fix(GraphNetwork): working on loads of small bugs

Fized stoichiometry matrix initialization, added penames to reablib reactions, began work on LogicalReaction to sum the contributions of different fitting functions provided by reaclib

src/network/meson.build

@@ -1,15 +1,10 @@
 # Define the library
 network_sources = files(
-    'private/network.cpp',
-    'private/approx8.cpp',
-    'private/netgraph.cpp'
+    'lib/network.cpp',
+    'lib/approx8.cpp',
+    'lib/netgraph.cpp'
 )
 
-network_headers = files(
-    'public/network.h',
-    'public/approx8.h',
-    'public/netgraph.h',
-)
 
 dependencies = [
     boost_dep,
@@ -24,16 +19,21 @@ dependencies = [
 # Define the libnetwork library so it can be linked against by other parts of the build system
 libnetwork = library('network',
     network_sources, 
-    include_directories: include_directories('public'),
+    include_directories: include_directories('include'),
     dependencies: dependencies,
     install : true)
 
 network_dep = declare_dependency(
-    include_directories: include_directories('public'),
+    include_directories: include_directories('include'),
     link_with: libnetwork,
     sources: network_sources,
     dependencies: dependencies,
 )
 
 # Make headers accessible
+network_headers = files(
+    'include/gridfire/network.h',
+    'include/gridfire/approx8.h',
+    'include/gridfire/netgraph.h',
+)
 install_headers(network_headers, subdir : 'gridfire/gridfire')