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Genetic algorithm optimization in R does not consider sparse solutions



Announcing the arrival of Valued Associate #679: Cesar Manara
Planned maintenance scheduled April 23, 2019 at 00:00UTC (8:00pm US/Eastern)
Data science time! April 2019 and salary with experience
The Ask Question Wizard is Live!What are good examples of genetic algorithms/genetic programming solutions?Genetic Algorithm optimization in C++Genetic algorithm: Request optimizationGenetic Algorithm OptimizationGenetic Algorithms (or optimization) in ROptimizing a genetic algorithm?Optimal parameters for genetic algorithmHow to optimize parameters using genetic algorithmsprovide an initial solution to the genetic ordering algorithm



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0















Simple knapsack type, binary optimization with 1 constraint using the GA package in R.



With a known optimal solution of say 5% of total population size, a 0 solution set is always returned. For some reason the search space never seems to include sparse solutions (e.g. binary 10000000000000000000, 01000000000000000000).



Here the optimal solution is 1 item selected when the max cost is set to 5, however a 0 set is always returned unless we up the max cost constraint to allow ~30% of the total population to be optimal.



library(GA)
options(scipen = 999)

set.seed(348821)
n <- 20
optim_n <- 1
a <- data.frame(item = c(1:n),
cost = c(rep(5, optim_n), sample(1000:5000, n - optim_n)),
value = sample(1:500, n))

a <- a[order(a$cost), ]
a$cum.cost <- cumsum(a$cost)

head(a)
item cost value cum.cost
1 1 5 208 5
19 19 1087 48 1092
20 20 1472 179 2564
5 5 1521 449 4085
15 15 1801 102 5886
13 13 2192 41 8078

# RHS Constraint
max_cost <- 5

# Fitness Function
fit_func <- function(x)
iter_cost <- x %*% a$cost
iter_value <- x %*% a$value

if(iter_cost > max_cost)
return(0)
else
return(iter_value)



# Run
select <- ga(type = "binary",
nBits = nrow(a),
maxiter = 1000,
run = 250,
fitness = fit_func,
popSize = 1000)

# Print Results
cat("n","Fitness Value: ", select@fitnessValue, "n",
"Items Selected: ", if(select@fitnessValue == 0) 0 else sum(select@solution) , "n",
"Min Optimal Selection:", nrow(a[a$cum.cost <= max_cost, ]))


And Result:



Fitness Value: 0 
Items Selected: 0
Min Optimal Selection: 1


I've tried ample combinations of parameters, including the pmutation, pcrossover, popSize, and run iterations, with no luck. I've also tried the genalg::rbga.bin() function with the same results.



No matter, when the optimal solution is sparse, I'm unable to return any solution.



I'm assuming it's either my design, fitness function, or possibly something to do with the stochastic GA approach. Any help is greatly appreciated.










share|improve this question






























    0















    Simple knapsack type, binary optimization with 1 constraint using the GA package in R.



    With a known optimal solution of say 5% of total population size, a 0 solution set is always returned. For some reason the search space never seems to include sparse solutions (e.g. binary 10000000000000000000, 01000000000000000000).



    Here the optimal solution is 1 item selected when the max cost is set to 5, however a 0 set is always returned unless we up the max cost constraint to allow ~30% of the total population to be optimal.



    library(GA)
    options(scipen = 999)

    set.seed(348821)
    n <- 20
    optim_n <- 1
    a <- data.frame(item = c(1:n),
    cost = c(rep(5, optim_n), sample(1000:5000, n - optim_n)),
    value = sample(1:500, n))

    a <- a[order(a$cost), ]
    a$cum.cost <- cumsum(a$cost)

    head(a)
    item cost value cum.cost
    1 1 5 208 5
    19 19 1087 48 1092
    20 20 1472 179 2564
    5 5 1521 449 4085
    15 15 1801 102 5886
    13 13 2192 41 8078

    # RHS Constraint
    max_cost <- 5

    # Fitness Function
    fit_func <- function(x)
    iter_cost <- x %*% a$cost
    iter_value <- x %*% a$value

    if(iter_cost > max_cost)
    return(0)
    else
    return(iter_value)



    # Run
    select <- ga(type = "binary",
    nBits = nrow(a),
    maxiter = 1000,
    run = 250,
    fitness = fit_func,
    popSize = 1000)

    # Print Results
    cat("n","Fitness Value: ", select@fitnessValue, "n",
    "Items Selected: ", if(select@fitnessValue == 0) 0 else sum(select@solution) , "n",
    "Min Optimal Selection:", nrow(a[a$cum.cost <= max_cost, ]))


    And Result:



    Fitness Value: 0 
    Items Selected: 0
    Min Optimal Selection: 1


    I've tried ample combinations of parameters, including the pmutation, pcrossover, popSize, and run iterations, with no luck. I've also tried the genalg::rbga.bin() function with the same results.



    No matter, when the optimal solution is sparse, I'm unable to return any solution.



    I'm assuming it's either my design, fitness function, or possibly something to do with the stochastic GA approach. Any help is greatly appreciated.










    share|improve this question


























      0












      0








      0








      Simple knapsack type, binary optimization with 1 constraint using the GA package in R.



      With a known optimal solution of say 5% of total population size, a 0 solution set is always returned. For some reason the search space never seems to include sparse solutions (e.g. binary 10000000000000000000, 01000000000000000000).



      Here the optimal solution is 1 item selected when the max cost is set to 5, however a 0 set is always returned unless we up the max cost constraint to allow ~30% of the total population to be optimal.



      library(GA)
      options(scipen = 999)

      set.seed(348821)
      n <- 20
      optim_n <- 1
      a <- data.frame(item = c(1:n),
      cost = c(rep(5, optim_n), sample(1000:5000, n - optim_n)),
      value = sample(1:500, n))

      a <- a[order(a$cost), ]
      a$cum.cost <- cumsum(a$cost)

      head(a)
      item cost value cum.cost
      1 1 5 208 5
      19 19 1087 48 1092
      20 20 1472 179 2564
      5 5 1521 449 4085
      15 15 1801 102 5886
      13 13 2192 41 8078

      # RHS Constraint
      max_cost <- 5

      # Fitness Function
      fit_func <- function(x)
      iter_cost <- x %*% a$cost
      iter_value <- x %*% a$value

      if(iter_cost > max_cost)
      return(0)
      else
      return(iter_value)



      # Run
      select <- ga(type = "binary",
      nBits = nrow(a),
      maxiter = 1000,
      run = 250,
      fitness = fit_func,
      popSize = 1000)

      # Print Results
      cat("n","Fitness Value: ", select@fitnessValue, "n",
      "Items Selected: ", if(select@fitnessValue == 0) 0 else sum(select@solution) , "n",
      "Min Optimal Selection:", nrow(a[a$cum.cost <= max_cost, ]))


      And Result:



      Fitness Value: 0 
      Items Selected: 0
      Min Optimal Selection: 1


      I've tried ample combinations of parameters, including the pmutation, pcrossover, popSize, and run iterations, with no luck. I've also tried the genalg::rbga.bin() function with the same results.



      No matter, when the optimal solution is sparse, I'm unable to return any solution.



      I'm assuming it's either my design, fitness function, or possibly something to do with the stochastic GA approach. Any help is greatly appreciated.










      share|improve this question
















      Simple knapsack type, binary optimization with 1 constraint using the GA package in R.



      With a known optimal solution of say 5% of total population size, a 0 solution set is always returned. For some reason the search space never seems to include sparse solutions (e.g. binary 10000000000000000000, 01000000000000000000).



      Here the optimal solution is 1 item selected when the max cost is set to 5, however a 0 set is always returned unless we up the max cost constraint to allow ~30% of the total population to be optimal.



      library(GA)
      options(scipen = 999)

      set.seed(348821)
      n <- 20
      optim_n <- 1
      a <- data.frame(item = c(1:n),
      cost = c(rep(5, optim_n), sample(1000:5000, n - optim_n)),
      value = sample(1:500, n))

      a <- a[order(a$cost), ]
      a$cum.cost <- cumsum(a$cost)

      head(a)
      item cost value cum.cost
      1 1 5 208 5
      19 19 1087 48 1092
      20 20 1472 179 2564
      5 5 1521 449 4085
      15 15 1801 102 5886
      13 13 2192 41 8078

      # RHS Constraint
      max_cost <- 5

      # Fitness Function
      fit_func <- function(x)
      iter_cost <- x %*% a$cost
      iter_value <- x %*% a$value

      if(iter_cost > max_cost)
      return(0)
      else
      return(iter_value)



      # Run
      select <- ga(type = "binary",
      nBits = nrow(a),
      maxiter = 1000,
      run = 250,
      fitness = fit_func,
      popSize = 1000)

      # Print Results
      cat("n","Fitness Value: ", select@fitnessValue, "n",
      "Items Selected: ", if(select@fitnessValue == 0) 0 else sum(select@solution) , "n",
      "Min Optimal Selection:", nrow(a[a$cum.cost <= max_cost, ]))


      And Result:



      Fitness Value: 0 
      Items Selected: 0
      Min Optimal Selection: 1


      I've tried ample combinations of parameters, including the pmutation, pcrossover, popSize, and run iterations, with no luck. I've also tried the genalg::rbga.bin() function with the same results.



      No matter, when the optimal solution is sparse, I'm unable to return any solution.



      I'm assuming it's either my design, fitness function, or possibly something to do with the stochastic GA approach. Any help is greatly appreciated.







      r optimization sparse-matrix genetic-algorithm knapsack-problem






      share|improve this question















      share|improve this question













      share|improve this question




      share|improve this question








      edited Mar 11 at 13:48







      Brian

















      asked Mar 8 at 20:19









      BrianBrian

      807




      807






















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