SciMLBenchmarks.jl Versions Save

SciMLBenchmarks v0.1.3

Diff since v0.1.2

SciMLBenchmarks v0.1.2

Diff since v0.1.1

Closed issues:

• PDE notebooks need to be rerun or re-linked (#53)
• No recompilation of Stan models in Bayesian benchmarks (#103)
• Make a Brusselator benchmark (#107)
• Re-run parameter estimation benchmarks (#129)
• Fix automated notebooks (#310)
• PINN solver benchmarks are broken (#353)
• Dynamical ODE benchmark HTML is too big (#455)
• Errors in precompilation (#469)
• Fixing the Stan binary for the Bayesian estimation (#484)
• Ensure Stan defaults used in benchmarks (#489)
• Stan and Turing.jl don't use the same HMC parameters (#492)
• Stan and Turing.jl don't sample from the same posteriors for the Bayesian parameter estimation benchmarks (#493)
• Newly added Gupta (bio) benchmarks links not working in the Readme (#498)

Merged pull requests:

• update parameter_estimation (#362) (@ChrisRackauckas)
• Jump benchmarks (#408) (@isaacsas)
• Add MethodOfLines Benchmark (#425) (@xtalax)
• bump nbody (#450) (@ChrisRackauckas)
• bump adaptive sde (#451) (@ChrisRackauckas)
• Use default names for algorithms in DDE benchmarks (#468) (@devmotion)
• bump DynamicalODE (#470) (@ChrisRackauckas)
• bump non-stiff SDE (#471) (@ChrisRackauckas)
• change sigmoid to tanh in PINNs' benchmarks (#473) (@YichengDWu)
• Bump Lotka-Volterra SDE (#474) (@ChrisRackauckas)
• CompatHelper: add new compat entry for StanSample at version 6 for package BayesianInference, (keep existing compat) (#476) (@github-actions[bot])
• CompatHelper: add new compat entry for DiffEqCallbacks at version 2 for package BayesianInference, (keep existing compat) (#477) (@github-actions[bot])
• CompatHelper: add new compat entry for Turing at version 0.21 for package BayesianInference, (keep existing compat) (#478) (@github-actions[bot])
• Attempt another Bayesian inference build (#485) (@ChrisRackauckas)
• Fix PDE definition for Nernst-Planck (#486) (@ChrisRackauckas)
• Add Gupta model benchmarks (#487) (@TorkelE)
• badges (#488) (@ArnoStrouwen)
• MassInstallAction: Install the Invalidations workflow on this repository (#490) (@devmotion)
• Add extrapolation benchmarks to new bio models (#491) (@utkarsh530)
• Try using a static direct Turing.jl version (#495) (@ChrisRackauckas)
• change adapt_delta to fit with Turing.jl (#497) (@EvoArt)
• bump a few packages (#499) (@ChrisRackauckas)
• Fix the Stan delta choice to match Turing (#500) (@ChrisRackauckas)
• CompatHelper: add new compat entry for StaticArrays at version 1 for package BayesianInference, (keep existing compat) (#501) (@github-actions[bot])
• Update gupta benchmarks (#502) (@TorkelE)
• update to v1.8 and update Bio to have nonstiff stuff (#504) (@ChrisRackauckas)
• Update stiff ODE benchmarks for Rodas5P and specializations (#505) (@ChrisRackauckas)
• update non-stiff ODEs to have static arrays and full specialization (#506) (@ChrisRackauckas)
• CompatHelper: add new compat entry for StaticArrays at version 1 for package NonStiffODE, (keep existing compat) (#507) (@github-actions[bot])
• Fix up Brusselator benchmark (#508) (@ChrisRackauckas)
• Create static versions of the problems for small stiff (#509) (@ChrisRackauckas)
• simplify static stiff (#510) (@ChrisRackauckas)
• Expand bruss benchmarks (#511) (@ChrisRackauckas)
• CompatHelper: add new compat entry for AlgebraicMultigrid at version 0.5 for package StiffODE, (keep existing compat) (#512) (@github-actions[bot])
• CompatHelper: add new compat entry for Symbolics at version 4 for package StiffODE, (keep existing compat) (#513) (@github-actions[bot])
• CompatHelper: add new compat entry for IncompleteLU at version 0.2 for package StiffODE, (keep existing compat) (#514) (@github-actions[bot])
• CompatHelper: add new compat entry for ModelingToolkit at version 8 for package StiffODE, (keep existing compat) (#515) (@github-actions[bot])
• Update problem library for StiffSDE (#516) (@ChrisRackauckas)
• update stiff dde (#517) (@ChrisRackauckas)
• update nonstiff sde (#518) (@ChrisRackauckas)
• update nonstiff dde (#519) (@ChrisRackauckas)
• update to jump problem library (#520) (@ChrisRackauckas)
• bump pde (#521) (@ChrisRackauckas)
• add fast bruss implemenation (#522) (@ChrisRackauckas)
• bump multisite and multistate (#523) (@ChrisRackauckas)
• Bump fceri (#524) (@ChrisRackauckas)
• CompatHelper: add new compat entry for LinearSolve at version 1 for package Bio, (keep existing compat) (#525) (@github-actions[bot])
• Adjust some of the new bio benchmarks to stop around steady state time (#526) (@ChrisRackauckas)
• Update Bio WP diagrams (#527) (@TorkelE)
• .buildkite: run_benchmark: use v1 of coppermind plugin (#529) (@thazhemadam)
• Try new Bio build (#533) (@ChrisRackauckas)
• Fix typo in BCR (#534) (@ChrisRackauckas)
• full specialize in Bidkhori2012 (#535) (@ChrisRackauckas)
• remove extrapolation from sparse (#536) (@ChrisRackauckas)
• Fix preconditioner definitions (#537) (@ChrisRackauckas)
• Bump DynamicalODE (#539) (@ChrisRackauckas)
• Bump Bayes (#540) (@ChrisRackauckas)
• MOL move to analytic errors for burgers (#541) (@xtalax)
• CompatHelper: add new compat entry for MethodOfLines at version 0.7 for package MOLPDE, (keep existing compat) (#542) (@github-actions[bot])
• CompatHelper: add new compat entry for ModelingToolkit at version 8 for package MOLPDE, (keep existing compat) (#543) (@github-actions[bot])
• CompatHelper: add new compat entry for DomainSets at version 0.6 for package MOLPDE, (keep existing compat) (#544) (@github-actions[bot])
• CompatHelper: add new compat entry for Sundials at version 4 for package MethodOfLinesPDE, (keep existing compat) (#545) (@github-actions[bot])
• CompatHelper: add new compat entry for OrdinaryDiffEq at version 6 for package MethodOfLinesPDE, (keep existing compat) (#546) (@github-actions[bot])
• CompatHelper: add new compat entry for LinearSolve at version 1 for package MethodOfLinesPDE, (keep existing compat) (#547) (@github-actions[bot])
• CompatHelper: add new compat entry for MethodOfLines at version 0.7 for package StiffODE, (keep existing compat) (#553) (@github-actions[bot])
• CompatHelper: add new compat entry for DomainSets at version 0.6 for package StiffODE, (keep existing compat) (#554) (@github-actions[bot])
• Bump stiff Bio models (#558) (@ChrisRackauckas)
• Update buildkite tags and re-sign treehashes (#559) (@thazhemadam)
• Adds Coevolve aggregator to the Jumps benchmark suite (#565) (@gzagatti)
• ci: fix encrypted repo_key and sign treehashes (#568) (@thazhemadam)
• Disable test checking for .html (#569) (@ChrisRackauckas)
• Fullspecialize on the Bio benchmarks (#572) (@ChrisRackauckas)
• update burgers mol package versions (should be working now) (#574) (@xtalax)
• add BCR benchmark summary figure (#577) (@TorkelE)
• improve Bio benchmarks (#581) (@TorkelE)
• Automatic benchmarking of various MOL discretizations across all of PDESystemLibrary (#583) (@xtalax)
• Adds Multivariate Hawkes benchmark. (#584) (@gzagatti)
• MultivariateHawkes: Do not run Python benchmark in the cloud (#585) (@gzagatti)
• enable dependabot for GitHub actions (#591) (@ranocha)
• Bump actions/checkout from 2 to 3 (#592) (@dependabot[bot])
• CompatHelper: bump compat for LinearSolve to 2 for package Bio, (keep existing compat) (#600) (@github-actions[bot])
• CompatHelper: bump compat for LinearSolve to 2 for package MethodOfLinesPDE, (keep existing compat) (#601) (@github-actions[bot])
• CompatHelper: bump compat for LinearSolve to 2 for package StiffODE, (keep existing compat) (#602) (@github-actions[bot])

SciMLBenchmarks v0.1.1

Diff since v0.1.0

Closed issues:

• Interesting benchmark problems (#35)
• Missing BCR (1122) benchmark page (#185)
• Fix DynamicalODE Benchmarks (#261)
• Fix Jumps Benchmarks (#262)
• Fix VanDerPol and ROBER notebooks (#325)
• Scale which benchmarking has been done? (#399)
• Jump process benchmarks are old (#456)

Merged pull requests:

• update DynamicalODE benchmarks (#229) (@ChrisRackauckas)
• update Jumps benchmarks (#230) (@ChrisRackauckas)
• fix liquid argon (#245) (@ChrisRackauckas)
• bump parameter estimation benchmarks (#246) (@ChrisRackauckas)
• bump non-stiff SDE benchmarks (#247) (@ChrisRackauckas)
• Update BCR.jmd (#249) (@ChrisRackauckas)
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package Bio (#251) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package NBodySimulator (#252) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package NonStiffDDE (#253) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package NonStiffODE (#254) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package NonStiffSDE (#255) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package ParameterEstimation (#256) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package StiffDDE (#257) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package StiffODE (#258) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package StiffSDE (#259) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package Testing (#260) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package AdaptiveSDE (#263) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package DynamicalODE (#264) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package AdaptiveSDE (#265) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package Jumps (#266) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package DynamicalODE (#267) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package MOLPDE (#268) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package Jumps (#269) (@github-actions[bot])
• CompatHelper: add new compat entry for "SciMLBenchmarks" at version "0.1" for package MultiLanguage (#270) (@github-actions[bot])
• CompatHelper: bump compat for "BlackBoxOptim" to "0.6" for package ParameterEstimation (#272) (@github-actions[bot])
• CompatHelper: bump compat for "BlackBoxOptim" to "0.6" for package ParameterEstimation (#273) (@github-actions[bot])
• update Jump benchmarks to use Catalyst.jl (#275) (@ChrisRackauckas)
• CompatHelper: bump compat for "BenchmarkTools" to "1.0" for package NBodySimulator (#276) (@github-actions[bot])
• CompatHelper: bump compat for "BenchmarkTools" to "1.0" for package ParameterEstimation (#277) (@github-actions[bot])
• Fix DynamicalODE Benchmarks (#278) (@SebastianM-C)
• update to add QNDF (#280) (@ChrisRackauckas)
• update BCR benchmarks (#281) (@ChrisRackauckas)
• Stop the autodiff explosion in BCR (#283) (@ChrisRackauckas)
• Update 2 of the Jumps benchmarks to use Catalyst (#286) (@Gregliest)
• Update README instructions. (#287) (@Gregliest)
• [WIP] Fix Diffusion benchmark. (#288) (@Gregliest)
• Fix Mendes Benchmark (#289) (@Gregliest)
• CompatHelper: add new compat entry for "ModelingToolkit" at version "5" for package Jumps (#290) (@github-actions[bot])
• CompatHelper: bump compat for "DiffEqJump" to "7" for package Jumps (#292) (@github-actions[bot])
• CompatHelper: bump compat for "Catalyst" to "7" for package Bio (#293) (@github-actions[bot])
• CompatHelper: bump compat for "Catalyst" to "7" for package Jumps (#294) (@github-actions[bot])
• CompatHelper: bump compat for "ReactionNetworkImporters" to "0.9" for package Bio (#295) (@github-actions[bot])
• CompatHelper: bump compat for "ModelingToolkit" to "6" for package Bio (#296) (@github-actions[bot])
• CompatHelper: bump compat for "ModelingToolkit" to "6" for package Jumps (#297) (@github-actions[bot])
• CompatHelper: bump compat for ReactionNetworkImporters to 0.10 for package Bio, (keep existing compat) (#299) (@github-actions[bot])
• CompatHelper: bump compat for Catalyst to 8 for package Bio, (keep existing compat) (#300) (@github-actions[bot])
• CompatHelper: bump compat for Catalyst to 8 for package Jumps, (keep existing compat) (#301) (@github-actions[bot])
• CompatHelper: bump compat for Catalyst to 8 for package Bio, (keep existing compat) (#302) (@github-actions[bot])
• CompatHelper: bump compat for ReactionNetworkImporters to 0.10 for package Bio, (keep existing compat) (#303) (@github-actions[bot])
• CompatHelper: bump compat for Catalyst to 8 for package Jumps, (keep existing compat) (#304) (@github-actions[bot])
• CompatHelper: bump compat for ReactionNetworkImporters to 0.11 for package Bio, (keep existing compat) (#305) (@github-actions[bot])
• CompatHelper: bump compat for Catalyst to 9 for package Bio, (keep existing compat) (#306) (@github-actions[bot])
• CompatHelper: bump compat for Catalyst to 9 for package Jumps, (keep existing compat) (#307) (@github-actions[bot])
• update BCR and its manifest (#308) (@isaacsas)
• Remove the pdf and notebook defaults (#311) (@ChrisRackauckas)
• CompatHelper: bump compat for Catalyst to 10 for package Jumps, (keep existing compat) (#313) (@github-actions[bot])
• CompatHelper: bump compat for ModelingToolkit to 7 for package Bio, (keep existing compat) (#315) (@github-actions[bot])
• CompatHelper: bump compat for ModelingToolkit to 7 for package Jumps, (keep existing compat) (#316) (@github-actions[bot])
• CompatHelper: bump compat for DiffEqJump to 8 for package Jumps, (keep existing compat) (#317) (@github-actions[bot])
• CompatHelper: bump compat for ReactionNetworkImporters to 0.12 for package Bio, (keep existing compat) (#318) (@github-actions[bot])
• Update bcr for defaults (#320) (@isaacsas)
• Add FBDF to the benchmarks (#321) (@YingboMa)
• Move CI to juliaecosystem (#322) (@staticfloat)
• No pdf (#323) (@ChrisRackauckas)
• fix test, again (#324) (@ChrisRackauckas)
• Fix VanderPol and Rober benchmark (#326) (@JunpengGao233)
• Add NeuralPDE Paper Benchmarks (#327) (@ChrisRackauckas)
• CompatHelper: add new compat entry for QuasiMonteCarlo at version 0.2 for package PINNErrorsVsTime, (keep existing compat) (#328) (@github-actions[bot])
• CompatHelper: add new compat entry for Cuba at version 2 for package PINNErrorsVsTime, (keep existing compat) (#329) (@github-actions[bot])
• CompatHelper: add new compat entry for Optim at version 1 for package PINNErrorsVsTime, (keep existing compat) (#330) (@github-actions[bot])
• CompatHelper: add new compat entry for DiffEqFlux at version 1 for package PINNErrorsVsTime, (keep existing compat) (#331) (@github-actions[bot])
• CompatHelper: add new compat entry for NeuralPDE at version 4 for package PINNErrorsVsTime, (keep existing compat) (#332) (@github-actions[bot])
• CompatHelper: add new compat entry for Quadrature at version 1 for package PINNErrorsVsTime, (keep existing compat) (#333) (@github-actions[bot])
• CompatHelper: add new compat entry for Flux at version 0.12 for package PINNErrorsVsTime, (keep existing compat) (#334) (@github-actions[bot])
• CompatHelper: add new compat entry for ModelingToolkit at version 7 for package PINNErrorsVsTime, (keep existing compat) (#335) (@github-actions[bot])
• CompatHelper: add new compat entry for Cubature at version 1 for package PINNErrorsVsTime, (keep existing compat) (#336) (@github-actions[bot])
• CompatHelper: add new compat entry for GalacticOptim at version 2 for package PINNErrorsVsTime, (keep existing compat) (#337) (@github-actions[bot])
• CompatHelper: add new compat entry for NeuralPDE at version 4 for package PINNOptimizers, (keep existing compat) (#338) (@github-actions[bot])
• CompatHelper: add new compat entry for Plots at version 1 for package PINNOptimizers, (keep existing compat) (#339) (@github-actions[bot])
• CompatHelper: add new compat entry for GalacticOptim at version 2 for package PINNOptimizers, (keep existing compat) (#340) (@github-actions[bot])
• CompatHelper: add new compat entry for DiffEqFlux at version 1 for package PINNOptimizers, (keep existing compat) (#341) (@github-actions[bot])
• CompatHelper: add new compat entry for Cubature at version 1 for package PINNOptimizers, (keep existing compat) (#342) (@github-actions[bot])
• CompatHelper: add new compat entry for Cuba at version 2 for package PINNOptimizers, (keep existing compat) (#343) (@github-actions[bot])
• CompatHelper: add new compat entry for ModelingToolkit at version 7 for package PINNOptimizers, (keep existing compat) (#344) (@github-actions[bot])
• CompatHelper: add new compat entry for Optim at version 1 for package PINNOptimizers, (keep existing compat) (#345) (@github-actions[bot])
• CompatHelper: add new compat entry for Quadrature at version 1 for package PINNOptimizers, (keep existing compat) (#346) (@github-actions[bot])
• CompatHelper: add new compat entry for Flux at version 0.12 for package PINNOptimizers, (keep existing compat) (#347) (@github-actions[bot])
• Fix a bunch of PINN benchmarks (#348) (@ChrisRackauckas)
• CompatHelper: add new compat entry for SciMLBenchmarks at version 0.1 for package PINNErrorsVsTime, (keep existing compat) (#349) (@github-actions[bot])
• CompatHelper: add new compat entry for SciMLBenchmarks at version 0.1 for package PINNOptimizers, (keep existing compat) (#350) (@github-actions[bot])
• Fix burger's equation PINN chain definition (#351) (@ChrisRackauckas)
• Actually decrypt the SSH deploy key. (#352) (@staticfloat)
• Fix Allen Cahn pinn (#355) (@KirillZubov)
• ROBER DAE Benchmark (#357) (@ChrisRackauckas)
• DAE manifests for v1.6 (#361) (@ChrisRackauckas)
• CompatHelper: add new compat entry for SciMLBenchmarks at version 0.1 for package DAE, (keep existing compat) (#363) (@github-actions[bot])
• CompatHelper: add new compat entry for Plots at version 1 for package DAE, (keep existing compat) (#364) (@github-actions[bot])
• CompatHelper: add new compat entry for DASSL at version 2 for package DAE, (keep existing compat) (#365) (@github-actions[bot])
• CompatHelper: add new compat entry for DASKR at version 2 for package DAE, (keep existing compat) (#366) (@github-actions[bot])
• Smash SUNDIALS IDA in another DAE benchmark (Chemical Akzo) (#367) (@ChrisRackauckas)
• Update burgers_equation.jmd (#369) (@francescocalisto)
• Fix Chemical Akzo Benchmark (#370) (@AayushSabharwal)
• Fix a bunch of PINN benchmarks (#371) (@ChrisRackauckas)
• Fix a bunch of PINN benchmarks v2 (#374) (@KirillZubov)
• Try running Pkg.build() for conda (#375) (@staticfloat)
• CompatHelper: bump compat for OrdinaryDiffEq to 6 for package Bio, (keep existing compat) (#376) (@github-actions[bot])
• CompatHelper: bump compat for OrdinaryDiffEq to 6 for package DAE, (keep existing compat) (#377) (@github-actions[bot])
• CompatHelper: bump compat for OrdinaryDiffEq to 6 for package DynamicalODE, (keep existing compat) (#378) (@github-actions[bot])
• CompatHelper: bump compat for OrdinaryDiffEq to 6 for package Jumps, (keep existing compat) (#379) (@github-actions[bot])
• CompatHelper: bump compat for OrdinaryDiffEq to 6 for package MOLPDE, (keep existing compat) (#380) (@github-actions[bot])
• CompatHelper: bump compat for OrdinaryDiffEq to 6 for package MultiLanguage, (keep existing compat) (#381) (@github-actions[bot])
• CompatHelper: bump compat for OrdinaryDiffEq to 6 for package NBodySimulator, (keep existing compat) (#382) (@github-actions[bot])
• CompatHelper: bump compat for OrdinaryDiffEq to 6 for package NonStiffODE, (keep existing compat) (#383) (@github-actions[bot])
• CompatHelper: bump compat for OrdinaryDiffEq to 6 for package ParameterEstimation, (keep existing compat) (#384) (@github-actions[bot])
• CompatHelper: bump compat for OrdinaryDiffEq to 6 for package StiffODE, (keep existing compat) (#385) (@github-actions[bot])
• CompatHelper: bump compat for ModelingToolkit to 8 for package Bio, (keep existing compat) (#386) (@github-actions[bot])
• CompatHelper: bump compat for ModelingToolkit to 8 for package DAE, (keep existing compat) (#387) (@github-actions[bot])
• CompatHelper: bump compat for ModelingToolkit to 8 for package Jumps, (keep existing compat) (#388) (@github-actions[bot])
• CompatHelper: bump compat for ModelingToolkit to 8 for package PINNErrorsVsTime, (keep existing compat) (#389) (@github-actions[bot])
• CompatHelper: add new compat entry for Plots at version 1 for package PINNErrorsVsTime, (keep existing compat) (#390) (@github-actions[bot])
• CompatHelper: bump compat for ModelingToolkit to 8 for package PINNOptimizers, (keep existing compat) (#391) (@github-actions[bot])
• Try to generate doc pages (#392) (@ChrisRackauckas)
• Update the stiff ODE benchmarks (#394) (@ChrisRackauckas)
• Fix typo necesarly for necessarily (#395) (@traversaro)
• Parallel Extrapolation Methods Benchmarks (#396) (@utkarsh530)
• Show threads in test (#398) (@staticfloat)
• Bump stiff ODE benchmarks (#400) (@ChrisRackauckas)
• fix Van Der Pol (#401) (@ChrisRackauckas)
• CompatHelper: add new compat entry for GeometricIntegratorsDiffEq at version 0.2 for package StiffODE, (keep existing compat) (#402) (@github-actions[bot])
• CompatHelper: add new compat entry for SparsityDetection at version 0.3 for package StiffODE, (keep existing compat) (#403) (@github-actions[bot])
• Bump nonstiff ODE benchmarks (#405) (@ChrisRackauckas)
• fbdf update (#406) (@ChrisRackauckas)
• bump dae tests (#407) (@ChrisRackauckas)
• Continuing Extrapolation Improvements (#410) (@utkarsh530)
• [WIP][Don't Merge]Improvements in Parallel Extrapolation Benchmarks (#411) (@utkarsh530)
• Simpler BRUSS plot (#412) (@ChrisRackauckas)
• CompatHelper: add new compat entry for BenchmarkTools at version 1 for package StiffODE, (keep existing compat) (#415) (@github-actions[bot])
• CompatHelper: add new compat entry for ProfileSVG at version 0.2 for package StiffODE, (keep existing compat) (#416) (@github-actions[bot])
• CompatHelper: add new compat entry for LinearSolve at version 1 for package StiffODE, (keep existing compat) (#417) (@github-actions[bot])
• CompatHelper: bump compat for Flux to 0.13 for package PINNErrorsVsTime, (keep existing compat) (#418) (@github-actions[bot])
• CompatHelper: bump compat for Flux to 0.13 for package PINNOptimizers, (keep existing compat) (#419) (@github-actions[bot])
• Lock cryptic to v2, resign treehashes (#426) (@staticfloat)
• CompatHelper: bump compat for Catalyst to 12 for package Bio, (keep existing compat) (#429) (@github-actions[bot])
• CompatHelper: bump compat for Catalyst to 12 for package Jumps, (keep existing compat) (#430) (@github-actions[bot])
• CompatHelper: bump compat for DiffEqBayes to 3 for package ParameterEstimation, (keep existing compat) (#431) (@github-actions[bot])
• Update NonStiffODE benchmarks (#435) (@utkarsh530)
• update nonstiff benchmarks (#436) (@ChrisRackauckas)
• Update Parallel Extrapolation Benchmarks (#437) (@utkarsh530)
• Fix some benchmarks (#438) (@utkarsh530)
• try another nonstiff bump (#439) (@ChrisRackauckas)
• CompatHelper: add new compat entry for JLD2 at version 0.4 for package Bio, (keep existing compat) (#440) (@github-actions[bot])
• simplify BCR (#441) (@ChrisRackauckas)
• Bump to v1.7 and try stiff ODE (#442) (@ChrisRackauckas)
• bump DAE manifest (#443) (@ChrisRackauckas)
• bump nonstiff DDE (#444) (@ChrisRackauckas)
• bump nonstiff SDE (#445) (@ChrisRackauckas)
• bump stiff DDE (#446) (@ChrisRackauckas)
• bump stiff SDE (#447) (@ChrisRackauckas)
• bump jump equation benchmarks (#448) (@ChrisRackauckas)
• bump dynamical ode tests (#449) (@ChrisRackauckas)
• Include Rodas5 where it is significantly faster than Rodas4 (#452) (@utkarsh530)
• Bump NeuralPDE v5 benchmarks (#453) (@ChrisRackauckas)
• Set concurrency group for benchmark uploading (#454) (@staticfloat)
• CompatHelper: add new compat entry for IntegralsCuba at version 0.2 for package PINNErrorsVsTime, (keep existing compat) (#458) (@github-actions[bot])
• CompatHelper: add new compat entry for IntegralsCubature at version 0.2 for package PINNErrorsVsTime, (keep existing compat) (#459) (@github-actions[bot])
• CompatHelper: add new compat entry for Integrals at version 3 for package PINNErrorsVsTime, (keep existing compat) (#460) (@github-actions[bot])
• CompatHelper: add new compat entry for Lux at version 0.4 for package PINNErrorsVsTime, (keep existing compat) (#461) (@github-actions[bot])
• CompatHelper: add new compat entry for OptimizationFlux at version 0.1 for package PINNErrorsVsTime, (keep existing compat) (#462) (@github-actions[bot])
• CompatHelper: add new compat entry for Optimization at version 3 for package PINNErrorsVsTime, (keep existing compat) (#463) (@github-actions[bot])
• CompatHelper: add new compat entry for OptimizationOptimJL at version 0.1 for package PINNErrorsVsTime, (keep existing compat) (#464) (@github-actions[bot])
• CompatHelper: add new compat entry for OptimizationFlux at version 0.1 for package PINNOptimizers, (keep existing compat) (#465) (@github-actions[bot])
• CompatHelper: add new compat entry for Lux at version 0.4 for package PINNOptimizers, (keep existing compat) (#466) (@github-actions[bot])
• CompatHelper: add new compat entry for OptimizationOptimJL at version 0.1 for package PINNOptimizers, (keep existing compat) (#467) (@github-actions[bot])

SciMLBenchmarks v0.1.0

Closed issues:

• Pictures (#1)
• Benchmarks for Dynamical ODEs (#2)
• Benchmarks for DDEs (#3)
• Benchmarks for stiff SDEs (#5)
• Issue with DiffEqBase in LorenzParameter Estimation (#13)
• Benchmarks for SSA/jump systems (#25)
• Convert benchmarks to use Weave.jl (#29)
• Benchmarks for ExpRK methods (#30)
• Wheldon, Kirk, and Finlay (#33)
• Regressions from v1.0 upgrade (#37)
• Weak SDE estimation is currently broken (#40)
• DiffEqBayesLorenz and DiffEqBayesLotkaVolterra need to be re-ran (#41)
• Filament needs to be fixed (#42)
• Jump equations need to run (#43)
• Oval2 Timings need an update (#46)
• BCR import location (#55)
• Pleiades (#95)
• Precompilation broken on julia 1.5 beta1 (#105)
• Build log (#116)
• Re-run stiff ODE benchmarks (#128)
• Re-run DynamicalODE benchmarks (#131)
• update BCR benchmark for Catalyst (#169)

Merged pull requests:

• Add benchmarks of constant delay DDEs (#4) (@devmotion)
• Add DynamicalODE (#7) (@SebastianM-C)
• Update DDE benchmarks (#8) (@devmotion)
• Fix DDE interpolation and add Rodas5 to QS (#9) (@devmotion)
• Update DynamicalODE (#10) (@SebastianM-C)
• Added notebooks for DiffEqBayes benchmarking (#11) (@Vaibhavdixit02)
• Modifications to summary and update to new syntax (#12) (@Vaibhavdixit02)
• DiffEqBayes Benchmarks for LV and Lorenz equation (#16) (@Vaibhavdixit02)
• Use plot_chain for turing_inference (#18) (@Vaibhavdixit02)
• Notebook for Lotka Volterra parameter estimation with optimisation methods (#19) (@Vaibhavdixit02)
• Update the Readme summary and typo in Lorenz notebook (#20) (@Vaibhavdixit02)
• FitzHugh-Nagumo Parameter estimation using optimization methods. (#21) (@Vaibhavdixit02)
• Updates to Readme and some changes in LV notebook (#22) (@Vaibhavdixit02)
• Added QuadDIRECT to the optimization methods benchmarks for parameter estimation (#23) (@Vaibhavdixit02)
• jump benchmarks (#26) (@isaacsas)
• RFC: Restructure benchmarks to use Weave instead of notebooks (#32) (@ChrisRackauckas)
• Update parameter estimation benchmarks (#36) (@Vaibhavdixit02)
• Add Project.toml (#38) (@asinghvi17)
• Benchmark jmd files for ROCK2 and ROCK4 (#39) (@deeepeshthakur)
• Updated the filament benchmark (#44) (@dextorious)
• added four differential equations (#45) (@HH3117)
• created the PDE folder (#48) (@HH3117)
• add extrapolation methods (#49) (@saurabhkgp21)
• Update DiffEqBayesLotkaVolterra.jl for breaking uncertainity/uncertainty typo (#50) (@jamesjscully)
• BCR chemical reaction system benchmarks (#52) (@ChrisRackauckas)
• Update jump benchmarks (#54) (@isaacsas)
• CompatHelper: add new compat entry for "DataFrames" at version "0.19" (#57) (@github-actions[bot])
• CompatHelper: add new compat entry for "RecursiveFactorization" at version "0.1" (#58) (@github-actions[bot])
• CompatHelper: add new compat entry for "ReactionNetworkImporters" at version "0.1" (#59) (@github-actions[bot])
• CompatHelper: add new compat entry for "IJulia" at version "1.20" (#60) (@github-actions[bot])
• CompatHelper: add new compat entry for "BlackBoxOptim" at version "0.5" (#61) (@github-actions[bot])
• CompatHelper: add new compat entry for "DiffEqDevTools" at version "2.15" (#62) (@github-actions[bot])
• CompatHelper: add new compat entry for "ParameterizedFunctions" at version "4.2" (#63) (@github-actions[bot])
• CompatHelper: add new compat entry for "DiffEqJump" at version "6.2" (#64) (@github-actions[bot])
• CompatHelper: add new compat entry for "Weave" at version "0.9" (#65) (@github-actions[bot])
• CompatHelper: add new compat entry for "ApproxFun" at version "0.11" (#66) (@github-actions[bot])
• CompatHelper: add new compat entry for "ODEInterfaceDiffEq" at version "3.4" (#67) (@github-actions[bot])
• CompatHelper: add new compat entry for "OrdinaryDiffEq" at version "5.23" (#68) (@github-actions[bot])
• CompatHelper: add new compat entry for "ODEInterface" at version "0.4" (#69) (@github-actions[bot])
• CompatHelper: add new compat entry for "ODE" at version "2.5" (#70) (@github-actions[bot])
• CompatHelper: add new compat entry for "DiffEqProblemLibrary" at version "4.5" (#71) (@github-actions[bot])
• CompatHelper: add new compat entry for "DiffEqUncertainty" at version "1.3" (#72) (@github-actions[bot])
• CompatHelper: add new compat entry for "LSODA" at version "0.6" (#73) (@github-actions[bot])
• CompatHelper: add new compat entry for "DiffEqBiological" at version "4.0" (#74) (@github-actions[bot])
• CompatHelper: add new compat entry for "SteadyStateDiffEq" at version "1.5" (#75) (@github-actions[bot])
• CompatHelper: add new compat entry for "Sundials" at version "3.8" (#76) (@github-actions[bot])
• CompatHelper: add new compat entry for "NLopt" at version "0.5" (#77) (@github-actions[bot])
• CompatHelper: add new compat entry for "DiffEqParamEstim" at version "1.8" (#78) (@github-actions[bot])
• CompatHelper: add new compat entry for "Plots" at version "0.27" (#79) (@github-actions[bot])
• CompatHelper: add new compat entry for "NLopt" at version "0.5" (#80) (@github-actions[bot])
• Save all figures as SVG (#81) (@asinghvi17)
• Default html to svg (#82) (@ChrisRackauckas)
• CompatHelper: bump compat for "Plots" to "0.28" (#83) (@github-actions[bot])
• CompatHelper: bump compat for "DataFrames" to "0.20" (#84) (@github-actions[bot])
• Update BCR benchmark to use correct path (#85) (@isaacsas)
• CompatHelper: add new compat entry for "DiffEqBase" at version "6.7" (#86) (@github-actions[bot])
• CompatHelper: add new compat entry for "DifferentialEquations" at version "6.9" (#87) (@github-actions[bot])
• CompatHelper: add new compat entry for "ParallelDataTransfer" at version "0.5" (#88) (@github-actions[bot])
• Myb/noauto (#89) (@ChrisRackauckas)
• CompatHelper: bump compat for "Plots" to "0.29" (#92) (@github-actions[bot])
• Install TagBot as a GitHub Action (#93) (@JuliaTagBot)
• CompatHelper: bump compat for "ParameterizedFunctions" to "5.0" (#94) (@github-actions[bot])
• CompatHelper: bump compat for "Plots" to "1.0" (#96) (@github-actions[bot])
• CompatHelper: bump compat for "Sundials" to "4.0" (#97) (@github-actions[bot])
• Update DiffEqBayes benchmarks (#98) (@Vaibhavdixit02)
• CompatHelper: add new compat entry for "DiffEqBayes" at version "2.9" (#99) (@github-actions[bot])
• CompatHelper: bump compat for "DataFrames" to "0.21" (#100) (@github-actions[bot])
• Use truncated instead of Truncated (#101) (@devmotion)
• CompatHelper: bump compat for "NLopt" to "0.6" (#102) (@github-actions[bot])
• Add NBodySimulator benchmarks (#106) (@SebastianM-C)
• Rebuild benchmarks (#108) (@christopher-dG)
• Move to separate projects (#109) (@christopher-dG)
• CompatHelper: bump compat for "DiffEqNoiseProcess" to "5.0" for package AdaptiveSDE (#110) (@github-actions[bot])
• CompatHelper: bump compat for "DiffEqMonteCarlo" to "1.0" for package AdaptiveSDE (#111) (@github-actions[bot])
• CompatHelper: bump compat for "DiffEqNoiseProcess" to "5.0" for package StiffSDE (#112) (@github-actions[bot])
• Rebuild StiffSDE/QuadraticStiffness.jmd (#114) (@github-actions[bot])
• Activate project env (#115) (@christopher-dG)
• Rebuild NonStiffODE/FitzhughNagumo_wpd.jmd, NonStiffODE/LotkaVolterra_wpd.jmd, NonStiffODE/Pleiades_wpd.jmd, NonStiffODE/RigidBody_wpd.jmd, NonStiffODE/ThreeBody_wpd.jmd, NonStiffODE/linear_wpd.jmd (#117) (@github-actions[bot])
• Rebuild Jumps/Diffusion_CTRW.jmd, Jumps/Mendes_multistate_example.jmd, Jumps/NegFeedback_GeneExpr.jmd, Jumps/NegFeedback_GeneExpr_Marchetti.jmd (#119) (@github-actions[bot])
• Rebuild StiffSDE/Oval2LongRun.jmd, StiffSDE/Oval2LongTimes.jmd, StiffSDE/Oval2Timings.jmd, StiffSDE/QuadraticStiffness.jmd, StiffSDE/StochasticHeat.jmd (#123) (@github-actions[bot])
• Rebuild NonStiffDDE/Mackey_Glass_wpd.jmd, NonStiffDDE/Wheldon_Kirk_Finlay_wpd.jmd (#125) (@github-actions[bot])
• Rebuild StiffDDE/QuorumSensing.jmd (#127) (@github-actions[bot])
• Rebuild StiffSDE/StochasticHeat.jmd (#133) (@github-actions[bot])
• Rebuild Jumps/Mendes_multistate_example.jmd (#134) (@github-actions[bot])
• Rebuild NonStiffDDE/Mackey_Glass_wpd.jmd (#135) (@github-actions[bot])
• Avoid module usage (#136) (@SebastianM-C)
• Add missing package (#139) (@SebastianM-C)
• CompatHelper: add new compat entry for "StatsPlots" at version "0.14" for package NBodySimulator (#140) (@github-actions[bot])
• CompatHelper: add new compat entry for "StaticArrays" at version "0.12" for package NBodySimulator (#141) (@github-actions[bot])
• CompatHelper: add new compat entry for "Plots" at version "1.5" for package NBodySimulator (#142) (@github-actions[bot])
• CompatHelper: add new compat entry for "OrdinaryDiffEq" at version "5.41" for package NBodySimulator (#143) (@github-actions[bot])
• CompatHelper: add new compat entry for "ProgressLogging" at version "0.1" for package NBodySimulator (#144) (@github-actions[bot])
• CompatHelper: add new compat entry for "DataFrames" at version "0.21" for package NBodySimulator (#145) (@github-actions[bot])
• CompatHelper: add new compat entry for "NBodySimulator" at version "1.3" for package NBodySimulator (#146) (@github-actions[bot])
• CompatHelper: add new compat entry for "BenchmarkTools" at version "0.5" for package NBodySimulator (#147) (@github-actions[bot])
• Rebuild NonStiffODE/ThreeBody_wpd.jmd (#149) (@github-actions[bot])
• Finish renaming DiffEqBenchmarks -> SciMLBenchmarks (#150) (@christopher-dG)
• Rebuild MOLPDE/ks_spectral_wpd.jmd (#153) (@github-actions[bot])
• Rebuild MOLPDE/burgers_spectral_wpd.jmd (#154) (@github-actions[bot])
• Rebuild StiffDDE/QuorumSensing.jmd (#156) (@github-actions[bot])
• Special case for TaylorIntegration (#157) (@SebastianM-C)
• Rebuild NonStiffODE/LotkaVolterra_wpd.jmd (#159) (@github-actions[bot])
• CompatHelper: bump compat for "ReactionNetworkImporters" to "0.2" for package StiffODE (#161) (@github-actions[bot])
• CompatHelper: bump compat for "ApproxFun" to "0.12" for package MOLPDE (#162) (@github-actions[bot])
• CompatHelper: bump compat for "Distributions" to "0.24" for package ParameterEstimation (#165) (@github-actions[bot])
• MassInstallAction: Install the TagBot workflow on this repository (#166) (@christopher-dG)
• CompatHelper: bump compat for "DataFrames" to "0.22" for package Jumps (#167) (@github-actions[bot])
• CompatHelper: bump compat for "DataFrames" to "0.22" for package NBodySimulator (#168) (@github-actions[bot])
• CompatHelper: bump compat for "StaticArrays" to "1.0" for package DynamicalODE (#170) (@github-actions[bot])
• CompatHelper: bump compat for "StaticArrays" to "1.0" for package NBodySimulator (#171) (@github-actions[bot])
• CompatHelper: bump compat for "ReactionNetworkImporters" to "0.3" for package StiffODE (#172) (@github-actions[bot])
• CompatHelper: bump compat for "GeometricIntegratorsDiffEq" to "0.2" for package StiffODE (#174) (@github-actions[bot])
• Update BCR benchmark to Catalyst and MT (#175) (@isaacsas)
• Remove ReactionNetworkImporters dep for StiffOdes (#177) (@isaacsas)
• CompatHelper: add new compat entry for "OrdinaryDiffEq" at version "5.47" for package Bio (#178) (@github-actions[bot])
• CompatHelper: bump compat for "ReactionNetworkImporters" to "0.5" for package Bio (#180) (@github-actions[bot])
• CompatHelper: bump compat for "ODEInterface" to "0.5" for package Bio (#182) (@github-actions[bot])
• CompatHelper: bump compat for "ODEInterface" to "0.5" for package MultiLanguage (#183) (@github-actions[bot])
• CompatHelper: bump compat for "ODEInterface" to "0.5" for package NonStiffODE (#184) (@github-actions[bot])
• CompatHelper: bump compat for "ReactionNetworkImporters" to "0.6" for package Bio (#186) (@github-actions[bot])
• CompatHelper: bump compat for "MATLABDiffEq" to "1.0" for package MultiLanguage (#187) (@github-actions[bot])
• CompatHelper: bump compat for "ReactionNetworkImporters" to "0.7" for package Bio (#188) (@github-actions[bot])
• CompatHelper: bump compat for "BenchmarkTools" to "0.6" for package NBodySimulator (#189) (@github-actions[bot])
• CompatHelper: bump compat for "BenchmarkTools" to "0.6" for package ParameterEstimation (#190) (@github-actions[bot])
• CompatHelper: bump compat for "BenchmarkTools" to "0.7" for package NBodySimulator (#191) (@github-actions[bot])
• CompatHelper: bump compat for "BenchmarkTools" to "0.7" for package ParameterEstimation (#192) (@github-actions[bot])
• [WIP] This adds the buildkite setup (#193) (@ven-k)
• CompatHelper: bump compat for "LSODA" to "0.7" for package Bio (#194) (@github-actions[bot])
• CompatHelper: bump compat for "LSODA" to "0.7" for package MOLPDE (#195) (@github-actions[bot])
• CompatHelper: bump compat for "LSODA" to "0.7" for package NonStiffODE (#196) (@github-actions[bot])
• CompatHelper: bump compat for "LSODA" to "0.7" for package StiffODE (#197) (@github-actions[bot])
• This adds files to weekly update all the directories. (#199) (@ven-k)
• CompatHelper: bump compat for "DataFrames" to "1.0" for package Jumps (#200) (@github-actions[bot])
• CompatHelper: bump compat for "DataFrames" to "1.0" for package NBodySimulator (#201) (@github-actions[bot])
• Fix some grammar in linear wpd (#202) (@ChrisRackauckas)
• CompatHelper: add new compat entry for "Git" at version "1.2" (#204) (@github-actions[bot])
• use the exclusive tag with the buildkite pipeline (#205) (@ChrisRackauckas)
• Registry is General (#206) (@ven-k)
• Set timeout to 4 hrs and update only changed artifacts (#207) (@ven-k)
• Watch Project.toml and upload the specific artifacts (#208) (@ven-k)
• Setup project/manifest for nonstiff ODE (#209) (@ChrisRackauckas)
• Add "watch toml" in pipeline.yml (#210) (@ven-k)
• update nonstiff ode manifest (#212) (@ChrisRackauckas)
• [WIP] A separate watcher for each file (#213) (@ven-k)
• Update rebuild_models.jl (#214) (@staticfloat)
• update for Weave's silent mega breaking change (#215) (@ChrisRackauckas)
• Update linear_wpd.jmd (#216) (@ChrisRackauckas)
• CompatHelper: bump compat for "Distributions" to "0.25" for package ParameterEstimation (#218) (@github-actions[bot])
• Split SciMLBenchmarks into two repositories (#219) (@staticfloat)
• Fix activation (#220) (@staticfloat)
• Update Sundials version for NonStiffODE (#221) (@ChrisRackauckas)
• Manual S3 uploading (#222) (@staticfloat)
• Updated AdaptiveSDE for benchmarks (#223) (@github-actions[bot])
• Remove extra /html or /pdf or etc. (#224) (@ChrisRackauckas)
• CompatHelper: add new compat entry for "Plots" at version "1.13" for package Testing (#225) (@github-actions[bot])
• bump nonstiff ODE packages for FastBroadcast.jl (#226) (@ChrisRackauckas)
• Setup and run stiff ODE benchmarks (#227) (@ChrisRackauckas)
• update Bio benchmarks (#228) (@ChrisRackauckas)
• remove threads setting in StiffODE (#231) (@ChrisRackauckas)
• update NBodySimulator benchmarks (#232) (@ChrisRackauckas)
• update NonStiffDDE benchmarks (#233) (@ChrisRackauckas)
• update NonStiffSDE benchmarks (#234) (@ChrisRackauckas)
• update StiffDDE benchmarks (#235) (@ChrisRackauckas)
• update StiffSDE benchmarks (#236) (@ChrisRackauckas)
• update ParameterEstimation benchmarks (#237) (@ChrisRackauckas)
• CompatHelper: bump compat for "DynamicHMC" to "3.1" for package ParameterEstimation (#238) (@github-actions[bot])
• re-run stiff ODE on AMDCI (#239) (@ChrisRackauckas)
• rerun NonStiffODE on AMDCI (#240) (@ChrisRackauckas)
• CompatHelper: add new compat entry for "ModelingToolkit" at version "5.17" for package Bio (#241) (@github-actions[bot])