Now it sleeps for 3 seconds between each new bacteria and the mutations are more random

bacteria.cpp

@@ -1,8 +1,12 @@
-#include <fstream>
-#include <cstdlib>
+#include <bitset>
 #include <climits>
+#include <chrono>         // std::chrono::seconds
+#include <cstdlib>
 #include <ctime>
+#include <fstream>
 #include <iostream>
+#include <thread>         // std::this_thread::sleep_for
+ 
 
 using namespace std;
 
@@ -19,20 +23,22 @@ int main(int argc,char** argv) {
 		// Read my own program
 		ifstream ifile;
 		ifile.open(argv[0], ios::binary) ;
+		
+		//Get some randomness
 		srand( time(NULL) );
 		int filesize = file_size(argv[0]);
 		int rand_byte = rand() %  ( filesize + 1 );
+
 		// Devide
 		ofstream ofile;
 		string filename = tempnam(".", "bact-");
-		cout << "Creating new bacteria called: "<< filename << " with size:" << file_size(argv[0]) << '\n';;
+		cout << "Creating new bacteria called: "<< filename << " with size:" << filesize << '\n';;
 		ofile.open(filename, ios::binary | ios::out);
 
-		if ( ifile.fail() or ofile.fail() ) {
-		   return 1; //error
-		}
-
+		// We count our bytes
 		int byte_counter = 0;
+		
+		// Loop through binary file byte by byte
 		while (!ifile.eof()) {
 			unsigned char c;
 
@@ -41,12 +47,28 @@ int main(int argc,char** argv) {
 			if (ifile.fail()) {
 				break;
 			}
-			if (byte_counter == rand_byte and i == 1) { 
+			if (byte_counter == rand_byte ) { 
+				int insert = rand() % 6;
+				if (insert == 0) {
+					char byte = (char) rand() % 256;
+					bitset<8> binbyte(byte);
+					cout << "Inserting byte with value: " << binbyte << " after byte: " << byte_counter << '\n';
+					ofile.put(c);
+					ofile.put(byte);
+				} else if (insert == 1)  {
 					int bit = rand() % CHAR_BIT;
 					cout << "Mutating bit: " << bit << " of byte: " << byte_counter << '\n';
 					c ^= (1u << bit);
+					ofile.put(c);
+				} else if (insert == 2){
+					cout << "Witholding byte: " << byte_counter << '\n';
+				} else { 
+					cout << "Just letting this one pass."<< '\n';
+					ofile.put(c);
 				}
+			} else {
 				ofile.put(c);
+			}
 			byte_counter++;
 		}
 
@@ -54,7 +76,8 @@ int main(int argc,char** argv) {
 		string executable = "/bin/chmod +x " + filename;
 		string run = filename;
 		system(executable.c_str());
-		//system(run.c_str());
+		this_thread::sleep_for (chrono::seconds(3));
+		system(run.c_str()); // This is the dangerous part ^^
 	}
 	return 0;
 }