.000000 35428.000000 43748.000000 8964.000000
dihedralAngleHist135 3279.000000 3149.000000 1051.000000 1720.000000 1769.000000 316.000000 34091.000000 41882.000000 7492.000000
dihedralAngleHist136 2888.000000 2855.000000 755.000000 1542.000000 1680.000000 267.000000 32353.000000 40133.000000 5810.000000
dihedralAngleHist137 2728.000000 2629.000000 612.000000 1600.000000 1624.000000 203.000000 31249.000000 38332.000000 4741.000000
dihedralAngleHist138 2555.000000 2501.000000 535.000000 1518.000000 1515.000000 160.000000 30058.000000 36711.000000 3702.000000
dihedralAngleHist139 2482.000000 2492.000000 426.000000 1472.000000 1437.000000 124.000000 29133.000000 35137.000000 2863.000000
dihedralAngleHist140 2483.000000 2268.000000 351.000000 1428.000000 1437.000000 135.000000 28241.000000 32973.000000 2275.000000
dihedralAngleHist141 2377.000000 2218.000000 301.000000 1383.000000 1283.000000 92.000000 27043.000000 30729.000000 1731.000000
dihedralAngleHist142 2151.000000 2014.000000 252.000000 1303.000000 1199.000000 72.000000 26020.000000 28266.000000 1330.000000
dihedralAngleHist143 2109.000000 1739.000000 199.000000 1365.000000 1065.000000 69.000000 24911.000000 24832.000000 965.000000
dihedralAngleHist144 2070.000000 1458.000000 186.000000 1259.000000 923.000000 45.000000 23753.000000 20673.000000 718.000000
dihedralAngleHist145 1967.000000 1047.000000 160.000000 1183.000000 710.000000 29.000000 22174.000000 15709.000000 592.000000
dihedralAngleHist146 1836.000000 648.000000 128.000000 1135.000000 440.000000 23.000000 21111.000000 9844.000000 403.000000
dihedralAngleHist147 1718.000000 140.000000 113.000000 1058.000000 102.000000 21.000000 19597.000000 2519.000000 286.000000
dihedralAngleHist148 1555.000000 0.000000 97.000000 933.000000 0.000000 13.000000 17908.000000 2.000000 215.000000
dihedralAngleHist149 1393.000000 0.000000 74.000000 816.000000 0.000000 15.000000 15575.000000 1.000000 139.000000
dihedralAngleHist150 1099.000000 1.000000 70.000000 691.000000 0.000000 10.000000 12881.000000 1.000000 121.000000
dihedralAngleHist151 790.000000 0.000000 69.000000 529.000000 0.000000 8.000000 9390.000000 0.000000 99.000000
dihedralAngleHist152 479.000000 0.000000 64.000000 293.000000 0.000000 6.000000 5531.000000 0.000000 64.000000
dihedralAngleHist153 186.000000 0.000000 64.000000 59.000000 0.000000 1.000000 1563.000000 0.000000 52.000000
dihedralAngleHist154 82.000000 0.000000 60.000000 3.000000 0.000000 5.000000 94.000000 0.000000 42.000000
dihedralAngleHist155 70.000000 0.000000 54.000000 2.000000 0.000000 6.000000 84.000000 0.000000 39.000000
dihedralAngleHist156 50.000000 0.000000 32.000000 2.000000 0.000000 1.000000 58.000000 0.000000 24.000000
dihedralAngleHist157 43.000000 0.000000 22.000000 0.000000 0.000000 3.000000 53.000000 0.000000 25.000000
dihedralAngleHist158 33.000000 0.000000 17.000000 3.000000 0.000000 1.000000 43.000000 0.000000 25.000000
dihedralAngleHist159 46.000000 0.000000 31.000000 0.000000 0.000000 1.000000 41.000000 0.000000 14.000000
dihedralAngleHist160 35.000000 0.000000 26.000000 1.000000 0.000000 3.000000 33.000000 0.000000 15.000000
dihedralAngleHist161 21.000000 0.000000 5.000000 1.000000 0.000000 0.000000 15.000000 0.000000 2.000000
dihedralAngleHist162 28.000000 0.000000 14.000000 2.000000 0.000000 2.000000 19.000000 0.000000 6.000000
dihedralAngleHist163 18.000000 0.000000 10.000000 0.000000 0.000000 0.000000 131.000000 0.000000 46.000000
dihedralAngleHist164 8.000000 0.000000 4.000000 0.000000 0.000000 0.000000 12.000000 0.000000 4.000000
dihedralAngleHist165 14.000000 0.000000 9.000000 0.000000 0.000000 0.000000 9.000000 0.000000 4.000000
dihedralAngleHist166 11.000000 0.000000 6.000000 0.000000 0.000000 0.000000 15.000000 0.000000 5.000000
dihedralAngleHist167 11.000000 0.000000 4.000000 0.000000 0.000000 0.000000 141.000000 0.000000 45.000000
dihedralAngleHist168 16.000000 0.000000 8.000000 0.000000 0.000000 0.000000 8.000000 0.000000 2.000000
dihedralAngleHist169 3.000000 0.000000 2.000000 0.000000 0.000000 0.000000 5.000000 0.000000 1.000000
dihedralAngleHist170 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 3.000000 0.000000 1.000000
dihedralAngleHist171 4.000000 0.000000 2.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
dihedralAngleHist172 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 3.000000 0.000000 0.000000
dihedralAngleHist173 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
dihedralAngleHist174 4.000000 0.000000 2.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
dihedralAngleHist175 2.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
dihedralAngleHist176 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
dihedralAngleHist177 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 3.000000 0.000000 0.000000
dihedralAngleHist178 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000
dihedralAngleHist179 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
dihedralAngleHist180 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
dihedralAngleMean 69.835730 69.878252 70.034871 69.686500 69.776339 70.051849 69.695713 69.742556 70.086182
dihedralAngleMin 4.060353 5.095582 4.665623 11.235770 13.762365 11.235770 1.592813 5.915645 6.396000
dihedralAngleMax 174.763980 149.196876 173.053202 161.395444 146.644281 161.395444 177.220358 149.094397 169.371176
command,file,numThreads,wallTime,cpuLoad,maxMemKb,emptyMesh,bndRecov,refine,opti,numTets
TetGen,fibers100,8,32.565999999999995,99.0,765481.6,0.420835,0.5547633999999999,12.250060000000001,7.7470940000000015,2897468.0
TetGen,rotor,8,14.684000000000001,99.0,556864.0,1.2518559999999999,1.351148,2.641994,1.4860139999999997,560094.0
TetGen,piston,8,3.832,99.0,160924.0,0.2759374,0.310379,1.155002,0.5000156,224860.0
TetGen,rim,8,89.21400000000001,99.0,2602779.2,3.4061999999999997,4.633894,28.796180000000003,13.973680000000002,5474329.0
Gmsh,fibers100,8,131.216,99.0,1877249.6,0.9533074000000001,2.430324,102.8308,20.51784,3681358.0
Gmsh,fibers300,8,908.5260000000001,94.8,7738987.2,9.783998,33.03866000000001,707.5516,129.152,16363258.0
Gmsh,fuseecurv,8,393.46400000000006,99.0,4212016.0,13.77526,32.93452,276.8438,53.96656,8431656.0
Gmsh,rotor,8,19.169999999999998,99.0,605537.6,2.308962,6.298004,7.213394000000001,2.042082,748510.0
Gmsh,piston,8,7.006,99.0,209537.6,0.523805,0.07154469999999999,5.00669,1.0242660000000001,299737.0
Gmsh,rim,8,206.82399999999998,99.0,2692551.2,9.6832,23.9172,134.82739999999998,28.206079999999996,5557349.0
% Hxt,fibers100,1,12.719999999999999,99.0,559840.0,0.19980000000000003,0.881,6.525,4.9678,7189677.0
% Hxt,fibers100,2,8.758,181.0,574844.0,0.1506,0.7726000000000001,4.1312,3.5598,7185733.0
% Hxt,fibers100,3,7.348000000000001,246.6,576246.4,0.1454,0.737,3.218,3.1016000000000004,7179546.0
% Hxt,fibers100,4,6.208,306.2,584058.4,0.156,0.7198,2.763,2.4236,7191023.8
% Hxt,fibers100,5,7.4879999999999995,357.2,583940.0,0.16,0.732,2.9139999999999997,3.5357999999999996,7191822.0
% Hxt,fibers100,6,6.866,407.8,584094.4,0.1628,0.7272000000000001,2.6866,3.1432000000000007,7183626.0
% Hxt,fibers100,7,6.494,485.0,582017.6,0.154,0.7205999999999999,2.5328,2.9392,7193537.0
Hxt,fibers100,8,6.074,523.8,577300.8,0.1562,0.7182,2.4924000000000004,2.5614,7183108.0
% Hxt,fibers300,1,56.092000000000006,99.0,2018704.0,1.5528,8.278199999999998,26.469,18.8914,26994255.0
% Hxt,fibers300,2,38.092,174.0,2029640.0,1.1036000000000001,7.010800000000001,16.1522,12.9218,26987660.8
% Hxt,fibers300,3,31.562,231.4,2031760.8,1.1718,6.7276,13.1876,9.5158,26996868.0
% Hxt,fibers300,4,27.442,283.4,2032268.8,1.0554000000000001,6.6054,10.744,8.1224,26988587.4
% Hxt,fibers300,5,28.834000000000003,328.6,2032859.2,1.0044,6.6708,11.554599999999999,8.6922,26980500.0
% Hxt,fibers300,6,26.805999999999994,389.2,2045440.8,1.061,6.5699999999999985,10.4116,7.8618,26980087.2
% Hxt,fibers300,7,26.246000000000002,435.2,2044975.2,1.0897999999999999,6.500400000000001,9.954399999999998,7.7958,26983032.2
Hxt,fibers300,8,25.656,479.4,2045937.6,1.1288,6.5336,8.9476,8.139,26991356.0
% Hxt,fuseecurv,1,48.67999999999999,99.0,2590808.0,2.2866,10.0154,15.7172,19.427599999999998,14198048.0
% Hxt,fuseecurv,2,33.664,159.8,2590676.0,1.6463999999999999,8.9456,10.6042,11.2374,14195334.8
% Hxt,fuseecurv,3,28.387999999999998,206.8,2591083.2,1.3032000000000001,8.690000000000001,8.263200000000001,8.9018,14190869.8
% Hxt,fuseecurv,4,27.212,236.0,2591560.0,1.5239999999999998,8.564,7.3422,8.569600000000001,14187688.2
% Hxt,fuseecurv,5,28.139999999999997,270.8,2591644.0,1.5666,8.565999999999999,7.612399999999999,9.198400000000001,14189752.0
% Hxt,fuseecurv,6,25.556,318.4,2591367.2,1.2192,8.5672,6.6617999999999995,7.941599999999999,14190054.6
% Hxt,fuseecurv,7,24.720000000000002,348.4,2591336.0,1.4782,8.488,6.0474000000000006,7.5234000000000005,14186431.8
Hxt,fuseecurv,8,24.830000000000002,383.0,2590547.2,1.5710000000000002,8.5404,5.900399999999999,7.658799999999999,14189379.2
% Hxt,rotor,1,3.778,99.0,573168.8,0.4412,2.0106,0.3788,0.616,934296.0
% Hxt,rotor,2,3.1919999999999997,132.0,574062.4,0.347,1.8156000000000003,0.2564,0.44320000000000004,934153.0
% Hxt,rotor,3,2.942,162.0,579370.4,0.2924,1.7648,0.20579999999999998,0.3478,933930.0