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Commit d89d784a authored by Davis King's avatar Davis King
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Just added a try/catch block around the whole program.

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examples/bayes_net_ex.cpp
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......@@ -51,246 +51,257 @@ using namespace std;
int main()
{
// There are many useful convenience functions in this namespace. They all
// perform simple access or modify operations on the nodes of a bayesian network.
// You don't have to use them but they are convenient and they also will check for
// various errors in your bayesian network when your application is built with
// the DEBUG or ENABLE_ASSERTS preprocessor definitions defined. So their use
// is recommended. In fact, most of the global functions used in this example
// program are from this namespace.
using namespace bayes_node_utils;
// This statement declares a bayesian network called bn. Note that a bayesian network
// in the dlib world is just a directed_graph object that contains a special kind
// of node called a bayes_node.
directed_graph<bayes_node>::kernel_1a_c bn;
// Use an enum to make some more readable names for our nodes.
enum nodes
try
{
A = 0,
B = 1,
C = 2,
D = 3
};
// The next few blocks of code setup our bayesian network.
// The first thing we do is tell the bn object how many nodes it has
// and also add the three edges. Again, we are using the network
// shown in ASCII art at the top of this file.
bn.set_number_of_nodes(4);
bn.add_edge(A, D);
bn.add_edge(B, A);
bn.add_edge(C, A);
// Now we inform all the nodes in the network that they are binary
// nodes. That is, they only have two possible values.
set_node_num_values(bn, A, 2);
set_node_num_values(bn, B, 2);
set_node_num_values(bn, C, 2);
set_node_num_values(bn, D, 2);
assignment parent_state;
// Now we will enter all the conditional probability information for each node.
// Each node's conditional probability is dependent on the state of its parents.
// To specify this state we need to use the assignment object. This assignment
// object allows us to specify the state of each nodes parents.
// Here we specify that p(B=1) = 0.01
// parent_state is empty in this case since B is a root node.
set_node_probability(bn, B, 1, parent_state, 0.01);
// Here we specify that p(B=0) = 1-0.01
set_node_probability(bn, B, 0, parent_state, 1-0.01);
// Here we specify that p(C=1) = 0.001
// parent_state is empty in this case since B is a root node.
set_node_probability(bn, C, 1, parent_state, 0.001);
// Here we specify that p(C=0) = 1-0.001
set_node_probability(bn, C, 0, parent_state, 1-0.001);
// This is our first node that has parents. So we set the parent_state
// object to reflect that A has both B and C as parents.
parent_state.add(B, 1);
parent_state.add(C, 1);
// Here we specify that p(A=1 | B=1, C=1) = 0.99
set_node_probability(bn, A, 1, parent_state, 0.99);
// Here we specify that p(A=0 | B=1, C=1) = 1-0.99
set_node_probability(bn, A, 0, parent_state, 1-0.99);
// Here we use the [] notation because B and C have already
// been added into parent state.
parent_state[B] = 1;
parent_state[C] = 0;
// Here we specify that p(A=1 | B=1, C=0) = 0.9
set_node_probability(bn, A, 1, parent_state, 0.9);
set_node_probability(bn, A, 0, parent_state, 1-0.9);
parent_state[B] = 0;
parent_state[C] = 1;
// Here we specify that p(A=1 | B=0, C=1) = 0.5
set_node_probability(bn, A, 1, parent_state, 0.5);
set_node_probability(bn, A, 0, parent_state, 1-0.5);
parent_state[B] = 0;
parent_state[C] = 0;
// Here we specify that p(A=1 | B=0, C=0) = 0.01
set_node_probability(bn, A, 1, parent_state, 0.01);
set_node_probability(bn, A, 0, parent_state, 1-0.01);
// Here we set probabilities for node D.
// First we clear out parent state so that it doesn't have any of
// the assignments for the B and C nodes used above.
parent_state.clear();
parent_state.add(A,1);
// Here we specify that p(D=1 | A=1) = 0.5
set_node_probability(bn, D, 1, parent_state, 0.5);
set_node_probability(bn, D, 0, parent_state, 1-0.5);
parent_state[A] = 0;
// Here we specify that p(D=1 | A=0) = 0.2
set_node_probability(bn, D, 1, parent_state, 0.2);
set_node_probability(bn, D, 0, parent_state, 1-0.2);
// We have now finished setting up our bayesian network. So lets compute some
// probability values. The first thing we will do is compute the prior probability
// of each node in the network. To do this we will use the join tree algorithm which
// is an algorithm for performing exact inference in a bayesian network.
// First we need to create an undirected graph which contains set objects at each node and
// edge. This long declaration does the trick.
typedef set<unsigned long>::compare_1b_c set_type;
typedef graph<set_type, set_type>::kernel_1a_c join_tree_type;
join_tree_type join_tree;
// Now we need to populate the join_tree with data from our bayesian network. The next
// function calls do this. Explaining exactly what they do is outside the scope of this
// example. Just think of them as filling join_tree with information that is useful
// later on for dealing with our bayesian network.
create_moral_graph(bn, join_tree);
create_join_tree(join_tree, join_tree);
// Now that we have a proper join_tree we can use it to obtain a solution to our
// bayesian network. Doing this is as simple as declaring an instance of
// the bayesian_network_join_tree object as follows:
bayesian_network_join_tree solution(bn, join_tree);
// now print out the probabilities for each node
cout << "Using the join tree algorithm:\n";
cout << "p(A=1) = " << solution.probability(A)(1) << endl;
cout << "p(A=0) = " << solution.probability(A)(0) << endl;
cout << "p(B=1) = " << solution.probability(B)(1) << endl;
cout << "p(B=0) = " << solution.probability(B)(0) << endl;
cout << "p(C=1) = " << solution.probability(C)(1) << endl;
cout << "p(C=0) = " << solution.probability(C)(0) << endl;
cout << "p(D=1) = " << solution.probability(D)(1) << endl;
cout << "p(D=0) = " << solution.probability(D)(0) << endl;
cout << "\n\n\n";
// Now to make things more interesting lets say that we have discovered that the C
// node really has a value of 1. That is to say, we now have evidence that
// C is 1. We can represent this in the network using the following two function
// calls.
set_node_value(bn, C, 1);
set_node_as_evidence(bn, C);
// Now we want to compute the probabilities of all the nodes in the network again
// given that we now know that C is 1. We can do this as follows:
bayesian_network_join_tree solution_with_evidence(bn, join_tree);
// now print out the probabilities for each node
cout << "Using the join tree algorithm:\n";
cout << "p(A=1 | C=1) = " << solution_with_evidence.probability(A)(1) << endl;
cout << "p(A=0 | C=1) = " << solution_with_evidence.probability(A)(0) << endl;
cout << "p(B=1 | C=1) = " << solution_with_evidence.probability(B)(1) << endl;
cout << "p(B=0 | C=1) = " << solution_with_evidence.probability(B)(0) << endl;
cout << "p(C=1 | C=1) = " << solution_with_evidence.probability(C)(1) << endl;
cout << "p(C=0 | C=1) = " << solution_with_evidence.probability(C)(0) << endl;
cout << "p(D=1 | C=1) = " << solution_with_evidence.probability(D)(1) << endl;
cout << "p(D=0 | C=1) = " << solution_with_evidence.probability(D)(0) << endl;
cout << "\n\n\n";
// Note that when we made our solution_with_evidence object we reused our join_tree object.
// This saves us the time it takes to calculate the join_tree object from scratch. But
// it is important to note that we can only reuse the join_tree object if we haven't changed
// the structure of our bayesian network. That is, if we have added or removed nodes or
// edges from our bayesian network then we must recompute our join_tree. But in this example
// all we did was change the value of a bayes_node object (we made node C be evidence)
// so we are ok.
// Next this example will show you how to use the bayesian_network_gibbs_sampler object
// to perform approximate inference in a bayesian network. This is an algorithm
// that doesn't give you an exact solution but it may be necessary to use in some
// instances. For example, the join tree algorithm used above, while fast in many
// instances, has exponential runtime in some cases. Moreover, inference in bayesian
// networks is NP-Hard for general networks so sometimes the best you can do is
// find an approximation.
// However, it should be noted that the gibbs sampler does not compute the correct
// probabilities if the network contains a deterministic node. That is, if any
// of the conditional probability tables in the bayesian network have a probability
// of 1.0 for something the gibbs sampler should not be used.
// This Gibbs sampler algorithm works by randomly sampling possibles values of the
// network. So to use it we should set the network to some initial state.
set_node_value(bn, A, 0);
set_node_value(bn, B, 0);
set_node_value(bn, D, 0);
// We will leave the C node with a value of 1 and keep it as an evidence node.
// First create an instance of the gibbs sampler object
bayesian_network_gibbs_sampler sampler;
// To use this algorithm all we do is go into a loop for a certain number of times
// and each time through we sample the bayesian network. Then we count how
// many times a node has a certain state. Then the probability of that node
// having that state is just its count/total times through the loop.
// The following code illustrates the general procedure.
unsigned long A_count = 0;
unsigned long B_count = 0;
unsigned long C_count = 0;
unsigned long D_count = 0;
// The more times you let the loop run the more accurate the result will be. Here we loop
// 2000 times.
const long rounds = 2000;
for (long i = 0; i < rounds; ++i)
// There are many useful convenience functions in this namespace. They all
// perform simple access or modify operations on the nodes of a bayesian network.
// You don't have to use them but they are convenient and they also will check for
// various errors in your bayesian network when your application is built with
// the DEBUG or ENABLE_ASSERTS preprocessor definitions defined. So their use
// is recommended. In fact, most of the global functions used in this example
// program are from this namespace.
using namespace bayes_node_utils;
// This statement declares a bayesian network called bn. Note that a bayesian network
// in the dlib world is just a directed_graph object that contains a special kind
// of node called a bayes_node.
directed_graph<bayes_node>::kernel_1a_c bn;
// Use an enum to make some more readable names for our nodes.
enum nodes
{
A = 0,
B = 1,
C = 2,
D = 3
};
// The next few blocks of code setup our bayesian network.
// The first thing we do is tell the bn object how many nodes it has
// and also add the three edges. Again, we are using the network
// shown in ASCII art at the top of this file.
bn.set_number_of_nodes(4);
bn.add_edge(A, D);
bn.add_edge(B, A);
bn.add_edge(C, A);
// Now we inform all the nodes in the network that they are binary
// nodes. That is, they only have two possible values.
set_node_num_values(bn, A, 2);
set_node_num_values(bn, B, 2);
set_node_num_values(bn, C, 2);
set_node_num_values(bn, D, 2);
assignment parent_state;
// Now we will enter all the conditional probability information for each node.
// Each node's conditional probability is dependent on the state of its parents.
// To specify this state we need to use the assignment object. This assignment
// object allows us to specify the state of each nodes parents.
// Here we specify that p(B=1) = 0.01
// parent_state is empty in this case since B is a root node.
set_node_probability(bn, B, 1, parent_state, 0.01);
// Here we specify that p(B=0) = 1-0.01
set_node_probability(bn, B, 0, parent_state, 1-0.01);
// Here we specify that p(C=1) = 0.001
// parent_state is empty in this case since B is a root node.
set_node_probability(bn, C, 1, parent_state, 0.001);
// Here we specify that p(C=0) = 1-0.001
set_node_probability(bn, C, 0, parent_state, 1-0.001);
// This is our first node that has parents. So we set the parent_state
// object to reflect that A has both B and C as parents.
parent_state.add(B, 1);
parent_state.add(C, 1);
// Here we specify that p(A=1 | B=1, C=1) = 0.99
set_node_probability(bn, A, 1, parent_state, 0.99);
// Here we specify that p(A=0 | B=1, C=1) = 1-0.99
set_node_probability(bn, A, 0, parent_state, 1-0.99);
// Here we use the [] notation because B and C have already
// been added into parent state.
parent_state[B] = 1;
parent_state[C] = 0;
// Here we specify that p(A=1 | B=1, C=0) = 0.9
set_node_probability(bn, A, 1, parent_state, 0.9);
set_node_probability(bn, A, 0, parent_state, 1-0.9);
parent_state[B] = 0;
parent_state[C] = 1;
// Here we specify that p(A=1 | B=0, C=1) = 0.5
set_node_probability(bn, A, 1, parent_state, 0.5);
set_node_probability(bn, A, 0, parent_state, 1-0.5);
parent_state[B] = 0;
parent_state[C] = 0;
// Here we specify that p(A=1 | B=0, C=0) = 0.01
set_node_probability(bn, A, 1, parent_state, 0.01);
set_node_probability(bn, A, 0, parent_state, 1-0.01);
// Here we set probabilities for node D.
// First we clear out parent state so that it doesn't have any of
// the assignments for the B and C nodes used above.
parent_state.clear();
parent_state.add(A,1);
// Here we specify that p(D=1 | A=1) = 0.5
set_node_probability(bn, D, 1, parent_state, 0.5);
set_node_probability(bn, D, 0, parent_state, 1-0.5);
parent_state[A] = 0;
// Here we specify that p(D=1 | A=0) = 0.2
set_node_probability(bn, D, 1, parent_state, 0.2);
set_node_probability(bn, D, 0, parent_state, 1-0.2);
// We have now finished setting up our bayesian network. So lets compute some
// probability values. The first thing we will do is compute the prior probability
// of each node in the network. To do this we will use the join tree algorithm which
// is an algorithm for performing exact inference in a bayesian network.
// First we need to create an undirected graph which contains set objects at each node and
// edge. This long declaration does the trick.
typedef set<unsigned long>::compare_1b_c set_type;
typedef graph<set_type, set_type>::kernel_1a_c join_tree_type;
join_tree_type join_tree;
// Now we need to populate the join_tree with data from our bayesian network. The next
// function calls do this. Explaining exactly what they do is outside the scope of this
// example. Just think of them as filling join_tree with information that is useful
// later on for dealing with our bayesian network.
create_moral_graph(bn, join_tree);
create_join_tree(join_tree, join_tree);
// Now that we have a proper join_tree we can use it to obtain a solution to our
// bayesian network. Doing this is as simple as declaring an instance of
// the bayesian_network_join_tree object as follows:
bayesian_network_join_tree solution(bn, join_tree);
// now print out the probabilities for each node
cout << "Using the join tree algorithm:\n";
cout << "p(A=1) = " << solution.probability(A)(1) << endl;
cout << "p(A=0) = " << solution.probability(A)(0) << endl;
cout << "p(B=1) = " << solution.probability(B)(1) << endl;
cout << "p(B=0) = " << solution.probability(B)(0) << endl;
cout << "p(C=1) = " << solution.probability(C)(1) << endl;
cout << "p(C=0) = " << solution.probability(C)(0) << endl;
cout << "p(D=1) = " << solution.probability(D)(1) << endl;
cout << "p(D=0) = " << solution.probability(D)(0) << endl;
cout << "\n\n\n";
// Now to make things more interesting lets say that we have discovered that the C
// node really has a value of 1. That is to say, we now have evidence that
// C is 1. We can represent this in the network using the following two function
// calls.
set_node_value(bn, C, 1);
set_node_as_evidence(bn, C);
// Now we want to compute the probabilities of all the nodes in the network again
// given that we now know that C is 1. We can do this as follows:
bayesian_network_join_tree solution_with_evidence(bn, join_tree);
// now print out the probabilities for each node
cout << "Using the join tree algorithm:\n";
cout << "p(A=1 | C=1) = " << solution_with_evidence.probability(A)(1) << endl;
cout << "p(A=0 | C=1) = " << solution_with_evidence.probability(A)(0) << endl;
cout << "p(B=1 | C=1) = " << solution_with_evidence.probability(B)(1) << endl;
cout << "p(B=0 | C=1) = " << solution_with_evidence.probability(B)(0) << endl;
cout << "p(C=1 | C=1) = " << solution_with_evidence.probability(C)(1) << endl;
cout << "p(C=0 | C=1) = " << solution_with_evidence.probability(C)(0) << endl;
cout << "p(D=1 | C=1) = " << solution_with_evidence.probability(D)(1) << endl;
cout << "p(D=0 | C=1) = " << solution_with_evidence.probability(D)(0) << endl;
cout << "\n\n\n";
// Note that when we made our solution_with_evidence object we reused our join_tree object.
// This saves us the time it takes to calculate the join_tree object from scratch. But
// it is important to note that we can only reuse the join_tree object if we haven't changed
// the structure of our bayesian network. That is, if we have added or removed nodes or
// edges from our bayesian network then we must recompute our join_tree. But in this example
// all we did was change the value of a bayes_node object (we made node C be evidence)
// so we are ok.
// Next this example will show you how to use the bayesian_network_gibbs_sampler object
// to perform approximate inference in a bayesian network. This is an algorithm
// that doesn't give you an exact solution but it may be necessary to use in some
// instances. For example, the join tree algorithm used above, while fast in many
// instances, has exponential runtime in some cases. Moreover, inference in bayesian
// networks is NP-Hard for general networks so sometimes the best you can do is
// find an approximation.
// However, it should be noted that the gibbs sampler does not compute the correct
// probabilities if the network contains a deterministic node. That is, if any
// of the conditional probability tables in the bayesian network have a probability
// of 1.0 for something the gibbs sampler should not be used.
// This Gibbs sampler algorithm works by randomly sampling possibles values of the
// network. So to use it we should set the network to some initial state.
set_node_value(bn, A, 0);
set_node_value(bn, B, 0);
set_node_value(bn, D, 0);
// We will leave the C node with a value of 1 and keep it as an evidence node.
// First create an instance of the gibbs sampler object
bayesian_network_gibbs_sampler sampler;
// To use this algorithm all we do is go into a loop for a certain number of times
// and each time through we sample the bayesian network. Then we count how
// many times a node has a certain state. Then the probability of that node
// having that state is just its count/total times through the loop.
// The following code illustrates the general procedure.
unsigned long A_count = 0;
unsigned long B_count = 0;
unsigned long C_count = 0;
unsigned long D_count = 0;
// The more times you let the loop run the more accurate the result will be. Here we loop
// 2000 times.
const long rounds = 2000;
for (long i = 0; i < rounds; ++i)
{
sampler.sample_graph(bn);
if (node_value(bn, A) == 1)
++A_count;
if (node_value(bn, B) == 1)
++B_count;
if (node_value(bn, C) == 1)
++C_count;
if (node_value(bn, D) == 1)
++D_count;
}
cout << "Using the approximate Gibbs Sampler algorithm:\n";
cout << "p(A=1 | C=1) = " << (double)A_count/(double)rounds << endl;
cout << "p(B=1 | C=1) = " << (double)B_count/(double)rounds << endl;
cout << "p(C=1 | C=1) = " << (double)C_count/(double)rounds << endl;
cout << "p(D=1 | C=1) = " << (double)D_count/(double)rounds << endl;
}
catch (std::exception& e)
{
sampler.sample_graph(bn);
if (node_value(bn, A) == 1)
++A_count;
if (node_value(bn, B) == 1)
++B_count;
if (node_value(bn, C) == 1)
++C_count;
if (node_value(bn, D) == 1)
++D_count;
cout << "exception thrown: " << endl;
cout << e.what() << endl;
cout << "hit enter to terminate" << endl;
cin.get();
}
cout << "Using the approximate Gibbs Sampler algorithm:\n";
cout << "p(A=1 | C=1) = " << (double)A_count/(double)rounds << endl;
cout << "p(B=1 | C=1) = " << (double)B_count/(double)rounds << endl;
cout << "p(C=1 | C=1) = " << (double)C_count/(double)rounds << endl;
cout << "p(D=1 | C=1) = " << (double)D_count/(double)rounds << endl;
}
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