geobench is a place to put data (in the releases) and code (in any language) to test performance.
It relies on the bench package for testing and datasets uploaded into
the releases.
This section lists the software that needs to be installed to run these benchmarks. It will likely evolve over time.
benchsfspspData
The code in this section only needs to run once, or at least each time a new dataset is added to the benchmarks.
Python was set-up to run python3. This can be done at the system level
or, if you’re running these benchmarks from RStudio by adding the
following line to .Renviron (which can be edited with
usethis::edit_r_environ()):
RETICULATE_PYTHON=/usr/bin/python3
ac = stats19::get_stats19(year = 2022, output_format = "sf")
sf::write_sf(ac, "ac.geojson", delete_dsn = TRUE)
fs::file_size("ac.geojson")
# 147 MB .geojson file
sf::write_sf(ac[1:1e6, ], "ac-M.geojson", delete_dsn = TRUE)
sf::write_sf(ac[1:1e5, ], "ac-100K.geojson", delete_dsn = TRUE)
sf::write_sf(ac[1:1e4, ], "ac-10K.geojson", delete_dsn = TRUE)
sf::write_sf(ac[1:1e3, ], "ac-1K.geojson", delete_dsn = TRUE)
zip("ac.geojson.zip", "ac.geojson") # 14 MB
piggyback::pb_upload(file = "ac.geojson.zip")
piggyback::pb_upload(file = "ac-100K.geojson")
piggyback::pb_upload(file = "ac-10K.geojson")
reticulate::py_install("pytictoc")if(!file.exists("ac.geojson")) {
download.file("https://github.com/ATFutures/geobench/releases/download/0.0.1/ac.geojson.zip", "ac.geojson.zip")
unzip("ac.geojson.zip")
download.file("https://github.com/ATFutures/geobench/releases/download/0.0.1/ac-100k.geojson", "ac-100k.geojson")
download.file("https://github.com/ATFutures/geobench/releases/download/0.0.1/ac-10k.geojson", "ac-10k.geojson")
}Took too long to run and consumed too much memory to evaluate each time. Results from first run pasted below:
bench::mark(iterations = 1, check = FALSE,
{ac_sf = sf::read_sf("ac.geojson")},
{ac_sp = rgdal::readOGR("ac.geojson")}
)
#> expression min mean median max `itr/sec` mem_alloc
#> <chr> <bch:t> <bch:t> <bch:tm> <bch:t> <dbl> <bch:byt>
#> 1 {... 36.7s 36.7s 36.7s 36.7s 0.0272 655.6MB
#> 2 {... 2m 2m 2m 2m 0.00835 1.2GB This runs happily and quickly so the results are run each time:
bench::mark(iterations = 1, check = FALSE,
geosf = {ac_gsf = geojsonsf::geojson_sf("ac-100K.geojson")},
sf = {ac_sf10k = sf::read_sf("ac-100K.geojson")},
sp = {ac_sp10k = rgdal::readOGR("ac-100K.geojson", verbose = F)}
)
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: OGR support is provided by the sf and terra packages among others
#> Warning: Some expressions had a GC in every iteration; so filtering is
#> disabled.
#> # A tibble: 3 × 6
#> expression min median `itr/sec` mem_alloc `gc/sec`
#> <bch:expr> <bch:tm> <bch:tm> <dbl> <bch:byt> <dbl>
#> 1 geosf 4.89s 4.89s 0.204 36.3MB 1.02
#> 2 sf 6.8s 6.8s 0.147 70.2MB 1.77
#> 3 sp 1.63m 1.63m 0.0102 112MB 0.0102pip3 install geopandas
pip3 install pytictoc
pip3 install rasterioimport sys
print(sys.version)
#> 3.10.12 (main, Nov 20 2023, 15:14:05) [GCC 11.4.0]
import geopandas as gpd
from pytictoc import TicToc
t = TicToc()
t.tic()
s = gpd.read_file("ac-100K.geojson")
t.toc()
#> Elapsed time is 43.601560 seconds.Work in progress…
system("lscpu", intern = TRUE)
#> [1] "Architecture: x86_64"
#> [2] "CPU op-mode(s): 32-bit, 64-bit"
#> [3] "Address sizes: 39 bits physical, 48 bits virtual"
#> [4] "Byte Order: Little Endian"
#> [5] "CPU(s): 16"
#> [6] "On-line CPU(s) list: 0-15"
#> [7] "Vendor ID: GenuineIntel"
#> [8] "Model name: 12th Gen Intel(R) Core(TM) i5-1240P"
#> [9] "CPU family: 6"
#> [10] "Model: 154"
#> [11] "Thread(s) per core: 2"
#> [12] "Core(s) per socket: 12"
#> [13] "Socket(s): 1"
#> [14] "Stepping: 3"
#> [15] "CPU max MHz: 4400.0000"
#> [16] "CPU min MHz: 400.0000"
#> [17] "BogoMIPS: 4224.00"
#> [18] "Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf tsc_known_freq pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb ssbd ibrs ibpb stibp ibrs_enhanced tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 avx2 smep bmi2 erms invpcid rdseed adx smap clflushopt clwb intel_pt sha_ni xsaveopt xsavec xgetbv1 xsaves split_lock_detect avx_vnni dtherm ida arat pln pts hwp hwp_notify hwp_act_window hwp_epp hwp_pkg_req hfi umip pku ospke waitpkg gfni vaes vpclmulqdq rdpid movdiri movdir64b fsrm md_clear serialize arch_lbr ibt flush_l1d arch_capabilities"
#> [19] "Virtualisation: VT-x"
#> [20] "L1d cache: 448 KiB (12 instances)"
#> [21] "L1i cache: 640 KiB (12 instances)"
#> [22] "L2 cache: 9 MiB (6 instances)"
#> [23] "L3 cache: 12 MiB (1 instance)"
#> [24] "NUMA node(s): 1"
#> [25] "NUMA node0 CPU(s): 0-15"
#> [26] "Vulnerability Gather data sampling: Not affected"
#> [27] "Vulnerability Itlb multihit: Not affected"
#> [28] "Vulnerability L1tf: Not affected"
#> [29] "Vulnerability Mds: Not affected"
#> [30] "Vulnerability Meltdown: Not affected"
#> [31] "Vulnerability Mmio stale data: Not affected"
#> [32] "Vulnerability Retbleed: Not affected"
#> [33] "Vulnerability Spec rstack overflow: Not affected"
#> [34] "Vulnerability Spec store bypass: Mitigation; Speculative Store Bypass disabled via prctl"
#> [35] "Vulnerability Spectre v1: Mitigation; usercopy/swapgs barriers and __user pointer sanitization"
#> [36] "Vulnerability Spectre v2: Mitigation; Enhanced IBRS, IBPB conditional, RSB filling, PBRSB-eIBRS SW sequence"
#> [37] "Vulnerability Srbds: Not affected"
#> [38] "Vulnerability Tsx async abort: Not affected"