JumpProcesses.jl
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SciML
DirectCR-RSSA
A new spatial SSA called DirectCRRSSA uses RSSA-style sampling to sample the site+jump. It is about 20% faster than DirectCRDirect, at least on the problem in the test/spatial/ABC.jl (5 sites in a line, 3 species, 2 reactions).
using BenchmarkTools
@btime solve(jump_problems[1], SSAStepper()) # NSM with a `CartesianGrid`, 52ms
@btime solve(jump_problems[2], SSAStepper()) # NSM with a `Graph`, 49ms
@btime solve(jump_problems[3], SSAStepper()) # DirectCRDirect with a `CartesianGrid`, 51ms
@btime solve(jump_problems[4], SSAStepper()) # DirectCRRSSA with a `CartesianGrid`, 42ms
Pull Request Test Coverage Report for Build 6141985002
- 172 of 181 (95.03%) changed or added relevant lines in 8 files are covered.
- 12 unchanged lines in 5 files lost coverage.
- Overall coverage decreased (-0.1%) to 89.759%
| Changes Missing Coverage | Covered Lines | Changed/Added Lines | % |
|---|---|---|---|
| src/spatial/bracketing.jl | 35 | 38 | 92.11% |
| src/spatial/rssacrdirect.jl | 105 | 111 | 94.59% |
| <!-- | Total: | 172 | 181 |
| Files with Coverage Reduction | New Missed Lines | % |
|---|---|---|
| src/aggregators/prioritytable.jl | 1 | 86.86% |
| src/extended_jump_array.jl | 1 | 80.52% |
| src/coupling.jl | 2 | 78.18% |
| src/spatial/spatial_massaction_jump.jl | 3 | 85.45% |
| src/spatial/directcrdirect.jl | 5 | 87.65% |
| <!-- | Total: | 12 |
| Totals | |
|---|---|
| Change from base Build 6133295964: | -0.1% |
| Covered Lines: | 2419 |
| Relevant Lines: | 2695 |
💛 - Coveralls
![github-actions[bot] avatar](https://avatars.githubusercontent.com/in/15368?v=4 "Published by a pub.dev verified publisher"){kind=small}
Pull Request Test Coverage Report for Build 6180696485
- 155 of 161 (96.27%) changed or added relevant lines in 8 files are covered.
- No unchanged relevant lines lost coverage.
- Overall coverage increased (+0.3%) to 90.175%
| Changes Missing Coverage | Covered Lines | Changed/Added Lines | % |
|---|---|---|---|
| src/spatial/bracketing.jl | 23 | 24 | 95.83% |
| src/spatial/directcrrssa.jl | 106 | 111 | 95.5% |
| <!-- | Total: | 155 | 161 |
| Totals | |
|---|---|
| Change from base Build 6167199515: | 0.3% |
| Covered Lines: | 2423 |
| Relevant Lines: | 2687 |
💛 - Coveralls
What do I need to do to get rid of the format and the spell check CI failures? @isaacsas
For spell check fix the listed spelling errors I guess. Haven’t ever used it or seen it before.
For formatting use JuliaFormatter to format the repo and add to the PR.
Just FYI, I'm traveling for the next week, but will try to review once I am back in Boston.