diff --git a/Makefile b/Makefile
index b5b319e..1f62278 100644
--- a/Makefile
+++ b/Makefile
@@ -1,4 +1,4 @@
-# This Makefile was generated using MakeGen v1.1.3 made by Tim Håkansson
+# This Makefile was generated using MakeGen v1.1.4 made by Tim Håkansson
 # and is licensed under MIT. Full source of the project can be found at
 # https://github.com/Thraix/MakeGen
 CC=@g++
@@ -13,15 +13,16 @@ LIBDIR=
 LDFLAGS=
 LIBS=$(LIBDIR) 
 OUTPUT=$(BIN)makegen
-.PHONY: all directories rebuild clean dependencies
-all: dependencies directories $(OUTPUT)
-dependencies:
+.PHONY: all directories rebuild clean run
+all: directories $(OUTPUT)
 directories: $(BIN) $(OBJPATH)
 $(BIN):
 	$(info Creating output directories)
 	@$(MKDIR_P) $(BIN)
 $(OBJPATH):
 	@$(MKDIR_P) $(OBJPATH)
+run: all
+	@./$(OUTPUT)
 rebuild: clean all
 clean:
 	$(info Removing intermediates)
diff --git a/src/Common.h b/src/Common.h
index e11e286..bb34caf 100755
--- a/src/Common.h
+++ b/src/Common.h
@@ -13,12 +13,19 @@
 // Release , should be backwards compatible with any minor version
 #define MAKEGEN_VERSION_RELEASE 1
 // Minor changes, should be compatible with any other minor version with same major and release.
-#define MAKEGEN_VERSION_MINOR 3
+#define MAKEGEN_VERSION_MINOR 4
 #define MAKEGEN_VERSION ("v" STR(MAKEGEN_VERSION_MAJOR) "." STR(MAKEGEN_VERSION_RELEASE) "." STR(MAKEGEN_VERSION_MINOR))
 
 const static unsigned int FLAG_HELP = BIT(0);
 const static unsigned int FLAG_GEN = BIT(1);
 const static unsigned int FLAG_VERSION = BIT(2);
+const static unsigned int FLAG_CLEAN = BIT(3);
+const static unsigned int FLAG_MAKE = BIT(4);
+const static unsigned int FLAG_RUN = BIT(5);
+const static unsigned int FLAG_INSTALL = BIT(6);
+const static unsigned int FLAG_REBUILD = BIT(7);
+const static unsigned int FLAG_SINGLE_THREAD = BIT(8);
+const static unsigned int FLAG_DEPENDENCY = BIT(9);
 
 
 #define LOG_INFO(...) Log(__VA_ARGS__); std::cout << std::endl
diff --git a/src/FileUtils.h b/src/FileUtils.h
index 3232f29..66b0bab 100644
--- a/src/FileUtils.h
+++ b/src/FileUtils.h
@@ -1,16 +1,32 @@
 #pragma once
 
-#include <string>
-#include <fstream>
-#include <dirent.h>
 #include "Common.h"
-#include <cstring>
-#include <vector>
 #include <algorithm>
+#include <cstring>
+#include <dirent.h>
+#include <fstream>
+#include <sys/stat.h>
 #include <stdlib.h>
+#include <string>
+#include <vector>
 
 struct FileUtils
 {
+  static bool HasPath(const std::string& path)
+  {
+    struct stat info;
+
+    if(stat(path.c_str(), &info) != 0)
+      return false;
+    else
+      return true;
+  }
+
+  static bool CreateDirectory(const std::string& path)
+  {
+    return mkdir(path.c_str(), 0777);
+  }
+
   static std::string GetRealPath(const std::string& filename)
   {
 #if defined(__linux__)
diff --git a/src/Makefile.cpp b/src/Makefile.cpp
index 1b5d8ba..a598091 100755
--- a/src/Makefile.cpp
+++ b/src/Makefile.cpp
@@ -94,39 +94,51 @@ void Makefile::Save(const ConfigFile& conf)
     }
   }
   outputFile << "OUTPUT=$(BIN)" << conf.outputname << std::endl;
-  outputFile << ".PHONY: all directories rebuild clean dependencies" << std::endl;
-  outputFile << "all: dependencies directories $(OUTPUT)" << std::endl;
-  //outputFile << "\t$(info ------------------------)" << std::endl;
-  //outputFile << "\t$(info ---- Done Compiling ----)" << std::endl;
-  //outputFile << "\t$(info ------------------------)" << std::endl;
+  outputFile << ".PHONY: all directories rebuild clean run" << std::endl;
 
-  outputFile << "dependencies:" << std::endl;
-  if(!conf.dependencies.empty())
-  {
-    //outputFile << "\t$(info Building dependencies)" << std::endl;
-    //outputFile << "\t@for dep in $(DEPENDENCIES); do\\" << std::endl;
-    //outputFile << "\t\tmakegen -C $$dep;\\" << std::endl;
-    //outputFile << "\tdone" << std::endl;
-  }
+  // All
+  outputFile << "all: directories $(OUTPUT)" << std::endl;
+
+  // Directories
   outputFile << "directories: $(BIN) $(OBJPATH)" << std::endl;
+
+  // Bin path
   outputFile << "$(BIN):" << std::endl;
   outputFile << "\t$(info Creating output directories)" << std::endl;
   outputFile << "\t@$(MKDIR_P) $(BIN)" << std::endl;
+
+  // Object path
   outputFile << "$(OBJPATH):" << std::endl;
   outputFile << "\t@$(MKDIR_P) $(OBJPATH)" << std::endl;
+
+  // Run
+  outputFile << "run: all" << std::endl;
+  if(conf.executable)
+  {
+    outputFile << "\t@./$(OUTPUT)" << std::endl;
+  }
+
+  // Rebuild
   outputFile << "rebuild: clean all" << std::endl;
+
+  // Clean
   outputFile << "clean:" << std::endl;
   outputFile << "\t$(info Removing intermediates)" << std::endl;
   outputFile << "\trm -rf $(OBJPATH)/*.o" << std::endl;
+
+  // Output file
   outputFile << "$(OUTPUT): $(OBJECTS)" << std::endl;
   outputFile << "\t$(info Generating output file)" << std::endl;
   if(conf.executable)
     outputFile << "\t$(CO) $(OUTPUT) $(OBJECTS) $(LDFLAGS) $(LIBS)" << std::endl;
   else
     outputFile << "\t$(CO) $(OUTPUT) $(OBJECTS)" << std::endl;
+
+  // Install
   outputFile << "install: all" << std::endl;
   outputFile << "\t$(info Installing " << conf.projectname <<" to /usr/bin/)" << std::endl;
   outputFile << "\t@cp $(OUTPUT) /usr/bin/" << conf.outputname << std::endl;
+
   std::map<std::string, IncludeDeps*> dependencies;
   size_t i = 0;
   for(auto it = cppFiles.begin(); it!=cppFiles.end();++it)
@@ -139,6 +151,7 @@ void Makefile::Save(const ConfigFile& conf)
       size_t extensionPos = it->find_last_of(".");
       size_t slash = it->find_last_of("/")+1;
       std::string oFile = it->substr(slash, extensionPos - slash)+".o ";
+
       outputFile << "$(OBJPATH)/" << oFile << ": ";
       deps->Output(outputFile, conf);
       outputFile << std::endl;
diff --git a/src/main.cpp b/src/main.cpp
index 24ff04f..3bc4808 100755
--- a/src/main.cpp
+++ b/src/main.cpp
@@ -1,28 +1,55 @@
-#include <iostream>
-#include <string>
-#include <cstring>
-#include <vector>
-#include <map>
-#include <fstream>
-#include <cmath>
 #include "Common.h"
-#include "IncludeDeps.h"
 #include "ConfigFile.h"
-#include "Makefile.h"
+#include "FileUtils.h"
 #include "HFileGen.h"
+#include "IncludeDeps.h"
+#include "Makefile.h"
 #include "Timer.h"
 
+#include <cmath>
+#include <cstring>
+#include <fstream>
+#include <iostream>
+#include <map>
+#include <string>
+#include <sys/sysinfo.h>
+#include <vector>
+#include <thread>
+
+#define RETURN_IF(x, b) \
+  if(x)\
+  return b;
+
 void PrintHelp()
 {
+  LOG_INFO("MakeGen ", MAKEGEN_VERSION);
+  LOG_INFO("");
+  LOG_INFO("MakeGen is a utility tool to generate and run Makefiles in a simple manner.\nBy default it always compiles code with parallell jobs.");
+  LOG_INFO("");
   LOG_INFO("Usage: makegen [options]");
-  LOG_INFO(" Options:");
-  LOG_INFO("  --help\tDisplays this information");
-  LOG_INFO("  --conf\tGenerate a config file for the project");
-  LOG_INFO("  --version\tDisplays the version of this program");
-  LOG_INFO("  install\tGenerates a Makefile and runs make install");
-  LOG_INFO("  clean\t\tGenerates a Makefile and runs make clean");
-  LOG_INFO("  rebuild\tGenerates a Makefile and runs make rebuild");
-  LOG_INFO(" If no option is given it will run default make");
+  LOG_INFO("");
+  LOG_INFO("  Options:");
+  LOG_INFO("    -h,     --help        Displays this information");
+  LOG_INFO("            --conf        Prompt the user to enter information to create config");
+  LOG_INFO("                           file");
+  LOG_INFO("    -v,     --version     Displays the version of this program");
+  LOG_INFO("    -m,-a,  make,all      Generates a Makefile and runs");
+  LOG_INFO("                           make all");
+  LOG_INFO("    -i,     install       Generates a Makefile and runs");
+  LOG_INFO("                           make all && make install");
+  LOG_INFO("    -c,     clean         Generates a Makefile and runs");
+  LOG_INFO("                           make clean");
+  LOG_INFO("    -r,     rebuild       Generates a Makefile and runs");
+  LOG_INFO("                           make clean && make all");
+  LOG_INFO("    -e,     run, execute  Generates a Makefile and runs");
+  LOG_INFO("                           make all && make run");
+  LOG_INFO("    -s,     single        Runs additional makegen options as single thread");
+  LOG_INFO("                           (no --jobs=X flag)");
+  LOG_INFO("");
+  LOG_INFO("  If no option is given it will run \"make all\"");
+  LOG_INFO("");
+  LOG_INFO("  If multiple make options are given it will run in the following order:");
+  LOG_INFO("    clean all install run, rebuild will be translated to \"clean make\"");
 }
 
 std::optional<ConfigFile> GetConfigFile(const std::string& filepath)
@@ -47,36 +74,91 @@ void GenMakefile(const ConfigFile& conf)
 unsigned int ReadFlags(int argc, char** argv)
 {
   unsigned int flags = 0;
+  bool make = true;
   for(int i = 1;i<argc;i++)
   {
     if(strlen(argv[i]) > 1)
     {
-      if(argv[i][0] == '-' && argv[i][1] == '-')
+      std::string flag(argv[i]);
+      if(flag == "-h" || flag == "--help")
       {
-        std::string flag(argv[i]);
-        if(flag == "--help")
-        {
-          flags |= FLAG_HELP;
-        }
-        else if(flag == "--conf")
-        {
-          flags |= FLAG_GEN;
-        }
-        else if(flag == "--version")
-        {
-          flags |= FLAG_VERSION;
-        }
+        flags |= FLAG_HELP;
+      }
+      else if(flag == "--conf")
+      {
+        flags |= FLAG_GEN;
+      }
+      else if(flag == "-v" || flag == "--version")
+      {
+        flags |= FLAG_VERSION;
+      }
+      else if(flag == "make" || flag == "-m" || flag == "all" || flag == "-a")
+      {
+        flags |= FLAG_MAKE;
+      }
+      else if(flag == "clean" || flag == "-c")
+      {
+        make = false;
+        flags |= FLAG_CLEAN;
+      }
+      else if(flag == "run" || flag == "-e" || flag == "execute")
+      {
+        flags |= FLAG_RUN;
+      }
+      else if(flag == "install" || flag == "-i")
+      {
+        flags |= FLAG_INSTALL;
+      }
+      else if(flag == "rebuild" || flag == "-r")
+      {
+        flags |= FLAG_CLEAN;
+        flags |= FLAG_MAKE;
+      }
+      else if(flag == "single" || flag == "-s")
+      {
+        flags |= FLAG_SINGLE_THREAD;
+      }
+      else if(flag != "")
+      {
+        LOG_ERROR("Unknown argument ", flag);
+        return FLAG_HELP;
       }
     }
   }
+  if(make)
+    flags |= FLAG_MAKE;
   return flags;
 }
 
-bool MakeGen(const std::string& filepath, const std::string& args, const ConfigFile& conf)
+bool RunMake(const std::string& filepath, unsigned int flags, const ConfigFile& conf)
+{
+  std::string make = "make --no-print-directory -C " + filepath;
+  if(!(flags & FLAG_SINGLE_THREAD))
+    make += " -j" + std::to_string(std::thread::hardware_concurrency()) + " ";
+  if(flags & FLAG_CLEAN)
+  {
+    RETURN_IF(system(std::string(make + " clean").c_str()) != 0, false);
+  }
+  if(flags & FLAG_MAKE)
+  {
+    RETURN_IF(system(std::string(make + " all").c_str()) != 0, false);
+  }
+  if(flags & FLAG_INSTALL)
+  {
+    RETURN_IF(system(std::string(make + " install").c_str()) != 0, false);
+  }
+  if(flags & FLAG_RUN && conf.executable)
+  {
+    RETURN_IF(system(std::string(make + " run").c_str()) != 0, false);
+  }
+  return true;
+}
+
+bool MakeGen(const std::string& filepath, unsigned int flags, const ConfigFile& conf)
 {
   for(size_t i = 0;i<conf.dependencies.size();++i)
   {
-    bool success = MakeGen(conf.dependencies[i], args, conf.dependencyConfigs[i]);
+    bool success = MakeGen(conf.dependencies[i], flags, conf.dependencyConfigs[i]);
     if(!success)
       return success;
   }
@@ -88,11 +170,15 @@ bool MakeGen(const std::string& filepath, const std::string& args, const ConfigF
   LOG_INFO("Took ", round(timer.Elapsed()*1000.0)/1000.0,"s");
   LOG_INFO("Running Makefile...");
 
-  return system(std::string("make --no-print-directory -C " + filepath + " " + args).c_str()) == 0;
+  if(!FileUtils::HasPath(conf.configPath + conf.outputdir))
+  {
+    FileUtils::CreateDirectory(conf.configPath + conf.outputdir);
+    FileUtils::CreateDirectory(conf.configPath + conf.outputdir + "intermediates");
+  }
+  LOG_INFO(conf.configPath + conf.outputdir);
+  return RunMake(filepath, flags, conf);
 }
 
-#include "FileUtils.h"
-
 int main(int argc, char** argv)
 {
   unsigned int flags = ReadFlags(argc,argv);
@@ -112,15 +198,10 @@ int main(int argc, char** argv)
     return 0;
   }
 
-  std::string args = std::string("");
-  for(int i = 1;i<argc;i++)
-  {
-    args += " " + std::string(argv[i]);
-  }
   auto conf = GetConfigFile("./");
   if(conf)
   {
-    bool success = MakeGen("./", args, *conf);
+    bool success = MakeGen("./", flags, *conf);
     return success ? 0 : 1;
   }
   else