DirectCR-RSSA

[Vilin97]

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

[github-actions[bot]]

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%

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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	95.03%	-->

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

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💛 - Coveralls

[coveralls]

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%

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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	96.27%	-->

Totals
Change from base Build 6167199515:	0.3%
Covered Lines:	2423
Relevant Lines:	2687

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💛 - Coveralls