Add exercise 5

ex5/problem1/CMakeLists.txt

+# require minimum version of CMake
+cmake_minimum_required(VERSION 3.21) 
+
+# set name of project
+project(Penna)
+
+# set warning compile flags
+add_compile_options(-Wall -Wextra -Wpedantic)
+
+# option to build STATIC or SHARED library
+option(BUILD_SQUARE_SHARED "Build the square library shared." OFF)
+if(BUILD_SQUARED_SHARED)
+    set(SQUARE_LIBRARY_TYPE SHARED)
+else()
+    set(SQUARE_LIBRARY_TYPE STATIC)
+endif()
+
+# add executable to the project
+add_executable(main main.cpp animal.cpp genome.cpp)

ex5/problem1/animal.cpp

+#include <experimental/random>
+#include "genome.hpp"
+#include "animal.hpp"
+
+Penna::age_t Penna::Animal::bad_threshold_ = 3;
+Penna::age_t Penna::Animal::maturity_age_ = 2;
+double Penna::Animal::probability_to_get_pregnant_ = 1.;
+
+Penna::Animal::Animal() : age_(0) {}
+
+Penna::Animal::Animal(const Penna::Genome& gen) : gen_(gen), age_(0) {}
+
+void Penna::Animal::set_maturity_age(Penna::age_t m_age) {
+  maturity_age_ = m_age;
+}
+
+void Penna::Animal::set_probability_to_get_pregnant(double p) {
+  probability_to_get_pregnant_ = p;
+}
+
+void Penna::Animal::set_bad_threshold(Penna::age_t T) {
+  bad_threshold_ = T;
+}
+
+Penna::age_t Penna::Animal::get_bad_threshold() {
+  return bad_threshold_;
+}
+
+bool Penna::Animal::is_dead() const {
+  if (age_ > maximum_age) {
+    return true;
+  }
+  else {
+    Penna::age_t count = gen_.count_bad(age_);
+    if ((count > bad_threshold_) || (age_ > maximum_age)) {
+      return true;
+    }
+  }
+  return false;
+}
+
+bool Penna::Animal::is_pregnant() const {
+  if (age_ >= maturity_age_) {
+    int random = std::experimental::randint(0, 100);  // random number between 0 and 100
+    if (random <= probability_to_get_pregnant_*100) {  
+      return true;
+    }
+  }
+  return false;
+}
+
+Penna::age_t Penna::Animal::age() const {
+  return age_;
+}
+
+void Penna::Animal::grow() {
+  age_ += 1;
+}
+
+Penna::Animal Penna::Animal::give_birth() {
+  Penna::Animal *baby = new Penna::Animal(this->gen_);
+  baby->gen_.mutate();
+  return *baby;
+}

ex5/problem1/animal.hpp

+/**
+ * Header for Penna animal class.
+ * Programming Techniques for Scientific Simulations, HS 2021
+ */
+
+#ifndef ANIMAL_HPP
+#define ANIMAL_HPP
+
+#include "genome.hpp"
+
+/// Penna namespace.
+namespace Penna {
+
+/// Animal with a Genome and age.
+class Animal {
+public:
+    static const age_t maximum_age = Genome::number_of_genes; ///< upper age limit
+
+    static void set_maturity_age( age_t );   ///< set maturity age
+    static void set_probability_to_get_pregnant ( double ); ///< set birth rate modifier
+
+    static void  set_bad_threshold( age_t ); ///< set threshold for deletrious mutation
+    static age_t get_bad_threshold();  ///< get deletrious mutation threshold
+
+    Animal();                    ///< default constructor: Uses all good genome
+    Animal( const Genome& );     ///< constructor using a given genome
+
+    bool is_dead() const;        ///< get death status
+    bool is_pregnant() const;    ///< get pregnancy status
+    age_t age() const;           ///< get age
+
+    void grow();                 ///< grow the animal older by one year
+    Animal give_birth();         ///< create baby with inherited, randomly mutated genes
+
+private:
+    static age_t bad_threshold_; ///< number T of bad genes an animal can tolerate
+    static age_t maturity_age_;  ///< maturity age parameter R
+    static double probability_to_get_pregnant_; ///< birth rate modifier b
+
+    Genome gen_;
+    age_t age_;
+    bool pregnant_;
+};
+
+} // namespace Penna
+
+#endif // ANIMAL_HPP

ex5/problem1/build/CMakeCache.txt

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