ENH: Remove lua bindings

environment.yml

@@ -21,6 +21,4 @@ dependencies:
   # - lua-luafilesystem
   - luarocks
   # Pinned
-  - fmt==9.1.0
-  - eigen==3.4.0
   - lua==5.3.*

meson.build

@@ -45,30 +45,37 @@ _deps += m_dep
 _deps += [declare_dependency(link_args: '-lstdc++')]
 
 # All of which can be installed with meson wrap install <blah> originally
-eigen_dep = dependency('eigen3',
-                       version: '3.4.0',
-                       required: true)
+eigen_dep = subproject('eigen', default_options: ['default_library=static']).get_variable('eigen_dep')
 _deps += [ eigen_dep ]
 
-fmt_dep = dependency('fmt',
-                     version: '9.1.0',
-                     required: true)
-_deps += [ fmt_dep ]
+fmt_subproj = subproject('fmt', default_options: ['default_library=static'])
+_deps += fmt_subproj.get_variable('fmt_dep')
+
+cmake = import('cmake')
+optv_cppyaml = cmake.subproject_options()
+optv_cppyaml.add_cmake_defines(
+    {
+        'CMAKE_BUILD_TYPE': 'Release',
+        'YAML_BUILD_SHARED_LIBS': 'OFF',
+        'CMAKE_POSITION_INDEPENDENT_CODE': true,
+        'CMAKE_CXX_FLAGS': '-w',
+        'CMAKE_C_FLAGS': '-w',
+    },
+)
+cmcppyaml = cmake.subproject('yaml-cpp', options: optv_cppyaml)
+_deps += cmcppyaml.dependency('yaml-cpp')
+
 
 boost_dep = dependency('boost',
   modules : [
     'filesystem',
     'system',
   ],
   required : false,
+  static : true,
 )
 _deps += [ boost_dep ]
 
-libyamlcpp_dep = dependency('yaml-cpp',
-                        fallback: ['yaml-cpp',
-                                   'libyamlcpp_dep'])
-_deps += [ libyamlcpp_dep ]
-
 # Include Sources
 
 _incdirs += include_directories([ 'src/include/internal',
@@ -78,7 +85,6 @@ _incdirs += include_directories([ 'src/include/internal',
 
 ydsl_sources = [
   'src/absOrientation.cpp',
-  'src/backward.cpp',
   'src/bond.cpp',
   'src/bop.cpp',
   'src/bulkTUM.cpp',
@@ -93,6 +99,7 @@ ydsl_sources = [
   'src/rdf2d.cpp',
   'src/ring.cpp',
   'src/seams_input.cpp',
+  'src/selection.cpp',
   'src/seams_output.cpp',
   'src/selection.cpp',
   'src/shapeMatch.cpp',

src/bond.cpp

@@ -178,8 +178,6 @@ bond::populateHbonds(std::string filename,
   //
   std::vector<std::vector<int>>
       hBondNet; // Output vector of vectors containing the HBN
-  molSys::PointCloud<molSys::Point<double>, double>
-      hCloud; // point Cloud for the hydrogen atoms
   std::vector<std::vector<int>>
       molIDlist; // Vector of vectors; first element is the molID, and the next
                  // two elements are the hydrogen atom indices
@@ -202,7 +200,7 @@ bond::populateHbonds(std::string filename,
 
   // --------------------
   // Get all the hydrogen atoms in the frame (no slice)
-  hCloud = sinp::readLammpsTrjreduced(filename, targetFrame, &hCloud, Htype);
+  auto hCloud = sinp::readLammpsTrjreduced(filename, targetFrame, Htype); // point Cloud for the hydrogen atoms
 
   // Get the unordered map of the oxygen atom IDs (keys) and the molecular IDs
   // (values)