y_petri 2.1.30 → 2.1.31
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- checksums.yaml +4 -4
- data/README.md +31 -0
- data/lib/y_petri/version.rb +1 -1
- data/test/examples/gillespie.rb +13 -12
- metadata +1 -1
checksums.yaml
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metadata.gz:
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data/README.md
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@@ -85,6 +85,37 @@ If you have `gnuplot` gem installed properly, you can view plots:
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plot_state
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plot_flux
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```
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## Gillespie method
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To try out another simulation method, Gillespie algorithm, open a fresh session
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and type:
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```ruby
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require 'y_petri'
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require 'sy'
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require 'mathn'
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include YPetri
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A = Place m!: 10
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B = Place m!: 10
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AB = Place m!: 0
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AB_association = Transition s: { A: -1, B: -1, AB: 1 }, rate: 0.1
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AB_dissociation = Transition s: { AB: -1, A: 1, B: 1 }, rate: 0.1
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A2B = Transition s: { A: -1, B: 1 }, rate: 0.05
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B2A = Transition s: { A: 1, B: -1 }, rate: 0.07
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set_step 1
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set_target_time 50
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set_sampling 1
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set_simulation_method :gillespie
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run!
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print_recording
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```
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Again, you can visualize the results using `gnuplot` gem:
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```ruby
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plot_state
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```
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So much for the demo for now! Thanks for trying YPetri!
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## Contributing
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data/lib/y_petri/version.rb
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data/test/examples/gillespie.rb
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#! /usr/bin/ruby
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# coding: utf-8
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# ==============================================================================
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#
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# encoding: utf-8
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require 'y_petri'
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require 'sy'
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require 'mathn'
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include YPetri
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require 'sy'
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require 'mathn'
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include YPetri
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A = Place m!: 10
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B = Place m!: 10
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AB = Place m!: 0
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AB_association = Transition s: { A: -1, B: -1, AB: 1 }, rate: 0.1
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AB_dissociation = Transition s: { AB: -1, A: 1, B: 1 }, rate: 0.1
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A2B = Transition s: { A: -1, B: 1 }, rate: 0.05
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B2A = Transition s: { A: 1, B: -1 }, rate: 0.07
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set_step 1
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set_target_time
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set_step 1
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set_target_time 50
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set_sampling 1
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set_simulation_method :gillespie
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run!
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print_recording
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plot_state
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