Fix py ma ch3 pip install

CMakeLists.txt

@@ -224,6 +224,7 @@ add_subdirectory(mcmc)
 add_subdirectory(Diagnostics)
 add_subdirectory(plotting)
 if (MaCh3_PYTHON_ENABLED)
+  set(CMAKE_INSTALL_RPATH "$ORIGIN/../lib")
   add_subdirectory(python)
 endif()
 

README.md

@@ -63,14 +63,16 @@ Some functionalities rely on setting `Env{MACH3}` which should point to path exp
 
 ## Python
 
-MaCh3 can be compiled with a python interface by specifying the cmake option
+MaCh3 has an optional python interface (pyMaCh3) which provides much of the same functionality as the c++ interface (see [here](https://mach3-software.github.io/MaCh3/pyMaCh3/mainpage.html) for documentation).
+
+You can tell the build system to set up the pyMaCh3 interface by specifying
+
 ```bash
 cmake ../ -DMaCh3_PYTHON_ENABLED=ON
 make && make install
 ```
 
-Currently the python module only contains an interface to the plotting library (see [here](https://github.com/mach3-software/MaCh3/blob/develop/plotting/README.md#python) for more information on how to use it)
-
+when building
 
 ### Building with Pip
 
@@ -79,7 +81,7 @@ Additionally, you can build just the Python module by doing:
 ```bash
 pip install -t <install location> .
 ```
-The -t option specifies an install location which can be useful if you are on a computing cluster and don't have write access to the default install location. If you specify a non-standard location you will need to add it to your `PYTHONPATH` as above so that python can find the module.
+The (optional) -t option specifies an install location which can be useful if you are on a computing cluster and don't have write access to the default install location. If you specify a non-standard location you will need to add it to your `PYTHONPATH` as above so that python can find the module.
 
 ## Multithreading
 MaCh3 quite heavily relies on Multithreading, it is turned on by default. If for debugging purposes you would like to turn it off please use

cmake/Templates/setup.MaCh3.sh.in

@@ -85,7 +85,7 @@ add_to_PATH ${MaCh3_ROOT}/bin
 add_to_LD_LIBRARY_PATH ${MaCh3_ROOT}/lib
 
 if test -d ${MaCh3_ROOT}/pyMaCh3; then
-  add_to_PYTHONPATH ${MaCh3_ROOT}/pyMaCh3
+  add_to_PYTHONPATH ${MaCh3_ROOT}
 fi
 
 unset SETUPDIR

python/CMakeLists.txt

@@ -2,7 +2,7 @@
 ################################# pybind11 stuff ##################################
 ## EM: make a module target out of all the python*Module.cpp files (currently just one...)
 pybind11_add_module(
-  pyMaCh3 MODULE
+  _pyMaCh3 MODULE
   pyMaCh3.cpp
   plotting.cpp
   fitter.cpp
@@ -13,7 +13,7 @@ pybind11_add_module(
 )
 ## EM: only works with code compiled with -fPIC enabled.. I think this flag can make things slightly slower
 ## so would be good to find a way around this.
-set_property( TARGET pyMaCh3 PROPERTY POSITION_INDEPENDENT_CODE ON )
-target_link_libraries( pyMaCh3 PUBLIC MaCh3::All )
-target_link_libraries( pyMaCh3 PRIVATE MaCh3Warnings )
-install( TARGETS pyMaCh3 DESTINATION pyMaCh3/)
+set_property( TARGET _pyMaCh3 PROPERTY POSITION_INDEPENDENT_CODE ON )
+target_link_libraries( _pyMaCh3 PRIVATE MaCh3::All NuOscillator yaml-cpp::yaml-cpp MaCh3Warnings )
+install( DIRECTORY pyMaCh3 DESTINATION ./ )
+install( TARGETS _pyMaCh3 DESTINATION pyMaCh3/ )

python/pyMaCh3.cpp

@@ -10,7 +10,7 @@ void initManager(py::module &); // <- defined in python/manager.cpp
 void initCovariance(py::module &); // <- defined in python/covariance.cpp
 void initSplines(py::module &); // <- defined in python/splines.cpp
 
-PYBIND11_MODULE( pyMaCh3, m ) {
+PYBIND11_MODULE( _pyMaCh3, m ) {
     initPlotting(m);
     initFitter(m);
     initSamplePDF(m);

python/pyMaCh3/__init__.py

@@ -0,0 +1,3 @@
+from ._pyMaCh3 import __doc__, fitter, manager, plotting, sample_pdf, splines, covariance
+
+__all__ = ["__doc__", "fitter", "manager", "plotting", "sample_pdf", "splines", "covariance"]