Merge branch 'sk/test-rate-rule-converter-rigorously' into development

Author: skeating

.github/workflows/brief.yml

@@ -9,6 +9,8 @@ on:
         - "VERSION.txt"
         - "!.github/**"
         - ".github/workflows/brief.yml"
+
+
 env:
   BUILD_TYPE: Release
 
@@ -103,6 +105,7 @@ jobs:
         shell: bash
         run: |
           brew install check swig ccache
+          brew install --cask mono-mdk
           echo PYTHON_LINKING_OPTION="-DPYTHON_USE_DYNAMIC_LOOKUP=ON" >> "${GITHUB_ENV}"
 
       ### setup ccache, not on Windows ###

.github/workflows/extensive.yml

@@ -160,6 +160,7 @@ jobs:
         shell: bash
         run: |
           brew install check swig xerces-c expat ccache
+          brew install --cask mono-mdk
           echo PYTHON_LINKING_OPTION="-DPYTHON_USE_DYNAMIC_LOOKUP=ON" >> "${GITHUB_ENV}"
 
       - name: Unix R options

CMakeLists.txt

@@ -1,6 +1,6 @@
 ###############################################################################
 #
-# Description       : CMake build script for libSBML
+# Description       : CMake build script for libSBML 
 # Original author(s): Frank Bergmann <fbergman@caltech.edu>
 # Organization      : California Institute of Technology
 #
@@ -595,6 +595,10 @@ if(WITH_CSHARP)
         endif()
     endif()
 
+    if(NOT CSHARP_COMPILER)
+      message(FATAL_ERROR "CSHARP_COMPILER is not found, please ensure that gmcs, csc, or mcs is installed.")
+    endif()
+
 endif(WITH_CSHARP)
 
 

examples/c++/inferReactions.cpp

@@ -47,10 +47,28 @@
 using namespace std;
 LIBSBML_CPP_NAMESPACE_USE
 
+
+#ifdef DEBUG_INFER_REACTIONS
+#include <intrin.h>
+#include <windows.h>
+#endif // DEBUG_INFER_REACTIONS
+
 int
 main (int argc, char *argv[])
 {
- 
+
+#ifdef DEBUG_INFER_REACTIONS
+  // Wait for debugger to attach
+  while (!IsDebuggerPresent())
+  {
+    Sleep(100); // Sleep for 100 milliseconds
+  }
+
+  // at this point for debugging purposes throw the VS abort dialog so we can
+  // easily attach to the process
+  __debugbreak();
+#endif // DEBUG_INFER_REACTIONS
+
   if (argc != 3)
   {
     cout 
@@ -64,6 +82,7 @@ main (int argc, char *argv[])
     return 1;
   }
 
+  
   const char* inputFile   = argv[1];
   const char* outputFile  = argv[2];
 

src/bindings/csharp/CMakeLists.txt

@@ -40,6 +40,9 @@ set(LIBSBML_CSHARP_BINDING_NATIVE_LIBRARY_NAME "libsbmlcs" CACHE STRING
                        "The name of the native library file to generate. This can be changed to avoid conflicts with other applications using another version of the library.")
 mark_as_advanced(LIBSBML_CSHARP_BINDING_NATIVE_LIBRARY_NAME)
 
+if(NOT CSHARP_COMPILER)
+  message(FATAL_ERROR "CSHARP_COMPILER is not set")
+endif()
 
 ####################################################################
 #