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Use contiguous memory layout for neighbor lists #10

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@efaulhaber efaulhaber commented May 11, 2024

Based on #9.

For cheap artificial benchmarks like count_neighbors (see #18), the difference is huge. But it's more interesting to see real-life benchmarks, so I ran a 2D TLSPH benchmark (of interact!) on a perturbed rectangular point cloud.
The difference on a single thread is <1%:
grafik
On 64 threads, we're talking about a 14% speedup for 6.5 million particles and 44% for 26 million particles.
grafik
Interestingly, there is absolutely no speedup in 3D. I'm assuming because there is more computation per particle-neighbor pair and the neighbor lists are >3x larger, so cache misses in the neighbor lists are insignificant.
Note that this memory layout is also GPU-compatible, as opposed to the Vector of Vectors.

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codecov bot commented May 11, 2024

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 87.60%. Comparing base (989d0c0) to head (ac18b79).

Additional details and impacted files
@@            Coverage Diff             @@
##             main      #10      +/-   ##
==========================================
+ Coverage   85.02%   87.60%   +2.57%     
==========================================
  Files           9       10       +1     
  Lines         207      250      +43     
==========================================
+ Hits          176      219      +43     
  Misses         31       31              
Flag Coverage Δ
unit 87.60% <100.00%> (+2.57%) ⬆️

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@efaulhaber efaulhaber force-pushed the ef/neighbor-lists-vectorofvectors branch 2 times, most recently from 87d232f to 4fbd32d Compare May 16, 2024 15:40
@efaulhaber efaulhaber force-pushed the ef/neighbor-lists-vectorofvectors branch from 4fbd32d to eedc1e3 Compare May 29, 2024 11:18
@efaulhaber efaulhaber force-pushed the ef/neighbor-lists-vectorofvectors branch 4 times, most recently from 43e4cf6 to 2209334 Compare June 7, 2024 14:36
@efaulhaber efaulhaber force-pushed the ef/neighbor-lists-vectorofvectors branch from 69646c3 to ce9153f Compare June 11, 2024 14:22
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