Connectivity peakmem benchmarks by cmdupuis3 · Pull Request #1661 · UXARRAY/uxarray

cmdupuis3 · 2026-08-08T00:50:05Z

Overview

Two sets of memory benchmarks, tracking allocations in isolation and total peakmem usage.

ConnectivityTracemalloc results from Derecho:

Resolution	edge_face	edge_node	face_face	n_nodes_per_face	node_edge	node_face
480km	204k	980k	888k	24.8k	127k	747k
120km	3.05M	15.5M	14.8M	239k	1.9M	11.9M
30km	68.2M	577M	351M	5.25M	41.9M	249M
15km	273M	2.31G	1.41G	21M	168M	996M
7.5km	1.09G	5.68G	5.29G	83.9M	671M	3.98G
3.75km	4.36G	timeout	timeout	336M	2.68G	15.9G

(face_edge is a flat 11.4k, face_node is a flat 2.54k)

PR Checklist

General

An issue is created and linked
Added appropriate labels (if your uxarray repo permissions allow it)
Filled out Overview and Expected Usage (if applicable) sections

Testing & Benchmarking

Adequate tests are created if there is new functionality
Tests are not too basic (such as simply calling a function and nothing else)
If this PR could affect performance, ran ASV benchmarks and confirmed they show expected behavior (add a new benchmark if necessary)

Documentation

Docstrings have been added to all new functions
Docstrings have been updated with any function changes

AI Disclosure

AI Usage: Claude Opus 5

I take responsibility for all AI-generated content in my PR.
I have tested all AI-generated content in my PR.

github-actions · 2026-08-22T00:19:36Z

ASV Benchmarking

Benchmark Comparison Results

Benchmarks that have improved:

Change	Before [`9609c3a`]	After [`4871ee1`]	Ratio	Benchmark (Parameter)
-	349M	317M	0.91	face_bounds.FaceBoundsColdStartRss.track_peakmem_open_and_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/mpas/QU/oQU480.231010.nc'))
-	349M	275M	0.79	import.Imports.track_peakmem_import_uxarray
-	349M	312M	0.9	mpas_ocean.GradientColdStartRss.track_peakmem_gradient('480km')

Benchmarks that have stayed the same:

Before [`9609c3a`]	After [`4871ee1`]	Ratio	Benchmark (Parameter)
992±20μs	990±20μs	1.00	connectivity.Connectivity.time_edge_face('120km')
480±20μs	477±10μs	0.99	connectivity.Connectivity.time_edge_face('480km')
3.99±0.06ms	4.02±0.06ms	1.01	connectivity.Connectivity.time_edge_node('120km')
1.31±0.02ms	1.32±0.04ms	1.01	connectivity.Connectivity.time_edge_node('480km')
71.7±3μs	73.0±10μs	1.02	connectivity.Connectivity.time_face_edge('120km')
71.0±5μs	68.1±4μs	0.96	connectivity.Connectivity.time_face_edge('480km')
1.03±0.03ms	1.00±0.03ms	0.97	connectivity.Connectivity.time_face_face('120km')
429±30μs	451±30μs	1.05	connectivity.Connectivity.time_face_face('480km')
62.7±10μs	63.0±10μs	1.00	connectivity.Connectivity.time_face_node('120km')
64.3±10μs	66.9±10μs	1.04	connectivity.Connectivity.time_face_node('480km')
493±20μs	486±50μs	0.99	connectivity.Connectivity.time_n_nodes_per_face('120km')
432±30μs	421±10μs	0.98	connectivity.Connectivity.time_n_nodes_per_face('480km')
1.36±0.03ms	1.37±0.04ms	1.00	connectivity.Connectivity.time_node_edge('120km')
501±10μs	489±10μs	0.98	connectivity.Connectivity.time_node_edge('480km')
83.0±2ms	77.9±2ms	0.94	connectivity.Connectivity.time_node_face('120km')
5.19±0.07ms	5.10±0.05ms	0.98	connectivity.Connectivity.time_node_face('480km')
1.42M	1.42M	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_edge_face('120km')
106k	106k	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_edge_face('480km')
6.48M	6.48M	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_edge_node('120km')
417k	417k	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_edge_node('480km')
2.42k	2.42k	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_face_edge('120km')
2.42k	2.42k	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_face_edge('480km')
1.6M	1.6M	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_face_face('120km')
101k	101k	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_face_face('480km')
2.54k	2.54k	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_face_node('120km')
2.54k	2.54k	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_face_node('480km')
240k	240k	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_n_nodes_per_face('120km')
25.8k	25.8k	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_n_nodes_per_face('480km')
1.9M	1.9M	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_node_edge('120km')
127k	127k	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_node_edge('480km')
11.9M	11.9M	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_node_face('120km')
747k	747k	1.00	connectivity.ConnectivityTracemalloc.track_peakmem_node_face('480km')
8.51±0.1ms	8.46±0.09ms	0.99	face_bounds.FaceBounds.time_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/mpas/QU/oQU480.231010.nc'))
2.89±0.1ms	2.80±0.07ms	0.97	face_bounds.FaceBounds.time_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/scrip/outCSne8/outCSne8.nc'))
7.20±7s	10.2±10ms	~0.00	face_bounds.FaceBounds.time_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/ugrid/geoflow-small/grid.nc'))
1.60±0.05ms	1.54±0.04ms	0.97	face_bounds.FaceBounds.time_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/ugrid/quad-hexagon/grid.nc'))
57.3k	57.3k	1.00	face_bounds.FaceBounds.track_nbytes_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/mpas/QU/oQU480.231010.nc'))
12.3k	12.3k	1.00	face_bounds.FaceBounds.track_nbytes_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/scrip/outCSne8/outCSne8.nc'))
123k	123k	1.00	face_bounds.FaceBounds.track_nbytes_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/ugrid/geoflow-small/grid.nc'))
128	128	1.00	face_bounds.FaceBounds.track_nbytes_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/ugrid/quad-hexagon/grid.nc'))
1.27M	1.27M	1.00	face_bounds.FaceBounds.track_nbytes_grid_with_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/mpas/QU/oQU480.231010.nc'))
50.1k	50.1k	1.00	face_bounds.FaceBounds.track_nbytes_grid_with_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/scrip/outCSne8/outCSne8.nc'))
1.48M	1.48M	1.00	face_bounds.FaceBounds.track_nbytes_grid_with_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/ugrid/geoflow-small/grid.nc'))
712	712	1.00	face_bounds.FaceBounds.track_nbytes_grid_with_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/ugrid/quad-hexagon/grid.nc'))
1.98M	1.98M	1.00	face_bounds.FaceBounds.track_peakmem_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/mpas/QU/oQU480.231010.nc'))
1.97M	1.97M	1.00	face_bounds.FaceBounds.track_peakmem_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/scrip/outCSne8/outCSne8.nc'))
2.13M	2.13M	1.00	face_bounds.FaceBounds.track_peakmem_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/ugrid/geoflow-small/grid.nc'))
35.5k	35.5k	1.00	face_bounds.FaceBounds.track_peakmem_face_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/ugrid/quad-hexagon/grid.nc'))
349M	318M	0.91	face_bounds.FaceBoundsColdStartRss.track_peakmem_open_and_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/scrip/outCSne8/outCSne8.nc'))
349M	319M	0.91	face_bounds.FaceBoundsColdStartRss.track_peakmem_open_and_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/ugrid/geoflow-small/grid.nc'))
349M	318M	0.91	face_bounds.FaceBoundsColdStartRss.track_peakmem_open_and_bounds(PosixPath('/home/runner/work/uxarray/uxarray/test/meshfiles/ugrid/quad-hexagon/grid.nc'))
1.14±0.02μs	1.15±0.02μs	1.01	geometry_kernels.AccucrossKernels.time_accucross
2.57±0.01μs	2.59±0.03μs	1.01	geometry_kernels.AccucrossKernels.time_accucross_pair
456±20ns	466±10ns	1.02	geometry_kernels.EFTPrimitives.time_acc_sqrt_re
426±10ns	441±10ns	1.04	geometry_kernels.EFTPrimitives.time_diff_of_products
401±20ns	381±8ns	0.95	geometry_kernels.EFTPrimitives.time_two_prod
381±20ns	391±10ns	1.03	geometry_kernels.EFTPrimitives.time_two_sum
696±10ns	686±10ns	0.99	geometry_kernels.GCAConstLatIntersection.time_accux_constlat_kernel
726±30ns	746±10ns	1.03	geometry_kernels.GCAConstLatIntersection.time_gca_const_lat_intersection
797±40ns	792±20ns	0.99	geometry_kernels.GCAConstLatIntersection.time_try_gca_const_lat_intersection
827±30ns	842±20ns	1.02	geometry_kernels.GCAGCAIntersection.time_accux_gca_kernel
932±20ns	902±10ns	0.97	geometry_kernels.GCAGCAIntersection.time_gca_gca_intersection
1.04±0.02μs	1.04±0.03μs	1.00	geometry_kernels.GCAGCAIntersection.time_try_gca_gca_intersection
52.7±0.3μs	51.6±0.4μs	0.98	geometry_kernels.OrientPredicates.time_on_minor_arc
51.9±0.4μs	50.9±1μs	0.98	geometry_kernels.OrientPredicates.time_orient3d_on_sphere
3.10±0.01ms	3.07±0ms	0.99	geometry_samebody.SameBodyConstLat.time_accux_dispatch
1.16±0ms	1.17±0.01ms	1.01	geometry_samebody.SameBodyConstLat.time_accux_kernel
2.30±0.01ms	2.30±0.01ms	1.00	geometry_samebody.SameBodyConstLat.time_fp64_dispatch
146±0.2μs	146±0.08μs	1.00	geometry_samebody.SameBodyConstLat.time_fp64_kernel
29.6±0.03ms	29.6±0.03ms	1.00	geometry_samebody_gcagca.SameBodyGcaGca.time_accux_dispatch
6.32±0.04ms	6.29±0.02ms	0.99	geometry_samebody_gcagca.SameBodyGcaGca.time_accux_kernel
23.8±0.2ms	23.6±0.08ms	0.99	geometry_samebody_gcagca.SameBodyGcaGca.time_fp64_dispatch
891±10μs	859±1μs	0.96	geometry_samebody_gcagca.SameBodyGcaGca.time_fp64_kernel
928±10ms	938±8ms	1.01	import.Imports.timeraw_import_uxarray
2.47±0.03ms	2.48±0.01ms	1.00	mpas_ocean.CheckNorm.time_check_norm('120km')
2.08±0.06ms	2.00±0.01ms	0.96	mpas_ocean.CheckNorm.time_check_norm('480km')
1.17±0.01ms	1.14±0.01ms	0.98	mpas_ocean.ConnectivityConstruction.time_face_face_connectivity('120km')
571±10μs	554±10μs	0.97	mpas_ocean.ConnectivityConstruction.time_face_face_connectivity('480km')
678±10μs	642±5μs	0.95	mpas_ocean.ConnectivityConstruction.time_n_nodes_per_face('120km')
603±9μs	597±10μs	0.99	mpas_ocean.ConnectivityConstruction.time_n_nodes_per_face('480km')
5.36±0.07ms	5.31±0.05ms	0.99	mpas_ocean.ConstructFaceLatLon.time_cartesian_averaging('120km')
3.87±0.05ms	3.88±0.02ms	1.00	mpas_ocean.ConstructFaceLatLon.time_cartesian_averaging('480km')
97.1±0.07ms	97.8±0.1ms	1.01	mpas_ocean.ConstructFaceLatLon.time_welzl('120km')
10.2±0.3ms	9.85±0.3ms	0.96	mpas_ocean.ConstructFaceLatLon.time_welzl('480km')
18.7±0.06ms	19.3±0.4ms	1.03	mpas_ocean.ConstructTreeStructures.time_ball_tree('120km')
977±20μs	982±20μs	1.01	mpas_ocean.ConstructTreeStructures.time_ball_tree('480km')
10.1±0.07ms	11.6±2ms	~1.15	mpas_ocean.ConstructTreeStructures.time_kd_tree('120km')
614±20μs	723±70μs	~1.18	mpas_ocean.ConstructTreeStructures.time_kd_tree('480km')
625±7ms	590±7ms	0.94	mpas_ocean.CrossSections.time_const_lat('120km', 1)
307±9ms	299±1ms	0.97	mpas_ocean.CrossSections.time_const_lat('120km', 2)
156±2ms	154±1ms	0.99	mpas_ocean.CrossSections.time_const_lat('120km', 4)
567±6ms	547±5ms	0.97	mpas_ocean.CrossSections.time_const_lat('480km', 1)
279±2ms	278±5ms	1.00	mpas_ocean.CrossSections.time_const_lat('480km', 2)
141±3ms	143±2ms	1.01	mpas_ocean.CrossSections.time_const_lat('480km', 4)
349M	337M	0.97	mpas_ocean.CrossSectionsPeakMem.track_peakmem_const_lat('120km', 1)
349M	337M	0.97	mpas_ocean.CrossSectionsPeakMem.track_peakmem_const_lat('120km', 2)
349M	337M	0.97	mpas_ocean.CrossSectionsPeakMem.track_peakmem_const_lat('120km', 4)
349M	320M	0.92	mpas_ocean.CrossSectionsPeakMem.track_peakmem_const_lat('480km', 1)
349M	320M	0.92	mpas_ocean.CrossSectionsPeakMem.track_peakmem_const_lat('480km', 2)
349M	320M	0.92	mpas_ocean.CrossSectionsPeakMem.track_peakmem_const_lat('480km', 4)
26.6±0.2ms	26.1±0.6ms	0.98	mpas_ocean.DualMesh.time_dual_mesh_construction('120km')
3.00±0.05ms	2.89±0.02ms	0.96	mpas_ocean.DualMesh.time_dual_mesh_construction('480km')
14.9±0.6ms	14.9±0.6ms	1.00	mpas_ocean.FaceAreas.time_face_areas('120km')
4.27±0.2ms	4.31±0.2ms	1.01	mpas_ocean.FaceAreas.time_face_areas('480km')
229k	229k	1.00	mpas_ocean.FaceAreas.track_nbytes_face_areas('120km')
14.3k	14.3k	1.00	mpas_ocean.FaceAreas.track_nbytes_face_areas('480km')
2.12M	2.12M	1.00	mpas_ocean.FaceAreas.track_peakmem_face_areas('120km')
715k	715k	1.00	mpas_ocean.FaceAreas.track_peakmem_face_areas('480km')
921±9ms	905±10ms	0.98	mpas_ocean.GeoDataFrame.time_to_geodataframe('120km', False)
52.7±0.8ms	52.9±0.6ms	1.00	mpas_ocean.GeoDataFrame.time_to_geodataframe('120km', True)
81.7±0.1ms	82.2±0.5ms	1.01	mpas_ocean.GeoDataFrame.time_to_geodataframe('480km', False)
5.30±0.4ms	5.42±0.2ms	1.02	mpas_ocean.GeoDataFrame.time_to_geodataframe('480km', True)
13.5±0.6ms	13.2±0.1ms	0.97	mpas_ocean.Gradient.time_gradient('120km')
1.84±0.01ms	1.81±0.02ms	0.99	mpas_ocean.Gradient.time_gradient('480km')
457k	457k	1.00	mpas_ocean.Gradient.track_nbytes_gradient('120km')
28.7k	28.7k	1.00	mpas_ocean.Gradient.track_nbytes_gradient('480km')
3.2M	3.2M	1.00	mpas_ocean.Gradient.track_peakmem_gradient('120km')
204k	204k	1.00	mpas_ocean.Gradient.track_peakmem_gradient('480km')
349M	333M	0.95	mpas_ocean.GradientColdStartRss.track_peakmem_gradient('120km')
274±10μs	273±7μs	1.00	mpas_ocean.HoleEdgeIndices.time_construct_hole_edge_indices('120km')
149±10μs	147±5μs	0.99	mpas_ocean.HoleEdgeIndices.time_construct_hole_edge_indices('480km')
205±7μs	200±2μs	0.97	mpas_ocean.Integrate.time_integrate('120km')
188±4μs	187±3μs	1.00	mpas_ocean.Integrate.time_integrate('480km')
18.4M	18.4M	1.00	mpas_ocean.Integrate.track_nbytes_integrate('120km')
1.2M	1.2M	1.00	mpas_ocean.Integrate.track_nbytes_integrate('480km')
182±0.9ms	187±1ms	1.03	mpas_ocean.MatplotlibConversion.time_dataarray_to_polycollection('120km', 'exclude')
183±1ms	187±0.7ms	1.02	mpas_ocean.MatplotlibConversion.time_dataarray_to_polycollection('120km', 'include')
184±3ms	186±2ms	1.01	mpas_ocean.MatplotlibConversion.time_dataarray_to_polycollection('120km', 'split')
13.0±0.3ms	13.1±0.2ms	1.01	mpas_ocean.MatplotlibConversion.time_dataarray_to_polycollection('480km', 'exclude')
13.4±0.3ms	13.2±0.3ms	0.99	mpas_ocean.MatplotlibConversion.time_dataarray_to_polycollection('480km', 'include')
13.1±0.2ms	13.2±0.2ms	1.01	mpas_ocean.MatplotlibConversion.time_dataarray_to_polycollection('480km', 'split')
248±1ms	245±0.4ms	0.99	mpas_ocean.NeighborhoodBuild.time_build('120km', 1.0)
1.31±0s	1.31±0s	1.00	mpas_ocean.NeighborhoodBuild.time_build('120km', 15.0)
506±2ms	507±1ms	1.00	mpas_ocean.NeighborhoodBuild.time_build('120km', 5.0)
13.4±0.2ms	13.5±0.09ms	1.00	mpas_ocean.NeighborhoodBuild.time_build('480km', 1.0)
25.4±0.1ms	25.5±0.1ms	1.01	mpas_ocean.NeighborhoodBuild.time_build('480km', 15.0)
16.6±0.2ms	16.4±0.03ms	0.99	mpas_ocean.NeighborhoodBuild.time_build('480km', 5.0)
243±0.9ms	240±0.2ms	0.99	mpas_ocean.NeighborhoodBuild.time_query_radius('120km', 1.0)
1.29±0s	1.28±0s	1.00	mpas_ocean.NeighborhoodBuild.time_query_radius('120km', 15.0)
501±1ms	501±0.5ms	1.00	mpas_ocean.NeighborhoodBuild.time_query_radius('120km', 5.0)
12.9±0.04ms	13.0±0.06ms	1.00	mpas_ocean.NeighborhoodBuild.time_query_radius('480km', 1.0)
25.3±0.2ms	25.0±0.08ms	0.99	mpas_ocean.NeighborhoodBuild.time_query_radius('480km', 15.0)
16.2±0.2ms	16.2±0.05ms	1.00	mpas_ocean.NeighborhoodBuild.time_query_radius('480km', 5.0)
1.19	1.19	1.00	mpas_ocean.NeighborhoodBuild.track_mean_neighbors('120km', 1.0)
612.76	612.76	1.00	mpas_ocean.NeighborhoodBuild.track_mean_neighbors('120km', 15.0)
74.17	74.17	1.00	mpas_ocean.NeighborhoodBuild.track_mean_neighbors('120km', 5.0)
1.0	1.0	1.00	mpas_ocean.NeighborhoodBuild.track_mean_neighbors('480km', 1.0)
37.29	37.29	1.00	mpas_ocean.NeighborhoodBuild.track_mean_neighbors('480km', 15.0)
6.57	6.57	1.00	mpas_ocean.NeighborhoodBuild.track_mean_neighbors('480km', 5.0)
728k	728k	1.00	mpas_ocean.NeighborhoodBuild.track_nbytes_neighbors('120km', 1.0)
141M	141M	1.00	mpas_ocean.NeighborhoodBuild.track_nbytes_neighbors('120km', 15.0)
17.4M	17.4M	1.00	mpas_ocean.NeighborhoodBuild.track_nbytes_neighbors('120km', 5.0)
43k	43k	1.00	mpas_ocean.NeighborhoodBuild.track_nbytes_neighbors('480km', 1.0)
563k	563k	1.00	mpas_ocean.NeighborhoodBuild.track_nbytes_neighbors('480km', 15.0)
123k	123k	1.00	mpas_ocean.NeighborhoodBuild.track_nbytes_neighbors('480km', 5.0)
5.72M	5.72M	1.00	mpas_ocean.NeighborhoodBuild.track_peakmem_build('120km', 1.0)
145M	145M	1.00	mpas_ocean.NeighborhoodBuild.track_peakmem_build('120km', 15.0)
21.5M	21.5M	1.00	mpas_ocean.NeighborhoodBuild.track_peakmem_build('120km', 5.0)
362k	362k	1.00	mpas_ocean.NeighborhoodBuild.track_peakmem_build('480km', 1.0)
825k	825k	1.00	mpas_ocean.NeighborhoodBuild.track_peakmem_build('480km', 15.0)
384k	384k	1.00	mpas_ocean.NeighborhoodBuild.track_peakmem_build('480km', 5.0)
40.7±0.9ms	40.4±0.4ms	0.99	mpas_ocean.NeighborhoodDask.time_mean('120km', 'grid_chunks')
18.3±0.05ms	18.3±0.07ms	1.00	mpas_ocean.NeighborhoodDask.time_mean('120km', 'numpy')
36.9±0.6ms	35.8±0.9ms	0.97	mpas_ocean.NeighborhoodDask.time_mean('120km', 'time_chunks')
10.9±0.1ms	11.0±0.09ms	1.01	mpas_ocean.NeighborhoodDask.time_mean('480km', 'grid_chunks')
816±30μs	792±20μs	0.97	mpas_ocean.NeighborhoodDask.time_mean('480km', 'numpy')
7.91±0.3ms	7.66±0.1ms	0.97	mpas_ocean.NeighborhoodDask.time_mean('480km', 'time_chunks')
5.83M	5.9M	1.01	mpas_ocean.NeighborhoodDask.track_peakmem_mean('120km', 'grid_chunks')
2.75M	2.75M	1.00	mpas_ocean.NeighborhoodDask.track_peakmem_mean('120km', 'numpy')
5.68M	5.68M	1.00	mpas_ocean.NeighborhoodDask.track_peakmem_mean('120km', 'time_chunks')
177k	177k	1.00	mpas_ocean.NeighborhoodDask.track_peakmem_mean('480km', 'numpy')
539k	548k	1.02	mpas_ocean.NeighborhoodDask.track_peakmem_mean('480km', 'time_chunks')
12.6±0.03s	12.6±0.03s	1.00	mpas_ocean.NeighborhoodReduce.time_dataset_reduce('120km', 'mean')
13.3±0.03s	13.3±0.02s	1.00	mpas_ocean.NeighborhoodReduce.time_dataset_reduce('120km', 'median')
226±2ms	227±2ms	1.00	mpas_ocean.NeighborhoodReduce.time_dataset_reduce('480km', 'mean')
232±1ms	232±0.8ms	1.00	mpas_ocean.NeighborhoodReduce.time_dataset_reduce('480km', 'median')
1.34±0s	1.35±0.01s	1.01	mpas_ocean.NeighborhoodReduce.time_neighborhood_reduce('120km', 'mean')
1.54±0s	1.54±0s	1.00	mpas_ocean.NeighborhoodReduce.time_neighborhood_reduce('120km', 'median')
26.1±0.1ms	25.8±0.1ms	0.99	mpas_ocean.NeighborhoodReduce.time_neighborhood_reduce('480km', 'mean')
27.2±0.2ms	27.0±0.2ms	0.99	mpas_ocean.NeighborhoodReduce.time_neighborhood_reduce('480km', 'median')
31.0±0.09ms	31.3±0.2ms	1.01	mpas_ocean.NeighborhoodReduce.time_reduce('120km', 'mean')
228±0.3ms	228±0.6ms	1.00	mpas_ocean.NeighborhoodReduce.time_reduce('120km', 'median')
511±40μs	462±30μs	~0.90	mpas_ocean.NeighborhoodReduce.time_reduce('480km', 'mean')
1.75±0.02ms	1.77±0.02ms	1.01	mpas_ocean.NeighborhoodReduce.time_reduce('480km', 'median')
239k	239k	1.00	mpas_ocean.NeighborhoodReduce.track_peakmem_reduce('120km', 'mean')
245k	245k	1.00	mpas_ocean.NeighborhoodReduce.track_peakmem_reduce('120km', 'median')
19.5k	19.5k	1.00	mpas_ocean.NeighborhoodReduce.track_peakmem_reduce('480km', 'mean')
19.9k	19.9k	1.00	mpas_ocean.NeighborhoodReduce.track_peakmem_reduce('480km', 'median')
427±20μs	401±10μs	0.94	mpas_ocean.PointInPolygon.time_face_search_lonlat('120km')
402±10μs	398±8μs	0.99	mpas_ocean.PointInPolygon.time_face_search_lonlat('480km')
382±10μs	426±20μs	~1.12	mpas_ocean.PointInPolygon.time_face_search_xyz('120km')
384±10μs	375±20μs	0.98	mpas_ocean.PointInPolygon.time_face_search_xyz('480km')
133±0.9ms	131±0.6ms	0.99	mpas_ocean.RemapDownsample.time_bilinear_remapping
17.2±0.1ms	17.1±0.1ms	0.99	mpas_ocean.RemapDownsample.time_inverse_distance_weighted_remapping
15.5±0.1ms	15.6±0.09ms	1.01	mpas_ocean.RemapDownsample.time_nearest_neighbor_remapping
1.43±0s	1.42±0s	0.99	mpas_ocean.RemapUpsample.time_bilinear_remapping
26.8±0.3ms	26.7±0.2ms	1.00	mpas_ocean.RemapUpsample.time_inverse_distance_weighted_remapping
12.7±0.2ms	12.4±0.4ms	0.97	mpas_ocean.RemapUpsample.time_nearest_neighbor_remapping
8.46±0.06ms	8.29±0.2ms	0.98	mpas_ocean.ZonalAverage.time_zonal_average('120km')
5.21±0.09ms	5.22±0.09ms	1.00	mpas_ocean.ZonalAverage.time_zonal_average('480km')
349M	339M	0.97	mpas_ocean.ZonalAveragePeakMem.track_peakmem_zonal_average('120km')
349M	322M	0.92	mpas_ocean.ZonalAveragePeakMem.track_peakmem_zonal_average('480km')
1.0372335911660553	1.0336878180661495	1.00	nogil_scaling.GILScaling.track_gil_scaling
7.19±0.3ms	7.24±0.04ms	1.01	quad_hexagon.QuadHexagon.time_open_dataset
6.22±0.2ms	6.11±0.03ms	0.98	quad_hexagon.QuadHexagon.time_open_grid
408	408	1.00	quad_hexagon.QuadHexagon.track_nbytes_open_dataset
392	392	1.00	quad_hexagon.QuadHexagon.track_nbytes_open_grid
73.6k	73.6k	1.00	quad_hexagon.QuadHexagon.track_peakmem_open_dataset
72.6k	72.7k	1.00	quad_hexagon.QuadHexagon.track_peakmem_open_grid

Benchmarks that have got worse:

Change	Before [`9609c3a`]	After [`4871ee1`]	Ratio	Benchmark (Parameter)
+	671k	757k	1.13	mpas_ocean.NeighborhoodDask.track_peakmem_mean('480km', 'grid_chunks')

Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>

Drop the GridBenchmark template, whose full cached_grid setup was always overridden, and root MinimalGridBenchmark on CachedFixtures directly so the suite only touches the parent-preloaded topology fixtures. Pin numba threads around the tracemalloc samples, as the other suites do, since edge_node and face_edge are built by parallel kernels. Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>

cmdupuis3 added 2 commits August 7, 2026 15:57

Peakmem benchmarks; chunked not working yet

1de2c3c

Connectivity peakmem: remove chunking logic

e587810

cmdupuis3 self-assigned this Aug 8, 2026

cmdupuis3 added the benchmarking Related to benchmarks, memory usage, and/or time profiling label Aug 8, 2026

cmdupuis3 and others added 5 commits August 7, 2026 19:53

missing node_edge caching

4a2d244

connectivity benchmarks comment cleanup

ad294a2

Merge branch 'main' into cmd/connectivity_peakmem

1e7413d

connectivity peakmem: whole chain benchmarks (may remove later)

8334943

longer connectivity bench timeout

3273fef

cmdupuis3 added the run-benchmark Run ASV benchmark workflow label Aug 21, 2026

cmdupuis3 and others added 10 commits September 1, 2026 13:17

Merge branch 'main' into cmd/connectivity_peakmem

f997eaf

Merge branch 'main' into cmd/connectivity_peakmem

1c23dda

Merge branch 'main' into cmd/connectivity_peakmem

b342581

Merge branch 'main' into cmd/connectivity_peakmem

cc9a3c3

Merge branch 'main' into cmd/connectivity_peakmem

3a21e5f

Merge branch 'main' into cmd/connectivity_peakmem

0cbcfd4

Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>

Merge branch 'main' into cmd/connectivity_peakmem

33ed3bf

Merge branch 'main' into cmd/connectivity_peakmem

fd533e2

Connectivity benchmarks streamlined

99b2757

cmdupuis3 marked this pull request as ready for review September 29, 2026 21:01

cmdupuis3 requested review from Sevans711 and dylannelson September 29, 2026 21:01

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Connectivity peakmem benchmarks - #1661

Connectivity peakmem benchmarks#1661
cmdupuis3 wants to merge 17 commits into
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