Mizer provides str() methods for MizerParams() and MizerSim() objects,
as well as ArraySpeciesBySize(), ArrayTimeBySpecies() and ArrayTimeBySpeciesBySize()
objects. These methods produce a clean, compact overview of the object's structure
without polluting the console with large amounts of internal data.
Examples
# \donttest{
str(NS_params)
#> Formal class 'MizerParams' [package "mizer"] with 46 slots
#> @ metadata : list()
#> @ mizer_version : Classes 'package_version', 'numeric_version' hidden list of 1
#> $ : int [1:4] 2 5 4 9126
#> @ extensions : chr(0)
#> @ time_created : POSIXct[1:1], format: "2021-09-03 20:29:38"
#> @ time_modified : POSIXct[1:1], format: "2026-05-09 08:16:12"
#> @ w : num [1:100] 0.001 0.00119 0.00142 0.0017 0.00203 ...
#> @ dw : num [1:100] 0.000193 0.000231 0.000275 0.000329 0.000392 ...
#> @ w_full : num [1:226] 2.12e-13 2.53e-13 3.02e-13 3.61e-13 4.30e-13 ...
#> @ dw_full : num [1:226] 4.10e-14 4.90e-14 5.84e-14 6.97e-14 8.32e-14 ...
#> @ w_min_idx : Named num [1:12] 1 1 1 1 1 1 1 1 1 1 ...
#> - attr(*, "names")= chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ maturity : num [1:12, 1:100] 0 0 0 0 0 0 0 0 0 0 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ psi : num [1:12, 1:100] 0 0 0 0 0 0 0 0 0 0 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ initial_n : num [1:12, 1:100] 1.84e+13 6.86e+12 1.44e+14 1.45e+13 1.71e+11 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ intake_max : num [1:12, 1:100] 0.182 0.275 0.328 0.35 0.307 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ search_vol : num [1:12, 1:100] 1.27e-13 6.00e-14 3.44e-13 4.49e-14 1.86e-13 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ metab : num [1:12, 1:100] 0.0289 0.0437 0.0522 0.0557 0.0487 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ pred_kernel : logi [1(1d)] NA
#> @ ft_pred_kernel_e : cplx [1:12, 1:226] 11.3+0i 26.9+0i 20.8+0i ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ k : chr [1:226] "1" "2" "3" "4" ...
#> @ ft_pred_kernel_p : cplx [1:12, 1:226] 11.3+0i 26.9+0i 20.8+0i ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ k : chr [1:226] "1" "2" "3" "4" ...
#> @ mu_b : num [1:12, 1:100] 0.1871 0.1817 0.1293 0.0865 0.0874 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ ext_encounter : num [1:12, 1:100] 0 0 0 0 0 0 0 0 0 0 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ ext_diffusion : num [1:12, 1:100] 0 0 0 0 0 0 0 0 0 0 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ rr_pp : Named num [1:226] 167660 158066 149021 140494 132455 ...
#> - attr(*, "names")= chr [1:226] "2.12e-13" "2.53e-13" "3.02e-13" "3.61e-13" ...
#> @ cc_pp : Named num [1:226] 1.09e+38 7.46e+37 5.11e+37 3.51e+37 2.41e+37 ...
#> - attr(*, "names")= chr [1:226] "2.12e-13" "2.53e-13" "3.02e-13" "3.61e-13" ...
#> @ resource_dynamics : chr "resource_semichemostat"
#> @ resource_params : List of 5
#> $ kappa : num 1e+11
#> $ lambda : num 2.13
#> $ r_pp : num 10
#> $ n : num 0.667
#> $ w_pp_cutoff: num 9.82
#> @ other_dynamics : list()
#> @ other_params : list()
#> @ other_encounter : list()
#> @ other_mort : list()
#> @ rates_funcs : List of 14
#> $ Rates : chr "mizerRates"
#> $ Encounter : chr "mizerEncounter"
#> $ FeedingLevel : chr "mizerFeedingLevel"
#> $ EReproAndGrowth: chr "mizerEReproAndGrowth"
#> $ PredRate : chr "mizerPredRate"
#> $ PredMort : chr "mizerPredMort"
#> $ FMort : chr "mizerFMort"
#> $ Mort : chr "mizerMort"
#> $ ERepro : chr "mizerERepro"
#> $ EGrowth : chr "mizerEGrowth"
#> $ ResourceMort : chr "mizerResourceMort"
#> $ RDI : chr "mizerRDI"
#> $ RDD : chr "BevertonHoltRDD"
#> $ Diffusion : chr "mizerDiffusion"
#> @ sc : num [1:100] 0.001 0.00119 0.00142 0.0017 0.00203 ...
#> @ initial_n_pp : Named num [1:226] 1.09e+38 7.46e+37 5.11e+37 3.51e+37 2.41e+37 ...
#> - attr(*, "names")= chr [1:226] "2.12e-13" "2.53e-13" "3.02e-13" "3.61e-13" ...
#> @ initial_n_other : list()
#> @ species_params : 'data.frame': 12 obs. of 34 variables:
#> $ species : chr "Sprat" "Sandeel" "N.pout" "Herring" ...
#> $ w_max : num 33 36 100 334 324 ...
#> $ w_mat : int 13 4 23 99 21 75 78 39 105 165 ...
#> $ beta : int 51076 398849 22 280540 191 22 381 283 113 558 ...
#> $ sigma : num 0.8 1.9 1.5 3.2 1.9 1.5 1.9 1.8 1.6 2.1 ...
#> $ k_vb : num 0.681 1 0.849 0.606 0.536 0.323 0.284 0.266 0.122 0.271 ...
#> $ gear : chr "Industrial" "Industrial" "Industrial" "Pelagic" ...
#> $ w_min : num 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 ...
#> $ alpha : num 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 ...
#> $ pred_kernel_type : chr "lognormal" "lognormal" "lognormal" "lognormal" ...
#> $ h : num 18.2 27.5 32.8 35 30.7 ...
#> $ k : num 0 0 0 0 0 0 0 0 0 0 ...
#> $ ks : num 3.64 5.5 6.57 7.01 6.14 ...
#> $ z0 : num 0.1871 0.1817 0.1293 0.0865 0.0874 ...
#> $ gamma : num 3.20e-11 1.51e-11 8.63e-11 1.13e-11 4.67e-11 ...
#> $ m : num 1 1 1 1 1 1 1 1 1 1 ...
#> $ erepro : num 1 1 1 1 1 1 1 1 1 1 ...
#> $ R_max : num 7.38e+11 4.10e+11 1.05e+13 1.11e+12 1.12e+10 ...
#> $ sel_func : chr "knife_edge" "knife_edge" "knife_edge" "knife_edge" ...
#> $ knife_edge_size : int 13 4 23 99 21 75 78 39 105 165 ...
#> $ catchability : num 1 1 1 1 1 1 1 1 1 1 ...
#> $ p : num 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 ...
#> $ q : num 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 ...
#> $ n : num 0.667 0.667 0.667 0.667 0.667 ...
#> $ f0 : num 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 ...
#> $ interaction_resource: num 1 1 1 1 1 1 1 1 1 1 ...
#> $ w_inf : num 33 36 100 334 324 ...
#> $ w_mat25 : num 11.65 3.58 20.61 88.7 18.82 ...
#> $ w_repro_max : num 33 36 100 334 324 ...
#> $ is_background : logi FALSE FALSE FALSE FALSE FALSE FALSE ...
#> $ z_ext : num 0 0 0 0 0 0 0 0 0 0 ...
#> $ d : num -0.333 -0.333 -0.333 -0.333 -0.333 ...
#> $ E_ext : num 0 0 0 0 0 0 0 0 0 0 ...
#> $ D_ext : num 0 0 0 0 0 0 0 0 0 0 ...
#> @ given_species_params: 'data.frame': 12 obs. of 27 variables:
#> $ species : chr "Sprat" "Sandeel" "N.pout" "Herring" ...
#> $ w_max : num 33 36 100 334 324 ...
#> $ w_mat : int 13 4 23 99 21 75 78 39 105 165 ...
#> $ beta : int 51076 398849 22 280540 191 22 381 283 113 558 ...
#> $ sigma : num 0.8 1.9 1.5 3.2 1.9 1.5 1.9 1.8 1.6 2.1 ...
#> $ k_vb : num 0.681 1 0.849 0.606 0.536 0.323 0.284 0.266 0.122 0.271 ...
#> $ gear : chr "Industrial" "Industrial" "Industrial" "Pelagic" ...
#> $ w_min : num 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 ...
#> $ alpha : num 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 ...
#> $ pred_kernel_type : chr "lognormal" "lognormal" "lognormal" "lognormal" ...
#> $ h : num 18.2 27.5 32.8 35 30.7 ...
#> $ k : num 0 0 0 0 0 0 0 0 0 0 ...
#> $ ks : num 3.64 5.5 6.57 7.01 6.14 ...
#> $ z0 : num 0.1871 0.1817 0.1293 0.0865 0.0874 ...
#> $ gamma : num 3.20e-11 1.51e-11 8.63e-11 1.13e-11 4.67e-11 ...
#> $ m : num 1 1 1 1 1 1 1 1 1 1 ...
#> $ erepro : num 1 1 1 1 1 1 1 1 1 1 ...
#> $ R_max : num 7.38e+11 4.10e+11 1.05e+13 1.11e+12 1.12e+10 ...
#> $ sel_func : chr "knife_edge" "knife_edge" "knife_edge" "knife_edge" ...
#> $ knife_edge_size : int 13 4 23 99 21 75 78 39 105 165 ...
#> $ catchability : num 1 1 1 1 1 1 1 1 1 1 ...
#> $ p : num 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 ...
#> $ q : num 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 ...
#> $ n : num 0.667 0.667 0.667 0.667 0.667 ...
#> $ f0 : num 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 ...
#> $ interaction_resource: num 1 1 1 1 1 1 1 1 1 1 ...
#> $ w_inf : num 33 36 100 334 324 ...
#> @ interaction : num [1:12, 1:12] 0.7291 0.0341 0.0635 0.2742 0.3624 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ predator: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ prey : chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ gear_params : 'data.frame': 12 obs. of 5 variables:
#> $ gear : chr "Industrial" "Industrial" "Industrial" "Pelagic" ...
#> $ species : chr "Sprat" "Sandeel" "N.pout" "Herring" ...
#> $ sel_func : chr "knife_edge" "knife_edge" "knife_edge" "knife_edge" ...
#> $ knife_edge_size: int 13 4 23 99 21 75 78 39 105 165 ...
#> $ catchability : num 1 1 1 1 1 1 1 1 1 1 ...
#> @ selectivity : num [1:4, 1:12, 1:100] 0 0 0 0 0 0 0 0 0 0 ...
#> - attr(*, "dimnames")=List of 3
#> ..$ gear: chr [1:4] "Industrial" "Pelagic" "Beam" "Otter"
#> ..$ sp : chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ catchability : num [1:4, 1:12] 1 0 0 0 1 0 0 0 1 0 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ gear: chr [1:4] "Industrial" "Pelagic" "Beam" "Otter"
#> ..$ sp : chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ initial_effort : Named num [1:4] 0 1 0.5 0.5
#> - attr(*, "names")= chr [1:4] "Industrial" "Pelagic" "Beam" "Otter"
#> @ A : num [1:12] 1 1 1 1 1 1 1 1 1 1 ...
#> @ linecolour : Named chr [1:17] "#815f00" "#6237e2" "#8da600" "#de53ff" "#0e4300" ...
#> - attr(*, "names")= chr [1:17] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ linetype : Named chr [1:16] "solid" "solid" "solid" "solid" "solid" "solid" "solid" ...
#> - attr(*, "names")= chr [1:16] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ ft_mask : logi [1:12, 1:226] TRUE TRUE TRUE TRUE TRUE TRUE ...
#> @ use_predation_diffusion: logi FALSE
str(NS_sim)
#> Formal class 'MizerSim' [package "mizer"] with 6 slots
#> @ params : Formal class 'MizerParams' [package "mizer"] with 46 slots
#> @ metadata : list()
#> @ mizer_version : Classes 'package_version', 'numeric_version' hidden list of 1
#> $ : int [1:4] 2 5 4 9126
#> @ extensions : chr(0)
#> @ time_created : POSIXct[1:1], format: "2021-09-03 20:30:02"
#> @ time_modified : POSIXct[1:1], format: "2026-05-09 08:15:13"
#> @ w : num [1:100] 0.001 0.00119 0.00142 0.0017 0.00203 ...
#> @ dw : num [1:100] 0.000193 0.000231 0.000275 0.000329 0.000392 ...
#> @ w_full : num [1:218] 8.73e-13 1.04e-12 1.24e-12 1.48e-12 1.77e-12 ...
#> @ dw_full : num [1:218] 1.69e-13 2.01e-13 2.40e-13 2.87e-13 3.42e-13 ...
#> @ w_min_idx : Named num [1:12] 1 1 1 1 1 1 1 1 1 1 ...
#> - attr(*, "names")= chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ maturity : num [1:12, 1:100] 0 0 0 0 0 0 0 0 0 0 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ psi : num [1:12, 1:100] 0 0 0 0 0 0 0 0 0 0 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ initial_n : num [1:12, 1:100] 1.67e+13 5.82e+12 1.19e+14 1.36e+13 1.17e+11 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ intake_max : num [1:12, 1:100] 0.145 0.256 0.312 0.284 0.349 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ search_vol : num [1:12, 1:100] 4.39e-13 2.94e-13 7.57e-13 1.95e-13 5.89e-13 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ metab : num [1:12, 1:100] 0.0127 0.0233 0.0268 0.0232 0.03 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ pred_kernel : logi [1(1d)] NA
#> @ ft_pred_kernel_e : cplx [1:12, 1:218] 11.3+0i 26.9+0i 20.8+0i ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ k : chr [1:218] "1" "2" "3" "4" ...
#> @ ft_pred_kernel_p : cplx [1:12, 1:218] 11.3+0i 26.9+0i 20.8+0i ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ k : chr [1:218] "1" "2" "3" "4" ...
#> @ mu_b : num [1:12, 1:100] 0.1871 0.1817 0.1293 0.0865 0.0874 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ ext_encounter : num [1:12, 1:100] 0 0 0 0 0 0 0 0 0 0 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ ext_diffusion : num [1:12, 1:100] 0 0 0 0 0 0 0 0 0 0 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ rr_pp : Named num [1:218] 104642 98654 93009 87686 82669 ...
#> - attr(*, "names")= chr [1:218] "8.73e-13" "1.04e-12" "1.24e-12" "1.48e-12" ...
#> @ cc_pp : Named num [1:218] 4.88e+35 3.40e+35 2.36e+35 1.64e+35 1.14e+35 ...
#> - attr(*, "names")= chr [1:218] "8.73e-13" "1.04e-12" "1.24e-12" "1.48e-12" ...
#> @ resource_dynamics : chr "resource_semichemostat"
#> @ resource_params : List of 5
#> $ kappa : num 9.27e+10
#> $ lambda : num 2.05
#> $ r_pp : num 10
#> $ n : num 0.667
#> $ w_pp_cutoff: num 10
#> @ other_dynamics : list()
#> @ other_params : list()
#> @ other_encounter : list()
#> @ other_mort : list()
#> @ rates_funcs : List of 14
#> $ Rates : chr "mizerRates"
#> $ Encounter : chr "mizerEncounter"
#> $ FeedingLevel : chr "mizerFeedingLevel"
#> $ EReproAndGrowth: chr "mizerEReproAndGrowth"
#> $ PredRate : chr "mizerPredRate"
#> $ PredMort : chr "mizerPredMort"
#> $ FMort : chr "mizerFMort"
#> $ Mort : chr "mizerMort"
#> $ ERepro : chr "mizerERepro"
#> $ EGrowth : chr "mizerEGrowth"
#> $ ResourceMort : chr "mizerResourceMort"
#> $ RDI : chr "mizerRDI"
#> $ RDD : chr "BevertonHoltRDD"
#> $ Diffusion : chr "mizerDiffusion"
#> @ sc : num [1:100] 0.001 0.00119 0.00142 0.0017 0.00203 ...
#> @ initial_n_pp : Named num [1:218] 4.88e+35 3.40e+35 2.36e+35 1.64e+35 1.14e+35 ...
#> - attr(*, "names")= chr [1:218] "8.73e-13" "1.04e-12" "1.24e-12" "1.48e-12" ...
#> @ initial_n_other : list()
#> @ species_params : 'data.frame': 12 obs. of 30 variables:
#> $ species : chr "Sprat" "Sandeel" "N.pout" "Herring" ...
#> $ w_max : num 33 36 100 334 324 ...
#> $ w_mat : int 13 4 23 99 21 75 78 39 105 165 ...
#> $ beta : int 51076 398849 22 280540 191 22 381 283 113 558 ...
#> $ sigma : num 0.8 1.9 1.5 3.2 1.9 1.5 1.9 1.8 1.6 2.1 ...
#> $ k_vb : num 0.681 1 0.849 0.606 0.536 0.323 0.284 0.266 0.122 0.271 ...
#> $ R_max : num 7.38e+11 4.10e+11 1.05e+13 1.11e+12 1.12e+10 ...
#> $ a : num 0.007 0.001 0.009 0.002 0.01 0.006 0.008 0.004 0.007 0.005 ...
#> $ b : num 3.01 3.32 2.94 3.43 2.99 ...
#> $ w_min : num 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 ...
#> $ alpha : num 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 ...
#> $ interaction_resource: num 1 1 1 1 1 1 1 1 1 1 ...
#> $ n : num 0.667 0.667 0.667 0.667 0.667 ...
#> $ p : num 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 ...
#> $ q : num 0.717 0.717 0.717 0.717 0.717 ...
#> $ pred_kernel_type : chr "lognormal" "lognormal" "lognormal" "lognormal" ...
#> $ h : num 14.5 25.6 31.2 28.4 34.9 ...
#> $ k : num 0 0 0 0 0 0 0 0 0 0 ...
#> $ ks : num 1.59 2.94 3.37 2.92 3.78 ...
#> $ z0 : num 0.1871 0.1817 0.1293 0.0865 0.0874 ...
#> $ gamma : num 6.20e-11 4.16e-11 1.07e-10 2.76e-11 8.31e-11 ...
#> $ w_mat25 : num 11.65 3.58 20.61 88.7 18.82 ...
#> $ m : num 1 1 1 1 1 1 1 1 1 1 ...
#> $ erepro : num 1 1 1 1 1 1 1 1 1 1 ...
#> $ w_repro_max : num 33 36 100 334 324 ...
#> $ is_background : logi FALSE FALSE FALSE FALSE FALSE FALSE ...
#> $ z_ext : num 0 0 0 0 0 0 0 0 0 0 ...
#> $ d : num -0.333 -0.333 -0.333 -0.333 -0.333 ...
#> $ E_ext : num 0 0 0 0 0 0 0 0 0 0 ...
#> $ D_ext : num 0 0 0 0 0 0 0 0 0 0 ...
#> @ given_species_params: 'data.frame': 12 obs. of 24 variables:
#> $ species : chr "Sprat" "Sandeel" "N.pout" "Herring" ...
#> $ w_max : num 33 36 100 334 324 ...
#> $ w_mat : int 13 4 23 99 21 75 78 39 105 165 ...
#> $ beta : int 51076 398849 22 280540 191 22 381 283 113 558 ...
#> $ sigma : num 0.8 1.9 1.5 3.2 1.9 1.5 1.9 1.8 1.6 2.1 ...
#> $ k_vb : num 0.681 1 0.849 0.606 0.536 0.323 0.284 0.266 0.122 0.271 ...
#> $ R_max : num 7.38e+11 4.10e+11 1.05e+13 1.11e+12 1.12e+10 ...
#> $ a : num 0.007 0.001 0.009 0.002 0.01 0.006 0.008 0.004 0.007 0.005 ...
#> $ b : num 3.01 3.32 2.94 3.43 2.99 ...
#> $ w_min : num 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 ...
#> $ alpha : num 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 ...
#> $ interaction_resource: num 1 1 1 1 1 1 1 1 1 1 ...
#> $ n : num 0.667 0.667 0.667 0.667 0.667 ...
#> $ p : num 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 ...
#> $ q : num 0.717 0.717 0.717 0.717 0.717 ...
#> $ pred_kernel_type : chr "lognormal" "lognormal" "lognormal" "lognormal" ...
#> $ h : num 14.5 25.6 31.2 28.4 34.9 ...
#> $ k : num 0 0 0 0 0 0 0 0 0 0 ...
#> $ ks : num 1.59 2.94 3.37 2.92 3.78 ...
#> $ z0 : num 0.1871 0.1817 0.1293 0.0865 0.0874 ...
#> $ gamma : num 6.20e-11 4.16e-11 1.07e-10 2.76e-11 8.31e-11 ...
#> $ w_mat25 : num 11.65 3.58 20.61 88.7 18.82 ...
#> $ m : num 1 1 1 1 1 1 1 1 1 1 ...
#> $ erepro : num 1 1 1 1 1 1 1 1 1 1 ...
#> @ interaction : num [1:12, 1:12] 0.7291 0.0341 0.0635 0.2742 0.3624 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ predator: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ prey : chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ gear_params : 'data.frame': 12 obs. of 6 variables:
#> $ species : chr "Sprat" "Sandeel" "N.pout" "Herring" ...
#> $ gear : chr "Sprat" "Sandeel" "N.pout" "Herring" ...
#> $ sel_func : chr "sigmoid_length" "sigmoid_length" "sigmoid_length" "sigmoid_length" ...
#> $ l25 : num 7.6 9.8 8.7 10.1 11.5 19.8 16.4 19.8 11.5 19.1 ...
#> $ l50 : num 8.1 11.8 12.2 20.8 17 29 25.8 29 17 24.3 ...
#> $ catchability: num 1.24 0.886 1.24 0.573 0.124 ...
#> @ selectivity : num [1:12, 1:12, 1:100] 5.9e-08 0.0 0.0 0.0 0.0 ...
#> - attr(*, "dimnames")=List of 3
#> ..$ gear: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ sp : chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ catchability : num [1:12, 1:12] 1.24 0 0 0 0 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ gear: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ sp : chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ initial_effort : Named num [1:12] 0 0 0 1.808 0.758 ...
#> - attr(*, "names")= chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ A : num [1:12] 1 1 1 1 1 1 1 1 1 1 ...
#> @ linecolour : Named chr [1:17] "#815f00" "#6237e2" "#8da600" "#de53ff" "#0e4300" ...
#> - attr(*, "names")= chr [1:17] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ linetype : Named chr [1:17] "solid" "solid" "solid" "solid" "solid" "solid" "solid" ...
#> - attr(*, "names")= chr [1:17] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ ft_mask : logi [1:12, 1:218] TRUE TRUE TRUE TRUE TRUE TRUE ...
#> @ use_predation_diffusion: logi FALSE
#> @ n : num [1:44, 1:12, 1:100] 1.67e+13 1.67e+13 1.69e+13 1.66e+13 1.65e+13 ...
#> - attr(*, "dimnames")=List of 3
#> ..$ time: chr [1:44] "1967" "1968" "1969" "1970" ...
#> ..$ sp : chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> @ effort : num [1:44, 1:12] 0 0 0 0 0 0 0 0 0 0 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ time: chr [1:44] "1967" "1968" "1969" "1970" ...
#> ..$ gear: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> @ n_pp : num [1:44, 1:218] 4.88e+35 4.88e+35 4.88e+35 4.88e+35 4.88e+35 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ time: chr [1:44] "1967" "1968" "1969" "1970" ...
#> ..$ w : chr [1:218] "8.73e-13" "1.04e-12" "1.24e-12" "1.48e-12" ...
#> @ n_other : list()
#> - attr(*, "dim")= int [1:2] 44 0
#> - attr(*, "dimnames")=List of 2
#> ..$ time : chr [1:44] "1967" "1968" "1969" "1970" ...
#> ..$ component: NULL
#> @ sim_params : list()
str(getEncounter(NS_params))
#> 'ArraySpeciesBySize' num [1:12, 1:100] 0.299 0.453 0.502 0.575 0.492 ...
#> - attr(*, "dimnames")=List of 2
#> ..$ sp: chr [1:12] "Sprat" "Sandeel" "N.pout" "Herring" ...
#> ..$ w : chr [1:100] "0.001" "0.00119" "0.00142" "0.0017" ...
#> - attr(*, "value_name")= chr "Encounter rate"
#> - attr(*, "units")= chr "g/year"
#> - attr(*, "params")=Formal class 'MizerParams' [package "mizer"] with 46 slots
# }