RsimGmacs Buck Stockhausen AFSC. rsimGmacs: An R-based simulation tool for testing/developing...
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Transcript of RsimGmacs Buck Stockhausen AFSC. rsimGmacs: An R-based simulation tool for testing/developing...
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rsimGmacs
Buck StockhausenAFSC
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rsimGmacs: An R-based simulation tool for testing/developing Gmacs
• Provides an independent testing platform– Embodies Gmacs equations– Coded in R– Provides redundancy checking
• Outputs:– R list object– Diagnostic plots– Data input file to Gmacs
• Available at https://github.com/seacode/rsimGmacs.git• Package dependencies: ggplot2, reshape2, tcltk
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Package Documentation
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Running rsimGmacs
• res<-runSim.BBRKC(pdf=‘rsimCIE.pdf’)
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Configuration File (1)
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Configuration File (2)
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Configuration File (3)
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Configuration File (4)
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Configuration File (5)
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Running rsimGmacs
• res<-runRsim.BBRKC()• res: list of lists
– mc: list object for model configuration• dims: list object with model dimensions info• params: list object with model parameters info
– mp: list object for model processes (rates)– mr: list object for model results
• R_yxz: recruitment by by y,x,z• iN_xmsz: initial abundance by x,m,s,z• N_yxmsz: 5-d array of population abundance by y,x,m,s,z• F_list: list of fisheries-related results• N_vyxmsz: 6-d array of abundance in surveys (v) by y,x,m,s,z
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Diagnostic Plots
see rsimCIE.pdf
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Gmacs input file
See gmacs.input.dat