## SciMLBenchmarks v0.1.3

[Diff since v0.1.2](v0.1.2...v0.1.3)

## SciMLBenchmarks v0.1.2

[Diff since v0.1.1](v0.1.1...v0.1.2)


**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](v0.1.0...v0.1.1)


**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])