diff --git a/.gitmodules b/.gitmodules
index a99b87c..f0d26ac 100644
--- a/.gitmodules
+++ b/.gitmodules
@@ -1,7 +1,3 @@
-[submodule "extern/pybind11"]
-	path = extern/pybind11
-	url = https://github.com/pybind/pybind11.git
-	branch = stable
 [submodule "extern/boost-cmake"]
 	path = extern/boost-cmake
 	url = https://github.com/Orphis/boost-cmake.git
@@ -26,3 +22,7 @@
 [submodule "extern/boost"]
 	path = extern/boost
 	url = https://github.com/boostorg/boost.git
+[submodule "extern/pybind11"]
+	path = extern/pybind11
+	url = ../../pybind/pybind11
+	branch = stable
diff --git a/CMakeLists.txt b/CMakeLists.txt
index c9ebe92..5b46685 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -6,10 +6,13 @@ set(CMAKE_BUILD_TYPE RelWithDebInfo)
 set(DEFAULT_NUM_MODES 2)
 set(DEFAULT_NUM_BITS  8)
 
-set(rapidjson_DIR home/ethan/libraries/builds/rapidjson/include)
-set(Eigen3_DIR /home/ethan/libraries/builds/eigen_3_install)
-FIND_PACKAGE( Boost REQUIRED )
-find_package(Eigen3 3.3 NO_MODULE REQUIRED)
+add_subdirectory(extern/boost)
+add_subdirectory(extern/eigen)
+
+#set(rapidjson_DIR home/ethan/libraries/builds/rapidjson/include)
+#set(Eigen3_DIR /home/ethan/libraries/builds/eigen_3_install)
+#FIND_PACKAGE( Boost REQUIRED )
+#find_package(Eigen3 3.3 NO_MODULE REQUIRED)
 
 
 
@@ -21,6 +24,7 @@ if(NOT DEFINED NUM_BITS)
        message(STATUS "Using Default Number of bits per mode")
        set(NUM_BITS  ${DEFAULT_NUM_BITS})
 endif()
+
 #-------DEFINE MODULE NAME------------
 set(pyket pyket${NUM_MODES}_${NUM_BITS})
 
@@ -42,8 +46,9 @@ pybind11_add_module(${pyket} SHARED ${CMAKE_CURRENT_SOURCE_DIR}/src/main.cpp)
 
 configure_file(${CMAKE_CURRENT_SOURCE_DIR}/src/pyket_config.hpp.in ${CMAKE_CURRENT_SOURCE_DIR}/src/pyket_config.hpp @ONLY)
 include_directories(BEFORE ${CMAKE_CURRENT_SOURCE_DIR}/src)
-target_include_directories(HamiltonianFuncs SYSTEM PUBLIC ${rapidjson_DIR}/include)
-target_link_libraries (HamiltonianFuncs Eigen3::Eigen)
+target_include_directories(HamiltonianFuncs SYSTEM PUBLIC extern/rapidjson/include)
+target_link_libraries(HamiltonianFuncs Eigen3::Eigen)
+target_link_libraries(HamiltonianFuncs Boost::format)
 target_compile_options(HamiltonianFuncs PRIVATE -fPIC)
 target_link_libraries(${pyket} PRIVATE HamiltonianFuncs)
 find_package(OpenMP)
diff --git a/README.md b/README.md
new file mode 100644
index 0000000..dd131d8
--- /dev/null
+++ b/README.md
@@ -0,0 +1,15 @@
+# README
+
+To build, run the following commands.
+
+```bash
+git clone https://github.com/Andersen98/adaptive_spin_evolution
+cd adaptive_spin_evolution
+git checkout demo
+git submodule update --init --recursive
+mkdir build
+cd build
+cmake ..
+make
+```
+
diff --git a/extern/pybind11 b/extern/pybind11
index f1abf5d..01ab935 160000
--- a/extern/pybind11
+++ b/extern/pybind11
@@ -1 +1 @@
-Subproject commit f1abf5d9159b805674197f6bc443592e631c9130
+Subproject commit 01ab935612a6800c4ad42957808d6cbd30047902
diff --git a/src/hamiltonian/hamiltonian.hpp b/src/hamiltonian/hamiltonian.hpp
index 3c30202..99befdb 100644
--- a/src/hamiltonian/hamiltonian.hpp
+++ b/src/hamiltonian/hamiltonian.hpp
@@ -137,6 +137,7 @@ class hamiltonian{
   std::vector<std::pair<int, int>> get_spin_idxs()const;
   pair<double,double> evolve_state(double time);
   pair<double,double> evolve_step(complex<double> factor);
+  //std::vector<complex<double>> get_decay_diags(int delta_e); TODO: Fix this
   //par_runtime.cpp
   void par_test_one();
   void par_test_two();
diff --git a/src/hamiltonian/runtime.cpp b/src/hamiltonian/runtime.cpp
index 7734909..0a73d6c 100644
--- a/src/hamiltonian/runtime.cpp
+++ b/src/hamiltonian/runtime.cpp
@@ -37,7 +37,8 @@ void hamiltonian::run_grow(){
 
 
 }
-void hamiltonian::get_decay_diags(int delta_e){
+/* TODO FIX THIS
+ * vector<complex<double>> hamiltonian::get_decay_diags(int delta_e){
 
   vector<complex<double>> decay_diags(psi_lbl.size());
   
@@ -78,7 +79,7 @@ void hamiltonian::get_decay_diags(int delta_e){
   
   return(decay_diags);
 }
-
+*/
 
 void hamiltonian::set_zero_except_init(){
   using namespace std;
diff --git a/src/hamiltonian/setup.cpp b/src/hamiltonian/setup.cpp
index b5eccde..ddbdded 100644
--- a/src/hamiltonian/setup.cpp
+++ b/src/hamiltonian/setup.cpp
@@ -1,6 +1,6 @@
 #include "hamiltonian.hpp"
 #include "../io_tools/input_tools.hpp"
-#include <boost/numeric/ublas/io.hpp>
+//#include <boost/numeric/ublas/io.hpp>
 
 hamiltonian::hamiltonian(const std::string &json_str):hamiltonian(load_json_str(json_str)){}
 
diff --git a/src/pyket_config.hpp b/src/pyket_config.hpp
index fe810ff..cd59aee 100644
--- a/src/pyket_config.hpp
+++ b/src/pyket_config.hpp
@@ -1 +1 @@
-#define PYKET pyket1_8
+#define PYKET pyket2_8