namelist

exec/reactDiff/GNUmakefile

@@ -9,6 +9,7 @@ USE_CUDA  = FALSE
 COMP      = gnu
 DIM       = 2
 MAX_SPEC  = 8
+MAX_REAC  = 5
 
 TINY_PROFILE = FALSE
 
@@ -19,9 +20,13 @@ include $(AMREX_HOME)/Tools/GNUMake/Make.defs
 #VPATH_LOCATIONS   += .
 #INCLUDE_LOCATIONS += .
 
-#include ../../src_reactDiff/Make.package
-#VPATH_LOCATIONS   += ../../src_reactDiff/
-#INCLUDE_LOCATIONS += ../../src_reactDiff/
+include ../../src_reactDiff/Make.package
+VPATH_LOCATIONS   += ../../src_reactDiff/
+INCLUDE_LOCATIONS += ../../src_reactDiff/
+
+include ../../src_chemistry/Make.package
+VPATH_LOCATIONS   += ../../src_chemistry/
+INCLUDE_LOCATIONS += ../../src_chemistry/
 
 include ../../src_analysis/Make.package
 VPATH_LOCATIONS   += ../../src_analysis/
@@ -54,3 +59,6 @@ endif
 MAXSPECIES := $(strip $(MAX_SPEC))
 DEFINES += -DMAX_SPECIES=$(MAXSPECIES)
 
+MAXREACTION := $(strip $(MAX_REAC))
+DEFINES += -DMAX_REACTION=$(MAXREACTION)
+

src_reactDiff/Make.package

@@ -0,0 +1,3 @@
+CEXE_sources   += reactDiff_functions.cpp
+CEXE_headers   += reactDiff_functions.H
+CEXE_headers   += reactDiff_namespace.H

src_reactDiff/reactDiff_functions.H

@@ -0,0 +1,16 @@
+#ifndef _reactdiff_functions_H_
+#define _reactdiff_functions_H_
+
+#include <AMReX.H>
+
+#include "common_functions.H"
+#include "common_namespace.H"
+#include "reactDiff_namespace.H"
+
+using namespace reactDiff;
+using namespace amrex;
+using namespace common;
+
+void InitializeReactDiffNamespace();
+
+#endif

src_reactDiff/reactDiff_functions.cpp

@@ -0,0 +1,22 @@
+#include "reactDiff_functions.H"
+#include "AMReX_ParmParse.H"
+
+// only used for split schemes (temporal_integrator>=0)
+// 0=explicit trapezoidal predictor/corrector
+// 1=Crank-Nicolson semi-implicit
+// 2=explicit midpoint
+// 3=multinomial diffusion
+// 4=forward Euler  
+
+AMREX_GPU_MANAGED int reactDiff::diffusion_type;
+
+void InitializeReactDiffNamespace()
+{
+    // extract inputs parameters
+    ParmParse pp;
+
+    diffusion_type = 0;
+    pp.query("diffusion_type",diffusion_type);
+
+    return;
+}

src_reactDiff/reactDiff_namespace.H

@@ -0,0 +1,4 @@
+namespace reactDiff {
+
+    extern AMREX_GPU_MANAGED int diffusion_type;
+}