diff --git a/test_problems/cathermo/HMW_graph_GvI/Makefile.am b/test_problems/cathermo/HMW_graph_GvI/Makefile.am
new file mode 100644
index 000000000..c7583d584
--- /dev/null
+++ b/test_problems/cathermo/HMW_graph_GvI/Makefile.am
@@ -0,0 +1,23 @@
+cc_sources = HMW_graph_GvI.cpp sortAlgorithms.cpp
+
+INC                  = -I. -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera -I$(top_builddir)/build/include/cantera/kernel
+AM_CPPFLAGS          = $(INC)
+AM_CXXFLAGS          = $(AM_CPPFLAGS)
+
+LINK                 = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport -lthermo 
+LINK                += -lctnumerics -lctmath -ltpx -lctspectra -lconverters -lctbase -lcvode 
+LINK                += -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS           = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+LIBS                 =  $(LINK)
+
+bin_PROGRAMS         = HMW_graph_GvI
+library_includedir   = $(INC)
+
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+
+HMW_graph_GvI_SOURCES = $(cc_sources)
+
+TESTS_ENVIRONMENT = 
+TESTS             = runtest
diff --git a/test_problems/cathermo/HMW_graph_GvI/Makefile.in b/test_problems/cathermo/HMW_graph_GvI/Makefile.in
index cc2d1cbe2..b8747afab 100644
--- a/test_problems/cathermo/HMW_graph_GvI/Makefile.in
+++ b/test_problems/cathermo/HMW_graph_GvI/Makefile.in
@@ -1,115 +1,660 @@
-#!/bin/sh
+# Makefile.in generated by automake 1.11.1 from Makefile.am.
+# @configure_input@
 
-############################################################################
-#
-#  Makefile to compile and link a C++ application to 
-#  Cantera.
-#
-#############################################################################
+# Copyright (C) 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002,
+# 2003, 2004, 2005, 2006, 2007, 2008, 2009  Free Software Foundation,
+# Inc.
+# This Makefile.in is free software; the Free Software Foundation
+# gives unlimited permission to copy and/or distribute it,
+# with or without modifications, as long as this notice is preserved.
 
-# addition to suffixes
-.SUFFIXES : .d
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY, to the extent permitted by law; without
+# even the implied warranty of MERCHANTABILITY or FITNESS FOR A
+# PARTICULAR PURPOSE.
 
-# the name of the executable program to be created
-PROG_NAME = HMW_graph_GvI
+@SET_MAKE@
 
-# the object files to be linked together. List those generated from Fortran
-# and from C/C++ separately
-OBJS = HMW_graph_GvI.o sortAlgorithms.o
-
-# additional flags to be passed to the linker. If your program
-# requires other external libraries, put them here
-LINK_OPTIONS = @EXTRA_LINK@
-
-#############################################################################
-
-PURIFY=@PURIFY@
-
-# Check to see whether we are in the msvc++ environment
-os_is_win = @OS_IS_WIN@
-
-# Fortran libraries
-ifeq (@build_with_f2c@, 0)
-FORT_LIBS = @FLIBS@
-else
-FORT_LIBS =
-endif
-
-# the C++ compiler
+VPATH = @srcdir@
+pkgdatadir = $(datadir)/@PACKAGE@
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+transform = $(program_transform_name)
+NORMAL_INSTALL = :
+PRE_INSTALL = :
+POST_INSTALL = :
+NORMAL_UNINSTALL = :
+PRE_UNINSTALL = :
+POST_UNINSTALL = :
+build_triplet = @build@
+host_triplet = @host@
+bin_PROGRAMS = HMW_graph_GvI$(EXEEXT)
+subdir = test_problems/cathermo/HMW_graph_GvI
+DIST_COMMON = README $(srcdir)/Makefile.am $(srcdir)/Makefile.in
+ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
+am__aclocal_m4_deps = $(top_srcdir)/m4/common/ax_prog_doxygen.m4 \
+	$(top_srcdir)/m4/common/ax_split_version.m4 \
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+	$(top_srcdir)/m4/ltoptions.m4 $(top_srcdir)/m4/ltsugar.m4 \
+	$(top_srcdir)/m4/ltversion.m4 $(top_srcdir)/m4/lt~obsolete.m4 \
+	$(top_srcdir)/configure.ac
+am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
+	$(ACLOCAL_M4)
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+CONFIG_CLEAN_VPATH_FILES =
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+	$(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS)
+LTCXXCOMPILE = $(LIBTOOL) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) \
+	--mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) \
+	$(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS)
+CXXLD = $(CXX)
+CXXLINK = $(LIBTOOL) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) \
+	--mode=link $(CXXLD) $(AM_CXXFLAGS) $(CXXFLAGS) $(AM_LDFLAGS) \
+	$(LDFLAGS) -o $@
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+DIST_SOURCES = $(HMW_graph_GvI_SOURCES)
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+top_builddir = @top_builddir@
+top_srcdir = @top_srcdir@
+cc_sources = HMW_graph_GvI.cpp sortAlgorithms.cpp
+INC = -I. -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera -I$(top_builddir)/build/include/cantera/kernel
+AM_CPPFLAGS = $(INC)
+AM_CXXFLAGS = $(AM_CPPFLAGS)
+LINK = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport \
+	-lthermo -lctnumerics -lctmath -ltpx -lctspectra -lconverters \
+	-lctbase -lcvode -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+library_includedir = $(INC)
 
-# C++ compile flags
-CXX_FLAGS = -DSRCDIRTREE @CXXFLAGS@ @CXX_INCLUDES@
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+HMW_graph_GvI_SOURCES = $(cc_sources)
+TESTS_ENVIRONMENT = 
+TESTS = runtest
+all: all-am
 
-# Ending C++ linking libraries
-LCXX_END_LIBS = @LCXX_END_LIBS@
+.SUFFIXES:
+.SUFFIXES: .cpp .lo .o .obj
+$(srcdir)/Makefile.in:  $(srcdir)/Makefile.am  $(am__configure_deps)
+	@for dep in $?; do \
+	  case '$(am__configure_deps)' in \
+	    *$$dep*) \
+	      ( cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh ) \
+	        && { if test -f $@; then exit 0; else break; fi; }; \
+	      exit 1;; \
+	  esac; \
+	done; \
+	echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu test_problems/cathermo/HMW_graph_GvI/Makefile'; \
+	$(am__cd) $(top_srcdir) && \
+	  $(AUTOMAKE) --gnu test_problems/cathermo/HMW_graph_GvI/Makefile
+.PRECIOUS: Makefile
+Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status
+	@case '$?' in \
+	  *config.status*) \
+	    cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh;; \
+	  *) \
+	    echo ' cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe)'; \
+	    cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe);; \
+	esac;
 
-# the directory where the Cantera libraries are located
-CANTERA_LIBDIR=@buildlib@
+$(top_builddir)/config.status: $(top_srcdir)/configure $(CONFIG_STATUS_DEPENDENCIES)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
 
-# required Cantera libraries
-CANTERA_LIBS = @LOCAL_LIBS@ -lctcxx
+$(top_srcdir)/configure:  $(am__configure_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(ACLOCAL_M4):  $(am__aclocal_m4_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(am__aclocal_m4_deps):
+install-binPROGRAMS: $(bin_PROGRAMS)
+	@$(NORMAL_INSTALL)
+	test -z "$(bindir)" || $(MKDIR_P) "$(DESTDIR)$(bindir)"
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	for p in $$list; do echo "$$p $$p"; done | \
+	sed 's/$(EXEEXT)$$//' | \
+	while read p p1; do if test -f $$p || test -f $$p1; \
+	  then echo "$$p"; echo "$$p"; else :; fi; \
+	done | \
+	sed -e 'p;s,.*/,,;n;h' -e 's|.*|.|' \
+	    -e 'p;x;s,.*/,,;s/$(EXEEXT)$$//;$(transform);s/$$/$(EXEEXT)/' | \
+	sed 'N;N;N;s,\n, ,g' | \
+	$(AWK) 'BEGIN { files["."] = ""; dirs["."] = 1 } \
+	  { d=$$3; if (dirs[d] != 1) { print "d", d; dirs[d] = 1 } \
+	    if ($$2 == $$4) files[d] = files[d] " " $$1; \
+	    else { print "f", $$3 "/" $$4, $$1; } } \
+	  END { for (d in files) print "f", d, files[d] }' | \
+	while read type dir files; do \
+	    if test "$$dir" = .; then dir=; else dir=/$$dir; fi; \
+	    test -z "$$files" || { \
+	    echo " $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files '$(DESTDIR)$(bindir)$$dir'"; \
+	    $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files "$(DESTDIR)$(bindir)$$dir" || exit $$?; \
+	    } \
+	; done
 
-# Dependencies for CANTERA_LIBS
-CANTERA_LIBS_DEP = @LOCAL_LIBS_DEP@ $(CANTERA_LIBDIR)/libctcxx.a
+uninstall-binPROGRAMS:
+	@$(NORMAL_UNINSTALL)
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	files=`for p in $$list; do echo "$$p"; done | \
+	  sed -e 'h;s,^.*/,,;s/$(EXEEXT)$$//;$(transform)' \
+	      -e 's/$$/$(EXEEXT)/' `; \
+	test -n "$$list" || exit 0; \
+	echo " ( cd '$(DESTDIR)$(bindir)' && rm -f" $$files ")"; \
+	cd "$(DESTDIR)$(bindir)" && rm -f $$files
 
-# the directory where Cantera include files may be found.
-CANTERA_INCDIR=@ctroot@/build/include/cantera
-INCLUDES=-I$(CANTERA_INCDIR) -I$(CANTERA_INCDIR)/kernel
+clean-binPROGRAMS:
+	@list='$(bin_PROGRAMS)'; test -n "$$list" || exit 0; \
+	echo " rm -f" $$list; \
+	rm -f $$list || exit $$?; \
+	test -n "$(EXEEXT)" || exit 0; \
+	list=`for p in $$list; do echo "$$p"; done | sed 's/$(EXEEXT)$$//'`; \
+	echo " rm -f" $$list; \
+	rm -f $$list
+HMW_graph_GvI$(EXEEXT): $(HMW_graph_GvI_OBJECTS) $(HMW_graph_GvI_DEPENDENCIES) 
+	@rm -f HMW_graph_GvI$(EXEEXT)
+	$(CXXLINK) $(HMW_graph_GvI_OBJECTS) $(HMW_graph_GvI_LDADD) $(LIBS)
 
-# flags passed to the C++ compiler/linker for the linking step
-LCXX_FLAGS = -L$(CANTERA_LIBDIR) @LOCAL_LIB_DIRS@ @CXXFLAGS@
+mostlyclean-compile:
+	-rm -f *.$(OBJEXT)
 
-# How to compile C++ source files to object files
-.@CXX_EXT@.@OBJ_EXT@:
-	$(PURIFY) $(CXX) -c $< $(INCLUDES) $(CXX_FLAGS)
+distclean-compile:
+	-rm -f *.tab.c
 
-# How to compile the dependency file
-.cpp.d:
-	@CXX_DEPENDS@ $(INCLUDES) $(CXX_FLAGS) $*.cpp > $*.d
+@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/HMW_graph_GvI.Po@am__quote@
+@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/sortAlgorithms.Po@am__quote@
 
-# List of dependency files to be created
-DEPENDS=$(OBJS:.o=.d)
+.cpp.o:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=no @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(CXXCOMPILE) -c -o $@ $<
 
-# Program Name
-PROGRAM = $(PROG_NAME)$(EXE_EXT)
+.cpp.obj:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ `$(CYGPATH_W) '$<'`
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=no @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(CXXCOMPILE) -c -o $@ `$(CYGPATH_W) '$<'`
 
-all: $(PROGRAM) .depends
+.cpp.lo:
+@am__fastdepCXX_TRUE@	$(LTCXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Plo
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=yes @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(LTCXXCOMPILE) -c -o $@ $<
 
-$(PROGRAM): $(OBJS) $(CANTERA_LIBS_DEP)
-	$(PURIFY) $(CXX) -o $(PROGRAM) $(OBJS) $(LCXX_FLAGS) $(LINK_OPTIONS) \
-                  $(CANTERA_LIBS) @LIBS@ $(FORT_LIBS) \
-                  $(LCXX_END_LIBS)
+mostlyclean-libtool:
+	-rm -f *.lo
+
+clean-libtool:
+	-rm -rf .libs _libs
+
+ID: $(HEADERS) $(SOURCES) $(LISP) $(TAGS_FILES)
+	list='$(SOURCES) $(HEADERS) $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	mkid -fID $$unique
+tags: TAGS
+
+TAGS:  $(HEADERS) $(SOURCES)  $(TAGS_DEPENDENCIES) \
+		$(TAGS_FILES) $(LISP)
+	set x; \
+	here=`pwd`; \
+	list='$(SOURCES) $(HEADERS)  $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	shift; \
+	if test -z "$(ETAGS_ARGS)$$*$$unique"; then :; else \
+	  test -n "$$unique" || unique=$$empty_fix; \
+	  if test $$# -gt 0; then \
+	    $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
+	      "$$@" $$unique; \
+	  else \
+	    $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
+	      $$unique; \
+	  fi; \
+	fi
+ctags: CTAGS
+CTAGS:  $(HEADERS) $(SOURCES)  $(TAGS_DEPENDENCIES) \
+		$(TAGS_FILES) $(LISP)
+	list='$(SOURCES) $(HEADERS)  $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	test -z "$(CTAGS_ARGS)$$unique" \
+	  || $(CTAGS) $(CTAGSFLAGS) $(AM_CTAGSFLAGS) $(CTAGS_ARGS) \
+	     $$unique
+
+GTAGS:
+	here=`$(am__cd) $(top_builddir) && pwd` \
+	  && $(am__cd) $(top_srcdir) \
+	  && gtags -i $(GTAGS_ARGS) "$$here"
+
+distclean-tags:
+	-rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags
+
+check-TESTS: $(TESTS)
+	@failed=0; all=0; xfail=0; xpass=0; skip=0; \
+	srcdir=$(srcdir); export srcdir; \
+	list=' $(TESTS) '; \
+	$(am__tty_colors); \
+	if test -n "$$list"; then \
+	  for tst in $$list; do \
+	    if test -f ./$$tst; then dir=./; \
+	    elif test -f $$tst; then dir=; \
+	    else dir="$(srcdir)/"; fi; \
+	    if $(TESTS_ENVIRONMENT) $${dir}$$tst; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xpass=`expr $$xpass + 1`; \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=XPASS; \
+	      ;; \
+	      *) \
+		col=$$grn; res=PASS; \
+	      ;; \
+	      esac; \
+	    elif test $$? -ne 77; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xfail=`expr $$xfail + 1`; \
+		col=$$lgn; res=XFAIL; \
+	      ;; \
+	      *) \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=FAIL; \
+	      ;; \
+	      esac; \
+	    else \
+	      skip=`expr $$skip + 1`; \
+	      col=$$blu; res=SKIP; \
+	    fi; \
+	    echo "$${col}$$res$${std}: $$tst"; \
+	  done; \
+	  if test "$$all" -eq 1; then \
+	    tests="test"; \
+	    All=""; \
+	  else \
+	    tests="tests"; \
+	    All="All "; \
+	  fi; \
+	  if test "$$failed" -eq 0; then \
+	    if test "$$xfail" -eq 0; then \
+	      banner="$$All$$all $$tests passed"; \
+	    else \
+	      if test "$$xfail" -eq 1; then failures=failure; else failures=failures; fi; \
+	      banner="$$All$$all $$tests behaved as expected ($$xfail expected $$failures)"; \
+	    fi; \
+	  else \
+	    if test "$$xpass" -eq 0; then \
+	      banner="$$failed of $$all $$tests failed"; \
+	    else \
+	      if test "$$xpass" -eq 1; then passes=pass; else passes=passes; fi; \
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+	    fi; \
+	  fi; \
+	  dashes="$$banner"; \
+	  skipped=""; \
+	  if test "$$skip" -ne 0; then \
+	    if test "$$skip" -eq 1; then \
+	      skipped="($$skip test was not run)"; \
+	    else \
+	      skipped="($$skip tests were not run)"; \
+	    fi; \
+	    test `echo "$$skipped" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$skipped"; \
+	  fi; \
+	  report=""; \
+	  if test "$$failed" -ne 0 && test -n "$(PACKAGE_BUGREPORT)"; then \
+	    report="Please report to $(PACKAGE_BUGREPORT)"; \
+	    test `echo "$$report" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$report"; \
+	  fi; \
+	  dashes=`echo "$$dashes" | sed s/./=/g`; \
+	  if test "$$failed" -eq 0; then \
+	    echo "$$grn$$dashes"; \
+	  else \
+	    echo "$$red$$dashes"; \
+	  fi; \
+	  echo "$$banner"; \
+	  test -z "$$skipped" || echo "$$skipped"; \
+	  test -z "$$report" || echo "$$report"; \
+	  echo "$$dashes$$std"; \
+	  test "$$failed" -eq 0; \
+	else :; fi
+
+distdir: $(DISTFILES)
+	@srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	topsrcdirstrip=`echo "$(top_srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	list='$(DISTFILES)'; \
+	  dist_files=`for file in $$list; do echo $$file; done | \
+	  sed -e "s|^$$srcdirstrip/||;t" \
+	      -e "s|^$$topsrcdirstrip/|$(top_builddir)/|;t"`; \
+	case $$dist_files in \
+	  */*) $(MKDIR_P) `echo "$$dist_files" | \
+			   sed '/\//!d;s|^|$(distdir)/|;s,/[^/]*$$,,' | \
+			   sort -u` ;; \
+	esac; \
+	for file in $$dist_files; do \
+	  if test -f $$file || test -d $$file; then d=.; else d=$(srcdir); fi; \
+	  if test -d $$d/$$file; then \
+	    dir=`echo "/$$file" | sed -e 's,/[^/]*$$,,'`; \
+	    if test -d "$(distdir)/$$file"; then \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    if test -d $(srcdir)/$$file && test $$d != $(srcdir); then \
+	      cp -fpR $(srcdir)/$$file "$(distdir)$$dir" || exit 1; \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    cp -fpR $$d/$$file "$(distdir)$$dir" || exit 1; \
+	  else \
+	    test -f "$(distdir)/$$file" \
+	    || cp -p $$d/$$file "$(distdir)/$$file" \
+	    || exit 1; \
+	  fi; \
+	done
+check-am: all-am
+	$(MAKE) $(AM_MAKEFLAGS) check-TESTS
+check: check-am
+all-am: Makefile $(PROGRAMS)
+installdirs:
+	for dir in "$(DESTDIR)$(bindir)"; do \
+	  test -z "$$dir" || $(MKDIR_P) "$$dir"; \
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+install-am: all-am
+	@$(MAKE) $(AM_MAKEFLAGS) install-exec-am install-data-am
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+installcheck: installcheck-am
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+	$(MAKE) $(AM_MAKEFLAGS) INSTALL_PROGRAM="$(INSTALL_STRIP_PROGRAM)" \
+	  install_sh_PROGRAM="$(INSTALL_STRIP_PROGRAM)" INSTALL_STRIP_FLAG=-s \
+	  `test -z '$(STRIP)' || \
+	    echo "INSTALL_PROGRAM_ENV=STRIPPROG='$(STRIP)'"` install
+mostlyclean-generic:
+
+clean-generic:
+
+distclean-generic:
+	-test -z "$(CONFIG_CLEAN_FILES)" || rm -f $(CONFIG_CLEAN_FILES)
+	-test . = "$(srcdir)" || test -z "$(CONFIG_CLEAN_VPATH_FILES)" || rm -f $(CONFIG_CLEAN_VPATH_FILES)
+
+maintainer-clean-generic:
+	@echo "This command is intended for maintainers to use"
+	@echo "it deletes files that may require special tools to rebuild."
+clean: clean-am
+
+clean-am: clean-binPROGRAMS clean-generic clean-libtool mostlyclean-am
+
+distclean: distclean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+distclean-am: clean-am distclean-compile distclean-generic \
+	distclean-tags
+
+dvi: dvi-am
+
+dvi-am:
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+html: html-am
+
+html-am:
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+info: info-am
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+info-am:
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+
+install-ps-am:
+
+installcheck-am:
+
+maintainer-clean: maintainer-clean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+maintainer-clean-am: distclean-am maintainer-clean-generic
+
+mostlyclean: mostlyclean-am
+
+mostlyclean-am: mostlyclean-compile mostlyclean-generic \
+	mostlyclean-libtool
+
+pdf: pdf-am
+
+pdf-am:
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+ps: ps-am
+
+ps-am:
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+uninstall-am: uninstall-binPROGRAMS
+
+.MAKE: check-am install-am install-strip
+
+.PHONY: CTAGS GTAGS all all-am check check-TESTS check-am clean \
+	clean-binPROGRAMS clean-generic clean-libtool ctags distclean \
+	distclean-compile distclean-generic distclean-libtool \
+	distclean-tags distdir dvi dvi-am html html-am info info-am \
+	install install-am install-binPROGRAMS install-data \
+	install-data-am install-dvi install-dvi-am install-exec \
+	install-exec-am install-html install-html-am install-info \
+	install-info-am install-man install-pdf install-pdf-am \
+	install-ps install-ps-am install-strip installcheck \
+	installcheck-am installdirs maintainer-clean \
+	maintainer-clean-generic mostlyclean mostlyclean-compile \
+	mostlyclean-generic mostlyclean-libtool pdf pdf-am ps ps-am \
+	tags uninstall uninstall-am uninstall-binPROGRAMS
 
 
-# Add an additional target for stability:
-$(OBJS):  $(CANTERA_LIBDIR)/libctbase.a $(CANTERA_LIBDIR)/libthermo.a
-
-# depends target -> forces recalculation of dependencies
-depends:
-	@MAKE@ .depends
-
-.depends: $(DEPENDS)
-	cat $(DEPENDS) > .depends
-
-# Do the test -> For the windows vc++ environment, we have to skip checking on
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-#                in that environment to build programs.
-test:
-ifeq ($(os_is_win), 1)
-else
-	@MAKE@ $(PROGRAM)
-endif
-	./runtest
-
-clean:
-	$(RM) $(OBJS) $(PROGRAM) $(DEPENDS) .depends
-	../../../bin/rm_cvsignore
-	(if test -d SunWS_cache ; then \
-           $(RM) -rf SunWS_cache ; \
-         fi )
-
-ifeq ($(wildcard .depends), .depends)
-include .depends
-endif
-
+# Tell versions [3.59,3.63) of GNU make to not export all variables.
+# Otherwise a system limit (for SysV at least) may be exceeded.
+.NOEXPORT:
diff --git a/test_problems/cathermo/HMW_graph_GvT/Makefile.am b/test_problems/cathermo/HMW_graph_GvT/Makefile.am
new file mode 100644
index 000000000..d01b220bd
--- /dev/null
+++ b/test_problems/cathermo/HMW_graph_GvT/Makefile.am
@@ -0,0 +1,23 @@
+cc_sources = HMW_graph_GvT.cpp sortAlgorithms.cpp
+
+INC                  = -I. -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera -I$(top_builddir)/build/include/cantera/kernel
+AM_CPPFLAGS          = $(INC)
+AM_CXXFLAGS          = $(AM_CPPFLAGS)
+
+LINK                 = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport -lthermo 
+LINK                += -lctnumerics -lctmath -ltpx -lctspectra -lconverters -lctbase -lcvode 
+LINK                += -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS           = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+LIBS                 =  $(LINK)
+
+bin_PROGRAMS         = HMW_graph_GvT
+library_includedir   = $(INC)
+
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+
+HMW_graph_GvT_SOURCES = $(cc_sources)
+
+TESTS_ENVIRONMENT = 
+TESTS             = runtest
diff --git a/test_problems/cathermo/HMW_graph_GvT/Makefile.in b/test_problems/cathermo/HMW_graph_GvT/Makefile.in
index c65d4916f..cf079c0b4 100644
--- a/test_problems/cathermo/HMW_graph_GvT/Makefile.in
+++ b/test_problems/cathermo/HMW_graph_GvT/Makefile.in
@@ -1,118 +1,660 @@
-#!/bin/sh
+# Makefile.in generated by automake 1.11.1 from Makefile.am.
+# @configure_input@
 
-############################################################################
-#
-#  Makefile to compile and link a C++ application to 
-#  Cantera.
-#
-#############################################################################
+# Copyright (C) 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002,
+# 2003, 2004, 2005, 2006, 2007, 2008, 2009  Free Software Foundation,
+# Inc.
+# This Makefile.in is free software; the Free Software Foundation
+# gives unlimited permission to copy and/or distribute it,
+# with or without modifications, as long as this notice is preserved.
 
-# addition to suffixes
-.SUFFIXES : .d
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY, to the extent permitted by law; without
+# even the implied warranty of MERCHANTABILITY or FITNESS FOR A
+# PARTICULAR PURPOSE.
 
-# the name of the executable program to be created
-PROG_NAME = HMW_graph_GvT
+@SET_MAKE@
 
-# the object files to be linked together. List those generated from Fortran
-# and from C/C++ separately
-OBJS = HMW_graph_GvT.o sortAlgorithms.o
-
-# additional flags to be passed to the linker. If your program
-# requires other external libraries, put them here
-LINK_OPTIONS = @EXTRA_LINK@
-
-#############################################################################
-
-# Check to see whether we are in the msvc++ environment
-os_is_win = @OS_IS_WIN@
-
-# Fortran libraries
-ifeq (@build_with_f2c@, 0)
-FORT_LIBS = @FLIBS@
-else
-FORT_LIBS =
-endif
-
-# the C++ compiler
+VPATH = @srcdir@
+pkgdatadir = $(datadir)/@PACKAGE@
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+install_sh_DATA = $(install_sh) -c -m 644
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+transform = $(program_transform_name)
+NORMAL_INSTALL = :
+PRE_INSTALL = :
+POST_INSTALL = :
+NORMAL_UNINSTALL = :
+PRE_UNINSTALL = :
+POST_UNINSTALL = :
+build_triplet = @build@
+host_triplet = @host@
+bin_PROGRAMS = HMW_graph_GvT$(EXEEXT)
+subdir = test_problems/cathermo/HMW_graph_GvT
+DIST_COMMON = README $(srcdir)/Makefile.am $(srcdir)/Makefile.in
+ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
+am__aclocal_m4_deps = $(top_srcdir)/m4/common/ax_prog_doxygen.m4 \
+	$(top_srcdir)/m4/common/ax_split_version.m4 \
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+	$(top_srcdir)/m4/ltoptions.m4 $(top_srcdir)/m4/ltsugar.m4 \
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+	$(top_srcdir)/configure.ac
+am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
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+	$(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS)
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+	--mode=link $(CXXLD) $(AM_CXXFLAGS) $(CXXFLAGS) $(AM_LDFLAGS) \
+	$(LDFLAGS) -o $@
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+AM_CPPFLAGS = $(INC)
+AM_CXXFLAGS = $(AM_CPPFLAGS)
+LINK = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport \
+	-lthermo -lctnumerics -lctmath -ltpx -lctspectra -lconverters \
+	-lctbase -lcvode -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+library_includedir = $(INC)
 
-# C++ compile flags
-CXX_FLAGS = @CXXFLAGS@ @CXX_INCLUDES@
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+HMW_graph_GvT_SOURCES = $(cc_sources)
+TESTS_ENVIRONMENT = 
+TESTS = runtest
+all: all-am
 
-# Ending C++ linking libraries
-LCXX_END_LIBS = @LCXX_END_LIBS@
+.SUFFIXES:
+.SUFFIXES: .cpp .lo .o .obj
+$(srcdir)/Makefile.in:  $(srcdir)/Makefile.am  $(am__configure_deps)
+	@for dep in $?; do \
+	  case '$(am__configure_deps)' in \
+	    *$$dep*) \
+	      ( cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh ) \
+	        && { if test -f $@; then exit 0; else break; fi; }; \
+	      exit 1;; \
+	  esac; \
+	done; \
+	echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu test_problems/cathermo/HMW_graph_GvT/Makefile'; \
+	$(am__cd) $(top_srcdir) && \
+	  $(AUTOMAKE) --gnu test_problems/cathermo/HMW_graph_GvT/Makefile
+.PRECIOUS: Makefile
+Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status
+	@case '$?' in \
+	  *config.status*) \
+	    cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh;; \
+	  *) \
+	    echo ' cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe)'; \
+	    cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe);; \
+	esac;
 
-# the directory where the Cantera libraries are located
-CANTERA_LIBDIR=@buildlib@
+$(top_builddir)/config.status: $(top_srcdir)/configure $(CONFIG_STATUS_DEPENDENCIES)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
 
-# required Cantera libraries
-CANTERA_LIBS = @LOCAL_LIBS@ -lctcxx
+$(top_srcdir)/configure:  $(am__configure_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(ACLOCAL_M4):  $(am__aclocal_m4_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(am__aclocal_m4_deps):
+install-binPROGRAMS: $(bin_PROGRAMS)
+	@$(NORMAL_INSTALL)
+	test -z "$(bindir)" || $(MKDIR_P) "$(DESTDIR)$(bindir)"
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	for p in $$list; do echo "$$p $$p"; done | \
+	sed 's/$(EXEEXT)$$//' | \
+	while read p p1; do if test -f $$p || test -f $$p1; \
+	  then echo "$$p"; echo "$$p"; else :; fi; \
+	done | \
+	sed -e 'p;s,.*/,,;n;h' -e 's|.*|.|' \
+	    -e 'p;x;s,.*/,,;s/$(EXEEXT)$$//;$(transform);s/$$/$(EXEEXT)/' | \
+	sed 'N;N;N;s,\n, ,g' | \
+	$(AWK) 'BEGIN { files["."] = ""; dirs["."] = 1 } \
+	  { d=$$3; if (dirs[d] != 1) { print "d", d; dirs[d] = 1 } \
+	    if ($$2 == $$4) files[d] = files[d] " " $$1; \
+	    else { print "f", $$3 "/" $$4, $$1; } } \
+	  END { for (d in files) print "f", d, files[d] }' | \
+	while read type dir files; do \
+	    if test "$$dir" = .; then dir=; else dir=/$$dir; fi; \
+	    test -z "$$files" || { \
+	    echo " $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files '$(DESTDIR)$(bindir)$$dir'"; \
+	    $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files "$(DESTDIR)$(bindir)$$dir" || exit $$?; \
+	    } \
+	; done
 
-# Dependencies for CANTERA_LIBS
-CANTERA_LIBS_DEP = @LOCAL_LIBS_DEP@ $(CANTERA_LIBDIR)/libctcxx.a
+uninstall-binPROGRAMS:
+	@$(NORMAL_UNINSTALL)
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	files=`for p in $$list; do echo "$$p"; done | \
+	  sed -e 'h;s,^.*/,,;s/$(EXEEXT)$$//;$(transform)' \
+	      -e 's/$$/$(EXEEXT)/' `; \
+	test -n "$$list" || exit 0; \
+	echo " ( cd '$(DESTDIR)$(bindir)' && rm -f" $$files ")"; \
+	cd "$(DESTDIR)$(bindir)" && rm -f $$files
 
-# the directory where Cantera include files may be found.
-CANTERA_INCDIR=@ctroot@/build/include/cantera
-INCLUDES=-I$(CANTERA_INCDIR) -I$(CANTERA_INCDIR)/kernel
+clean-binPROGRAMS:
+	@list='$(bin_PROGRAMS)'; test -n "$$list" || exit 0; \
+	echo " rm -f" $$list; \
+	rm -f $$list || exit $$?; \
+	test -n "$(EXEEXT)" || exit 0; \
+	list=`for p in $$list; do echo "$$p"; done | sed 's/$(EXEEXT)$$//'`; \
+	echo " rm -f" $$list; \
+	rm -f $$list
+HMW_graph_GvT$(EXEEXT): $(HMW_graph_GvT_OBJECTS) $(HMW_graph_GvT_DEPENDENCIES) 
+	@rm -f HMW_graph_GvT$(EXEEXT)
+	$(CXXLINK) $(HMW_graph_GvT_OBJECTS) $(HMW_graph_GvT_LDADD) $(LIBS)
 
-# flags passed to the C++ compiler/linker for the linking step
-LCXX_FLAGS = -L$(CANTERA_LIBDIR) @LOCAL_LIB_DIRS@ @CXXFLAGS@
+mostlyclean-compile:
+	-rm -f *.$(OBJEXT)
 
-# How to compile C++ source files to object files
-.@CXX_EXT@.@OBJ_EXT@:
-	$(CXX) -c $< $(INCLUDES) $(CXX_FLAGS)
+distclean-compile:
+	-rm -f *.tab.c
 
-# How to compile the dependency file
-.cpp.d:
-	@CXX_DEPENDS@ $(INCLUDES) $(CXX_FLAGS) $*.cpp > $*.d
+@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/HMW_graph_GvT.Po@am__quote@
+@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/sortAlgorithms.Po@am__quote@
 
-# List of dependency files to be created
-DEPENDS=$(OBJS:.o=.d)
+.cpp.o:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=no @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(CXXCOMPILE) -c -o $@ $<
 
-# Program Name
-PROGRAM = $(PROG_NAME)$(EXE_EXT)
+.cpp.obj:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ `$(CYGPATH_W) '$<'`
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=no @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(CXXCOMPILE) -c -o $@ `$(CYGPATH_W) '$<'`
 
-all: $(PROGRAM) .depends Gex_standalone
+.cpp.lo:
+@am__fastdepCXX_TRUE@	$(LTCXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Plo
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=yes @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(LTCXXCOMPILE) -c -o $@ $<
 
-$(PROGRAM): $(OBJS) $(CANTERA_LIBS_DEP)
-	$(CXX) -o $(PROGRAM) $(OBJS) $(LCXX_FLAGS) $(LINK_OPTIONS) \
-                  $(CANTERA_LIBS) @LIBS@ $(FORT_LIBS) \
-                  $(LCXX_END_LIBS)
+mostlyclean-libtool:
+	-rm -f *.lo
 
-# Add an additional target for stability:
-$(OBJS):  $(CANTERA_LIBDIR)/libctbase.a $(CANTERA_LIBDIR)/libthermo.a
+clean-libtool:
+	-rm -rf .libs _libs
+
+ID: $(HEADERS) $(SOURCES) $(LISP) $(TAGS_FILES)
+	list='$(SOURCES) $(HEADERS) $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	mkid -fID $$unique
+tags: TAGS
+
+TAGS:  $(HEADERS) $(SOURCES)  $(TAGS_DEPENDENCIES) \
+		$(TAGS_FILES) $(LISP)
+	set x; \
+	here=`pwd`; \
+	list='$(SOURCES) $(HEADERS)  $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	shift; \
+	if test -z "$(ETAGS_ARGS)$$*$$unique"; then :; else \
+	  test -n "$$unique" || unique=$$empty_fix; \
+	  if test $$# -gt 0; then \
+	    $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
+	      "$$@" $$unique; \
+	  else \
+	    $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
+	      $$unique; \
+	  fi; \
+	fi
+ctags: CTAGS
+CTAGS:  $(HEADERS) $(SOURCES)  $(TAGS_DEPENDENCIES) \
+		$(TAGS_FILES) $(LISP)
+	list='$(SOURCES) $(HEADERS)  $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	test -z "$(CTAGS_ARGS)$$unique" \
+	  || $(CTAGS) $(CTAGSFLAGS) $(AM_CTAGSFLAGS) $(CTAGS_ARGS) \
+	     $$unique
+
+GTAGS:
+	here=`$(am__cd) $(top_builddir) && pwd` \
+	  && $(am__cd) $(top_srcdir) \
+	  && gtags -i $(GTAGS_ARGS) "$$here"
+
+distclean-tags:
+	-rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags
+
+check-TESTS: $(TESTS)
+	@failed=0; all=0; xfail=0; xpass=0; skip=0; \
+	srcdir=$(srcdir); export srcdir; \
+	list=' $(TESTS) '; \
+	$(am__tty_colors); \
+	if test -n "$$list"; then \
+	  for tst in $$list; do \
+	    if test -f ./$$tst; then dir=./; \
+	    elif test -f $$tst; then dir=; \
+	    else dir="$(srcdir)/"; fi; \
+	    if $(TESTS_ENVIRONMENT) $${dir}$$tst; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xpass=`expr $$xpass + 1`; \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=XPASS; \
+	      ;; \
+	      *) \
+		col=$$grn; res=PASS; \
+	      ;; \
+	      esac; \
+	    elif test $$? -ne 77; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xfail=`expr $$xfail + 1`; \
+		col=$$lgn; res=XFAIL; \
+	      ;; \
+	      *) \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=FAIL; \
+	      ;; \
+	      esac; \
+	    else \
+	      skip=`expr $$skip + 1`; \
+	      col=$$blu; res=SKIP; \
+	    fi; \
+	    echo "$${col}$$res$${std}: $$tst"; \
+	  done; \
+	  if test "$$all" -eq 1; then \
+	    tests="test"; \
+	    All=""; \
+	  else \
+	    tests="tests"; \
+	    All="All "; \
+	  fi; \
+	  if test "$$failed" -eq 0; then \
+	    if test "$$xfail" -eq 0; then \
+	      banner="$$All$$all $$tests passed"; \
+	    else \
+	      if test "$$xfail" -eq 1; then failures=failure; else failures=failures; fi; \
+	      banner="$$All$$all $$tests behaved as expected ($$xfail expected $$failures)"; \
+	    fi; \
+	  else \
+	    if test "$$xpass" -eq 0; then \
+	      banner="$$failed of $$all $$tests failed"; \
+	    else \
+	      if test "$$xpass" -eq 1; then passes=pass; else passes=passes; fi; \
+	      banner="$$failed of $$all $$tests did not behave as expected ($$xpass unexpected $$passes)"; \
+	    fi; \
+	  fi; \
+	  dashes="$$banner"; \
+	  skipped=""; \
+	  if test "$$skip" -ne 0; then \
+	    if test "$$skip" -eq 1; then \
+	      skipped="($$skip test was not run)"; \
+	    else \
+	      skipped="($$skip tests were not run)"; \
+	    fi; \
+	    test `echo "$$skipped" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$skipped"; \
+	  fi; \
+	  report=""; \
+	  if test "$$failed" -ne 0 && test -n "$(PACKAGE_BUGREPORT)"; then \
+	    report="Please report to $(PACKAGE_BUGREPORT)"; \
+	    test `echo "$$report" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$report"; \
+	  fi; \
+	  dashes=`echo "$$dashes" | sed s/./=/g`; \
+	  if test "$$failed" -eq 0; then \
+	    echo "$$grn$$dashes"; \
+	  else \
+	    echo "$$red$$dashes"; \
+	  fi; \
+	  echo "$$banner"; \
+	  test -z "$$skipped" || echo "$$skipped"; \
+	  test -z "$$report" || echo "$$report"; \
+	  echo "$$dashes$$std"; \
+	  test "$$failed" -eq 0; \
+	else :; fi
+
+distdir: $(DISTFILES)
+	@srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	topsrcdirstrip=`echo "$(top_srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	list='$(DISTFILES)'; \
+	  dist_files=`for file in $$list; do echo $$file; done | \
+	  sed -e "s|^$$srcdirstrip/||;t" \
+	      -e "s|^$$topsrcdirstrip/|$(top_builddir)/|;t"`; \
+	case $$dist_files in \
+	  */*) $(MKDIR_P) `echo "$$dist_files" | \
+			   sed '/\//!d;s|^|$(distdir)/|;s,/[^/]*$$,,' | \
+			   sort -u` ;; \
+	esac; \
+	for file in $$dist_files; do \
+	  if test -f $$file || test -d $$file; then d=.; else d=$(srcdir); fi; \
+	  if test -d $$d/$$file; then \
+	    dir=`echo "/$$file" | sed -e 's,/[^/]*$$,,'`; \
+	    if test -d "$(distdir)/$$file"; then \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    if test -d $(srcdir)/$$file && test $$d != $(srcdir); then \
+	      cp -fpR $(srcdir)/$$file "$(distdir)$$dir" || exit 1; \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    cp -fpR $$d/$$file "$(distdir)$$dir" || exit 1; \
+	  else \
+	    test -f "$(distdir)/$$file" \
+	    || cp -p $$d/$$file "$(distdir)/$$file" \
+	    || exit 1; \
+	  fi; \
+	done
+check-am: all-am
+	$(MAKE) $(AM_MAKEFLAGS) check-TESTS
+check: check-am
+all-am: Makefile $(PROGRAMS)
+installdirs:
+	for dir in "$(DESTDIR)$(bindir)"; do \
+	  test -z "$$dir" || $(MKDIR_P) "$$dir"; \
+	done
+install: install-am
+install-exec: install-exec-am
+install-data: install-data-am
+uninstall: uninstall-am
+
+install-am: all-am
+	@$(MAKE) $(AM_MAKEFLAGS) install-exec-am install-data-am
+
+installcheck: installcheck-am
+install-strip:
+	$(MAKE) $(AM_MAKEFLAGS) INSTALL_PROGRAM="$(INSTALL_STRIP_PROGRAM)" \
+	  install_sh_PROGRAM="$(INSTALL_STRIP_PROGRAM)" INSTALL_STRIP_FLAG=-s \
+	  `test -z '$(STRIP)' || \
+	    echo "INSTALL_PROGRAM_ENV=STRIPPROG='$(STRIP)'"` install
+mostlyclean-generic:
+
+clean-generic:
+
+distclean-generic:
+	-test -z "$(CONFIG_CLEAN_FILES)" || rm -f $(CONFIG_CLEAN_FILES)
+	-test . = "$(srcdir)" || test -z "$(CONFIG_CLEAN_VPATH_FILES)" || rm -f $(CONFIG_CLEAN_VPATH_FILES)
+
+maintainer-clean-generic:
+	@echo "This command is intended for maintainers to use"
+	@echo "it deletes files that may require special tools to rebuild."
+clean: clean-am
+
+clean-am: clean-binPROGRAMS clean-generic clean-libtool mostlyclean-am
+
+distclean: distclean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+distclean-am: clean-am distclean-compile distclean-generic \
+	distclean-tags
+
+dvi: dvi-am
+
+dvi-am:
+
+html: html-am
+
+html-am:
+
+info: info-am
+
+info-am:
+
+install-data-am:
+
+install-dvi: install-dvi-am
+
+install-dvi-am:
+
+install-exec-am: install-binPROGRAMS
+
+install-html: install-html-am
+
+install-html-am:
+
+install-info: install-info-am
+
+install-info-am:
+
+install-man:
+
+install-pdf: install-pdf-am
+
+install-pdf-am:
+
+install-ps: install-ps-am
+
+install-ps-am:
+
+installcheck-am:
+
+maintainer-clean: maintainer-clean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+maintainer-clean-am: distclean-am maintainer-clean-generic
+
+mostlyclean: mostlyclean-am
+
+mostlyclean-am: mostlyclean-compile mostlyclean-generic \
+	mostlyclean-libtool
+
+pdf: pdf-am
+
+pdf-am:
+
+ps: ps-am
+
+ps-am:
+
+uninstall-am: uninstall-binPROGRAMS
+
+.MAKE: check-am install-am install-strip
+
+.PHONY: CTAGS GTAGS all all-am check check-TESTS check-am clean \
+	clean-binPROGRAMS clean-generic clean-libtool ctags distclean \
+	distclean-compile distclean-generic distclean-libtool \
+	distclean-tags distdir dvi dvi-am html html-am info info-am \
+	install install-am install-binPROGRAMS install-data \
+	install-data-am install-dvi install-dvi-am install-exec \
+	install-exec-am install-html install-html-am install-info \
+	install-info-am install-man install-pdf install-pdf-am \
+	install-ps install-ps-am install-strip installcheck \
+	installcheck-am installdirs maintainer-clean \
+	maintainer-clean-generic mostlyclean mostlyclean-compile \
+	mostlyclean-generic mostlyclean-libtool pdf pdf-am ps ps-am \
+	tags uninstall uninstall-am uninstall-binPROGRAMS
 
 
-Gex_standalone: Gex_standalone.o
-	 $(CXX) -o Gex_standalone Gex_standalone.o \
-               $(LCXX_FLAGS) $(LINK_OPTIONS)  $(LCXX_END_LIBS)
-
-# depends target -> forces recalculation of dependencies
-depends:
-	@MAKE@ .depends
-
-.depends: $(DEPENDS)
-	cat $(DEPENDS) > .depends
-
-# Do the test -> For the windows vc++ environment, we have to skip checking on
-#                whether the program is uptodate, because we don't utilize make
-#                in that environment to build programs.
-test:
-ifeq ($(os_is_win), 1)
-else
-	@ @MAKE@ -s $(PROGRAM)
-endif
-	@ ./runtest
-
-clean:
-	$(RM) $(OBJS) $(PROGRAM) $(DEPENDS) .depends *.o
-	../../../bin/rm_cvsignore
-	(if test -d SunWS_cache ; then \
-           $(RM) -rf SunWS_cache ; \
-         fi )
-
-
-ifeq ($(wildcard .depends), .depends)
-include .depends
-endif
-
+# Tell versions [3.59,3.63) of GNU make to not export all variables.
+# Otherwise a system limit (for SysV at least) may be exceeded.
+.NOEXPORT:
diff --git a/test_problems/cathermo/HMW_graph_HvT/Makefile.am b/test_problems/cathermo/HMW_graph_HvT/Makefile.am
new file mode 100644
index 000000000..6a933469e
--- /dev/null
+++ b/test_problems/cathermo/HMW_graph_HvT/Makefile.am
@@ -0,0 +1,23 @@
+cc_sources = HMW_graph_HvT.cpp sortAlgorithms.cpp
+
+INC                  = -I. -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera -I$(top_builddir)/build/include/cantera/kernel
+AM_CPPFLAGS          = $(INC)
+AM_CXXFLAGS          = $(AM_CPPFLAGS)
+
+LINK                 = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport -lthermo 
+LINK                += -lctnumerics -lctmath -ltpx -lctspectra -lconverters -lctbase -lcvode 
+LINK                += -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS           = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+LIBS                 =  $(LINK)
+
+bin_PROGRAMS         = HMW_graph_HvT
+library_includedir   = $(INC)
+
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+
+HMW_graph_HvT_SOURCES = $(cc_sources)
+
+TESTS_ENVIRONMENT = 
+TESTS             = runtest
diff --git a/test_problems/cathermo/HMW_graph_HvT/Makefile.in b/test_problems/cathermo/HMW_graph_HvT/Makefile.in
index b0ecf6a2b..3d500d6d6 100644
--- a/test_problems/cathermo/HMW_graph_HvT/Makefile.in
+++ b/test_problems/cathermo/HMW_graph_HvT/Makefile.in
@@ -1,120 +1,660 @@
-#!/bin/sh
+# Makefile.in generated by automake 1.11.1 from Makefile.am.
+# @configure_input@
 
-############################################################################
-#
-#  Makefile to compile and link a C++ application to 
-#  Cantera.
-#
-#############################################################################
+# Copyright (C) 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002,
+# 2003, 2004, 2005, 2006, 2007, 2008, 2009  Free Software Foundation,
+# Inc.
+# This Makefile.in is free software; the Free Software Foundation
+# gives unlimited permission to copy and/or distribute it,
+# with or without modifications, as long as this notice is preserved.
 
-# addition to suffixes
-.SUFFIXES : .d
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY, to the extent permitted by law; without
+# even the implied warranty of MERCHANTABILITY or FITNESS FOR A
+# PARTICULAR PURPOSE.
 
-# the name of the executable program to be created
-PROG_NAME = HMW_graph_HvT
+@SET_MAKE@
 
-# the object files to be linked together. List those generated from Fortran
-# and from C/C++ separately
-OBJS = HMW_graph_HvT.o sortAlgorithms.o
-
-# additional flags to be passed to the linker. If your program
-# requires other external libraries, put them here
-LINK_OPTIONS = @EXTRA_LINK@
-
-#############################################################################
-
-PURIFY=@PURIFY@
-
-# Check to see whether we are in the msvc++ environment
-os_is_win = @OS_IS_WIN@
-
-# Fortran libraries
-ifeq (@build_with_f2c@, 0)
-FORT_LIBS = @FLIBS@
-else
-FORT_LIBS =
-endif
-
-# the C++ compiler
+VPATH = @srcdir@
+pkgdatadir = $(datadir)/@PACKAGE@
+pkgincludedir = $(includedir)/@PACKAGE@
+pkglibdir = $(libdir)/@PACKAGE@
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+INSTALL_HEADER = $(INSTALL_DATA)
+transform = $(program_transform_name)
+NORMAL_INSTALL = :
+PRE_INSTALL = :
+POST_INSTALL = :
+NORMAL_UNINSTALL = :
+PRE_UNINSTALL = :
+POST_UNINSTALL = :
+build_triplet = @build@
+host_triplet = @host@
+bin_PROGRAMS = HMW_graph_HvT$(EXEEXT)
+subdir = test_problems/cathermo/HMW_graph_HvT
+DIST_COMMON = README $(srcdir)/Makefile.am $(srcdir)/Makefile.in
+ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
+am__aclocal_m4_deps = $(top_srcdir)/m4/common/ax_prog_doxygen.m4 \
+	$(top_srcdir)/m4/common/ax_split_version.m4 \
+	$(top_srcdir)/m4/config_summary.m4 $(top_srcdir)/m4/libtool.m4 \
+	$(top_srcdir)/m4/ltoptions.m4 $(top_srcdir)/m4/ltsugar.m4 \
+	$(top_srcdir)/m4/ltversion.m4 $(top_srcdir)/m4/lt~obsolete.m4 \
+	$(top_srcdir)/configure.ac
+am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
+	$(ACLOCAL_M4)
+mkinstalldirs = $(install_sh) -d
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+CONFIG_CLEAN_FILES =
+CONFIG_CLEAN_VPATH_FILES =
+am__installdirs = "$(DESTDIR)$(bindir)"
+PROGRAMS = $(bin_PROGRAMS)
+am__objects_1 = HMW_graph_HvT.$(OBJEXT) sortAlgorithms.$(OBJEXT)
+am_HMW_graph_HvT_OBJECTS = $(am__objects_1)
+HMW_graph_HvT_OBJECTS = $(am_HMW_graph_HvT_OBJECTS)
+HMW_graph_HvT_LDADD = $(LDADD)
+DEFAULT_INCLUDES = -I.@am__isrc@ -I$(top_builddir)
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+am__depfiles_maybe = depfiles
+am__mv = mv -f
+CXXCOMPILE = $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) \
+	$(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS)
+LTCXXCOMPILE = $(LIBTOOL) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) \
+	--mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) \
+	$(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS)
+CXXLD = $(CXX)
+CXXLINK = $(LIBTOOL) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) \
+	--mode=link $(CXXLD) $(AM_CXXFLAGS) $(CXXFLAGS) $(AM_LDFLAGS) \
+	$(LDFLAGS) -o $@
+SOURCES = $(HMW_graph_HvT_SOURCES)
+DIST_SOURCES = $(HMW_graph_HvT_SOURCES)
+ETAGS = etags
+CTAGS = ctags
+am__tty_colors = \
+red=; grn=; lgn=; blu=; std=
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+DX_FLAG_man = @DX_FLAG_man@
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+GENERIC_RELEASE = @GENERIC_RELEASE@
+GENERIC_VERSION = @GENERIC_VERSION@
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+INSTALL_DATA = @INSTALL_DATA@
+INSTALL_PROGRAM = @INSTALL_PROGRAM@
+INSTALL_SCRIPT = @INSTALL_SCRIPT@
+INSTALL_STRIP_PROGRAM = @INSTALL_STRIP_PROGRAM@
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+LDFLAGS = @LDFLAGS@
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+LIBTOOL = @LIBTOOL@
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+VERSION = @VERSION@
+abs_builddir = @abs_builddir@
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+abs_top_builddir = @abs_top_builddir@
+abs_top_srcdir = @abs_top_srcdir@
+ac_ct_CC = @ac_ct_CC@
+ac_ct_CXX = @ac_ct_CXX@
+ac_ct_DUMPBIN = @ac_ct_DUMPBIN@
+ac_ct_F77 = @ac_ct_F77@
+ac_ct_FC = @ac_ct_FC@
+am__include = @am__include@
+am__leading_dot = @am__leading_dot@
+am__quote = @am__quote@
+am__tar = @am__tar@
+am__untar = @am__untar@
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+build = @build@
+build_alias = @build_alias@
+build_cpu = @build_cpu@
+build_os = @build_os@
+build_vendor = @build_vendor@
+builddir = @builddir@
+datadir = @datadir@
+datarootdir = @datarootdir@
+docdir = @docdir@
+dvidir = @dvidir@
+exec_prefix = @exec_prefix@
+host = @host@
+host_alias = @host_alias@
+host_cpu = @host_cpu@
+host_os = @host_os@
+host_vendor = @host_vendor@
+htmldir = @htmldir@
+includedir = @includedir@
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+libexecdir = @libexecdir@
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+mkdir_p = @mkdir_p@
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+prefix = @prefix@
+program_transform_name = @program_transform_name@
+psdir = @psdir@
+sbindir = @sbindir@
+sharedstatedir = @sharedstatedir@
+srcdir = @srcdir@
+sysconfdir = @sysconfdir@
+target_alias = @target_alias@
+top_build_prefix = @top_build_prefix@
+top_builddir = @top_builddir@
+top_srcdir = @top_srcdir@
+cc_sources = HMW_graph_HvT.cpp sortAlgorithms.cpp
+INC = -I. -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera -I$(top_builddir)/build/include/cantera/kernel
+AM_CPPFLAGS = $(INC)
+AM_CXXFLAGS = $(AM_CPPFLAGS)
+LINK = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport \
+	-lthermo -lctnumerics -lctmath -ltpx -lctspectra -lconverters \
+	-lctbase -lcvode -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+library_includedir = $(INC)
 
-# C++ compile flags
-CXX_FLAGS = @CXXFLAGS@ @CXX_INCLUDES@
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+HMW_graph_HvT_SOURCES = $(cc_sources)
+TESTS_ENVIRONMENT = 
+TESTS = runtest
+all: all-am
 
-# Ending C++ linking libraries
-LCXX_END_LIBS = @LCXX_END_LIBS@
+.SUFFIXES:
+.SUFFIXES: .cpp .lo .o .obj
+$(srcdir)/Makefile.in:  $(srcdir)/Makefile.am  $(am__configure_deps)
+	@for dep in $?; do \
+	  case '$(am__configure_deps)' in \
+	    *$$dep*) \
+	      ( cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh ) \
+	        && { if test -f $@; then exit 0; else break; fi; }; \
+	      exit 1;; \
+	  esac; \
+	done; \
+	echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu test_problems/cathermo/HMW_graph_HvT/Makefile'; \
+	$(am__cd) $(top_srcdir) && \
+	  $(AUTOMAKE) --gnu test_problems/cathermo/HMW_graph_HvT/Makefile
+.PRECIOUS: Makefile
+Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status
+	@case '$?' in \
+	  *config.status*) \
+	    cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh;; \
+	  *) \
+	    echo ' cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe)'; \
+	    cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe);; \
+	esac;
 
-# the directory where the Cantera libraries are located
-CANTERA_LIBDIR=@buildlib@
+$(top_builddir)/config.status: $(top_srcdir)/configure $(CONFIG_STATUS_DEPENDENCIES)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
 
-# required Cantera libraries
-CANTERA_LIBS = @LOCAL_LIBS@ -lctcxx
+$(top_srcdir)/configure:  $(am__configure_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(ACLOCAL_M4):  $(am__aclocal_m4_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(am__aclocal_m4_deps):
+install-binPROGRAMS: $(bin_PROGRAMS)
+	@$(NORMAL_INSTALL)
+	test -z "$(bindir)" || $(MKDIR_P) "$(DESTDIR)$(bindir)"
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	for p in $$list; do echo "$$p $$p"; done | \
+	sed 's/$(EXEEXT)$$//' | \
+	while read p p1; do if test -f $$p || test -f $$p1; \
+	  then echo "$$p"; echo "$$p"; else :; fi; \
+	done | \
+	sed -e 'p;s,.*/,,;n;h' -e 's|.*|.|' \
+	    -e 'p;x;s,.*/,,;s/$(EXEEXT)$$//;$(transform);s/$$/$(EXEEXT)/' | \
+	sed 'N;N;N;s,\n, ,g' | \
+	$(AWK) 'BEGIN { files["."] = ""; dirs["."] = 1 } \
+	  { d=$$3; if (dirs[d] != 1) { print "d", d; dirs[d] = 1 } \
+	    if ($$2 == $$4) files[d] = files[d] " " $$1; \
+	    else { print "f", $$3 "/" $$4, $$1; } } \
+	  END { for (d in files) print "f", d, files[d] }' | \
+	while read type dir files; do \
+	    if test "$$dir" = .; then dir=; else dir=/$$dir; fi; \
+	    test -z "$$files" || { \
+	    echo " $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files '$(DESTDIR)$(bindir)$$dir'"; \
+	    $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files "$(DESTDIR)$(bindir)$$dir" || exit $$?; \
+	    } \
+	; done
 
-# Dependencies for CANTERA_LIBS
-CANTERA_LIBS_DEP = @LOCAL_LIBS_DEP@ $(CANTERA_LIBDIR)/libctcxx.a
+uninstall-binPROGRAMS:
+	@$(NORMAL_UNINSTALL)
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	files=`for p in $$list; do echo "$$p"; done | \
+	  sed -e 'h;s,^.*/,,;s/$(EXEEXT)$$//;$(transform)' \
+	      -e 's/$$/$(EXEEXT)/' `; \
+	test -n "$$list" || exit 0; \
+	echo " ( cd '$(DESTDIR)$(bindir)' && rm -f" $$files ")"; \
+	cd "$(DESTDIR)$(bindir)" && rm -f $$files
 
-# the directory where Cantera include files may be found.
-CANTERA_INCDIR=@ctroot@/build/include/cantera
-INCLUDES=-I$(CANTERA_INCDIR) -I$(CANTERA_INCDIR)/kernel
+clean-binPROGRAMS:
+	@list='$(bin_PROGRAMS)'; test -n "$$list" || exit 0; \
+	echo " rm -f" $$list; \
+	rm -f $$list || exit $$?; \
+	test -n "$(EXEEXT)" || exit 0; \
+	list=`for p in $$list; do echo "$$p"; done | sed 's/$(EXEEXT)$$//'`; \
+	echo " rm -f" $$list; \
+	rm -f $$list
+HMW_graph_HvT$(EXEEXT): $(HMW_graph_HvT_OBJECTS) $(HMW_graph_HvT_DEPENDENCIES) 
+	@rm -f HMW_graph_HvT$(EXEEXT)
+	$(CXXLINK) $(HMW_graph_HvT_OBJECTS) $(HMW_graph_HvT_LDADD) $(LIBS)
 
-# flags passed to the C++ compiler/linker for the linking step
-LCXX_FLAGS = -L$(CANTERA_LIBDIR) @LOCAL_LIB_DIRS@ @CXXFLAGS@
+mostlyclean-compile:
+	-rm -f *.$(OBJEXT)
 
-# How to compile C++ source files to object files
-.@CXX_EXT@.@OBJ_EXT@:
-	$(PURIFY) $(CXX) -c $< $(INCLUDES) $(CXX_FLAGS)
+distclean-compile:
+	-rm -f *.tab.c
 
-# How to compile the dependency file
-.cpp.d:
-	@CXX_DEPENDS@ $(INCLUDES) $(CXX_FLAGS) $*.cpp > $*.d
+@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/HMW_graph_HvT.Po@am__quote@
+@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/sortAlgorithms.Po@am__quote@
 
-# List of dependency files to be created
-DEPENDS=$(OBJS:.o=.d)
+.cpp.o:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=no @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(CXXCOMPILE) -c -o $@ $<
 
-# Program Name
-PROGRAM = $(PROG_NAME)$(EXE_EXT)
+.cpp.obj:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ `$(CYGPATH_W) '$<'`
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=no @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(CXXCOMPILE) -c -o $@ `$(CYGPATH_W) '$<'`
 
-all: $(PROGRAM) .depends L_standalone
+.cpp.lo:
+@am__fastdepCXX_TRUE@	$(LTCXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Plo
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=yes @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(LTCXXCOMPILE) -c -o $@ $<
 
-$(PROGRAM): $(OBJS) $(CANTERA_LIBS_DEP)
-	$(PURIFY) $(CXX) -o $(PROGRAM) $(OBJS) $(LCXX_FLAGS) $(LINK_OPTIONS) \
-                  $(CANTERA_LIBS) @LIBS@ $(FORT_LIBS) \
-                  $(LCXX_END_LIBS)
+mostlyclean-libtool:
+	-rm -f *.lo
+
+clean-libtool:
+	-rm -rf .libs _libs
+
+ID: $(HEADERS) $(SOURCES) $(LISP) $(TAGS_FILES)
+	list='$(SOURCES) $(HEADERS) $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	mkid -fID $$unique
+tags: TAGS
+
+TAGS:  $(HEADERS) $(SOURCES)  $(TAGS_DEPENDENCIES) \
+		$(TAGS_FILES) $(LISP)
+	set x; \
+	here=`pwd`; \
+	list='$(SOURCES) $(HEADERS)  $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	shift; \
+	if test -z "$(ETAGS_ARGS)$$*$$unique"; then :; else \
+	  test -n "$$unique" || unique=$$empty_fix; \
+	  if test $$# -gt 0; then \
+	    $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
+	      "$$@" $$unique; \
+	  else \
+	    $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
+	      $$unique; \
+	  fi; \
+	fi
+ctags: CTAGS
+CTAGS:  $(HEADERS) $(SOURCES)  $(TAGS_DEPENDENCIES) \
+		$(TAGS_FILES) $(LISP)
+	list='$(SOURCES) $(HEADERS)  $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	test -z "$(CTAGS_ARGS)$$unique" \
+	  || $(CTAGS) $(CTAGSFLAGS) $(AM_CTAGSFLAGS) $(CTAGS_ARGS) \
+	     $$unique
+
+GTAGS:
+	here=`$(am__cd) $(top_builddir) && pwd` \
+	  && $(am__cd) $(top_srcdir) \
+	  && gtags -i $(GTAGS_ARGS) "$$here"
+
+distclean-tags:
+	-rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags
+
+check-TESTS: $(TESTS)
+	@failed=0; all=0; xfail=0; xpass=0; skip=0; \
+	srcdir=$(srcdir); export srcdir; \
+	list=' $(TESTS) '; \
+	$(am__tty_colors); \
+	if test -n "$$list"; then \
+	  for tst in $$list; do \
+	    if test -f ./$$tst; then dir=./; \
+	    elif test -f $$tst; then dir=; \
+	    else dir="$(srcdir)/"; fi; \
+	    if $(TESTS_ENVIRONMENT) $${dir}$$tst; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xpass=`expr $$xpass + 1`; \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=XPASS; \
+	      ;; \
+	      *) \
+		col=$$grn; res=PASS; \
+	      ;; \
+	      esac; \
+	    elif test $$? -ne 77; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xfail=`expr $$xfail + 1`; \
+		col=$$lgn; res=XFAIL; \
+	      ;; \
+	      *) \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=FAIL; \
+	      ;; \
+	      esac; \
+	    else \
+	      skip=`expr $$skip + 1`; \
+	      col=$$blu; res=SKIP; \
+	    fi; \
+	    echo "$${col}$$res$${std}: $$tst"; \
+	  done; \
+	  if test "$$all" -eq 1; then \
+	    tests="test"; \
+	    All=""; \
+	  else \
+	    tests="tests"; \
+	    All="All "; \
+	  fi; \
+	  if test "$$failed" -eq 0; then \
+	    if test "$$xfail" -eq 0; then \
+	      banner="$$All$$all $$tests passed"; \
+	    else \
+	      if test "$$xfail" -eq 1; then failures=failure; else failures=failures; fi; \
+	      banner="$$All$$all $$tests behaved as expected ($$xfail expected $$failures)"; \
+	    fi; \
+	  else \
+	    if test "$$xpass" -eq 0; then \
+	      banner="$$failed of $$all $$tests failed"; \
+	    else \
+	      if test "$$xpass" -eq 1; then passes=pass; else passes=passes; fi; \
+	      banner="$$failed of $$all $$tests did not behave as expected ($$xpass unexpected $$passes)"; \
+	    fi; \
+	  fi; \
+	  dashes="$$banner"; \
+	  skipped=""; \
+	  if test "$$skip" -ne 0; then \
+	    if test "$$skip" -eq 1; then \
+	      skipped="($$skip test was not run)"; \
+	    else \
+	      skipped="($$skip tests were not run)"; \
+	    fi; \
+	    test `echo "$$skipped" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$skipped"; \
+	  fi; \
+	  report=""; \
+	  if test "$$failed" -ne 0 && test -n "$(PACKAGE_BUGREPORT)"; then \
+	    report="Please report to $(PACKAGE_BUGREPORT)"; \
+	    test `echo "$$report" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$report"; \
+	  fi; \
+	  dashes=`echo "$$dashes" | sed s/./=/g`; \
+	  if test "$$failed" -eq 0; then \
+	    echo "$$grn$$dashes"; \
+	  else \
+	    echo "$$red$$dashes"; \
+	  fi; \
+	  echo "$$banner"; \
+	  test -z "$$skipped" || echo "$$skipped"; \
+	  test -z "$$report" || echo "$$report"; \
+	  echo "$$dashes$$std"; \
+	  test "$$failed" -eq 0; \
+	else :; fi
+
+distdir: $(DISTFILES)
+	@srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	topsrcdirstrip=`echo "$(top_srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	list='$(DISTFILES)'; \
+	  dist_files=`for file in $$list; do echo $$file; done | \
+	  sed -e "s|^$$srcdirstrip/||;t" \
+	      -e "s|^$$topsrcdirstrip/|$(top_builddir)/|;t"`; \
+	case $$dist_files in \
+	  */*) $(MKDIR_P) `echo "$$dist_files" | \
+			   sed '/\//!d;s|^|$(distdir)/|;s,/[^/]*$$,,' | \
+			   sort -u` ;; \
+	esac; \
+	for file in $$dist_files; do \
+	  if test -f $$file || test -d $$file; then d=.; else d=$(srcdir); fi; \
+	  if test -d $$d/$$file; then \
+	    dir=`echo "/$$file" | sed -e 's,/[^/]*$$,,'`; \
+	    if test -d "$(distdir)/$$file"; then \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    if test -d $(srcdir)/$$file && test $$d != $(srcdir); then \
+	      cp -fpR $(srcdir)/$$file "$(distdir)$$dir" || exit 1; \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    cp -fpR $$d/$$file "$(distdir)$$dir" || exit 1; \
+	  else \
+	    test -f "$(distdir)/$$file" \
+	    || cp -p $$d/$$file "$(distdir)/$$file" \
+	    || exit 1; \
+	  fi; \
+	done
+check-am: all-am
+	$(MAKE) $(AM_MAKEFLAGS) check-TESTS
+check: check-am
+all-am: Makefile $(PROGRAMS)
+installdirs:
+	for dir in "$(DESTDIR)$(bindir)"; do \
+	  test -z "$$dir" || $(MKDIR_P) "$$dir"; \
+	done
+install: install-am
+install-exec: install-exec-am
+install-data: install-data-am
+uninstall: uninstall-am
+
+install-am: all-am
+	@$(MAKE) $(AM_MAKEFLAGS) install-exec-am install-data-am
+
+installcheck: installcheck-am
+install-strip:
+	$(MAKE) $(AM_MAKEFLAGS) INSTALL_PROGRAM="$(INSTALL_STRIP_PROGRAM)" \
+	  install_sh_PROGRAM="$(INSTALL_STRIP_PROGRAM)" INSTALL_STRIP_FLAG=-s \
+	  `test -z '$(STRIP)' || \
+	    echo "INSTALL_PROGRAM_ENV=STRIPPROG='$(STRIP)'"` install
+mostlyclean-generic:
+
+clean-generic:
+
+distclean-generic:
+	-test -z "$(CONFIG_CLEAN_FILES)" || rm -f $(CONFIG_CLEAN_FILES)
+	-test . = "$(srcdir)" || test -z "$(CONFIG_CLEAN_VPATH_FILES)" || rm -f $(CONFIG_CLEAN_VPATH_FILES)
+
+maintainer-clean-generic:
+	@echo "This command is intended for maintainers to use"
+	@echo "it deletes files that may require special tools to rebuild."
+clean: clean-am
+
+clean-am: clean-binPROGRAMS clean-generic clean-libtool mostlyclean-am
+
+distclean: distclean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+distclean-am: clean-am distclean-compile distclean-generic \
+	distclean-tags
+
+dvi: dvi-am
+
+dvi-am:
+
+html: html-am
+
+html-am:
+
+info: info-am
+
+info-am:
+
+install-data-am:
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+install-dvi: install-dvi-am
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+install-dvi-am:
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+install-exec-am: install-binPROGRAMS
+
+install-html: install-html-am
+
+install-html-am:
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+install-ps: install-ps-am
+
+install-ps-am:
+
+installcheck-am:
+
+maintainer-clean: maintainer-clean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+maintainer-clean-am: distclean-am maintainer-clean-generic
+
+mostlyclean: mostlyclean-am
+
+mostlyclean-am: mostlyclean-compile mostlyclean-generic \
+	mostlyclean-libtool
+
+pdf: pdf-am
+
+pdf-am:
+
+ps: ps-am
+
+ps-am:
+
+uninstall-am: uninstall-binPROGRAMS
+
+.MAKE: check-am install-am install-strip
+
+.PHONY: CTAGS GTAGS all all-am check check-TESTS check-am clean \
+	clean-binPROGRAMS clean-generic clean-libtool ctags distclean \
+	distclean-compile distclean-generic distclean-libtool \
+	distclean-tags distdir dvi dvi-am html html-am info info-am \
+	install install-am install-binPROGRAMS install-data \
+	install-data-am install-dvi install-dvi-am install-exec \
+	install-exec-am install-html install-html-am install-info \
+	install-info-am install-man install-pdf install-pdf-am \
+	install-ps install-ps-am install-strip installcheck \
+	installcheck-am installdirs maintainer-clean \
+	maintainer-clean-generic mostlyclean mostlyclean-compile \
+	mostlyclean-generic mostlyclean-libtool pdf pdf-am ps ps-am \
+	tags uninstall uninstall-am uninstall-binPROGRAMS
 
 
-# Add an additional target for stability:
-$(OBJS):  $(CANTERA_LIBDIR)/libctbase.a $(CANTERA_LIBDIR)/libthermo.a
-
-
-L_standalone: L_standalone.o
-	 $(CXX) -o L_standalone L_standalone.o \
-               $(LCXX_FLAGS) $(LINK_OPTIONS)  $(LCXX_END_LIBS)
-
-# depends target -> forces recalculation of dependencies
-depends:
-	@MAKE@ .depends
-
-.depends: $(DEPENDS)
-	cat $(DEPENDS) > .depends
-
-# Do the test -> For the windows vc++ environment, we have to skip checking on
-#                whether the program is uptodate, because we don't utilize make
-#                in that environment to build programs.
-test:
-ifeq ($(os_is_win), 1)
-else
-	@ @MAKE@ -s $(PROGRAM)
-endif
-	@ ./runtest
-
-clean:
-	$(RM) $(OBJS) $(PROGRAM) $(DEPENDS) .depends *.o
-	../../../bin/rm_cvsignore
-	(if test -d SunWS_cache ; then \
-           $(RM) -rf SunWS_cache ; \
-         fi )
-
-ifeq ($(wildcard .depends), .depends)
-include .depends
-endif
-
+# Tell versions [3.59,3.63) of GNU make to not export all variables.
+# Otherwise a system limit (for SysV at least) may be exceeded.
+.NOEXPORT:
diff --git a/test_problems/cathermo/HMW_graph_VvT/Makefile.am b/test_problems/cathermo/HMW_graph_VvT/Makefile.am
new file mode 100644
index 000000000..28cc1b6d1
--- /dev/null
+++ b/test_problems/cathermo/HMW_graph_VvT/Makefile.am
@@ -0,0 +1,23 @@
+cc_sources = HMW_graph_VvT.cpp sortAlgorithms.cpp
+
+INC                  = -I. -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera -I$(top_builddir)/build/include/cantera/kernel
+AM_CPPFLAGS          = $(INC)
+AM_CXXFLAGS          = $(AM_CPPFLAGS)
+
+LINK                 = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport -lthermo 
+LINK                += -lctnumerics -lctmath -ltpx -lctspectra -lconverters -lctbase -lcvode 
+LINK                += -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS           = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+LIBS                 =  $(LINK)
+
+bin_PROGRAMS         = HMW_graph_VvT
+library_includedir   = $(INC)
+
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+
+HMW_graph_VvT_SOURCES = $(cc_sources)
+
+TESTS_ENVIRONMENT = 
+TESTS             = runtest
diff --git a/test_problems/cathermo/HMW_graph_VvT/Makefile.in b/test_problems/cathermo/HMW_graph_VvT/Makefile.in
index cd5437328..cd0bc563a 100644
--- a/test_problems/cathermo/HMW_graph_VvT/Makefile.in
+++ b/test_problems/cathermo/HMW_graph_VvT/Makefile.in
@@ -1,121 +1,660 @@
-#!/bin/sh
+# Makefile.in generated by automake 1.11.1 from Makefile.am.
+# @configure_input@
 
-############################################################################
-#
-#  Makefile to compile and link a C++ application to 
-#  Cantera.
-#
-#############################################################################
+# Copyright (C) 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002,
+# 2003, 2004, 2005, 2006, 2007, 2008, 2009  Free Software Foundation,
+# Inc.
+# This Makefile.in is free software; the Free Software Foundation
+# gives unlimited permission to copy and/or distribute it,
+# with or without modifications, as long as this notice is preserved.
 
-# addition to suffixes
-.SUFFIXES : .d
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY, to the extent permitted by law; without
+# even the implied warranty of MERCHANTABILITY or FITNESS FOR A
+# PARTICULAR PURPOSE.
 
-# the name of the executable program to be created
-PROG_NAME = HMW_graph_VvT
+@SET_MAKE@
 
-# the object files to be linked together. List those generated from Fortran
-# and from C/C++ separately
-OBJS = HMW_graph_VvT.o sortAlgorithms.o
-
-# additional flags to be passed to the linker. If your program
-# requires other external libraries, put them here
-LINK_OPTIONS = @EXTRA_LINK@
-
-#############################################################################
-
-PURIFY=@PURIFY@
-
-# Check to see whether we are in the msvc++ environment
-os_is_win = @OS_IS_WIN@
-
-# Fortran libraries
-ifeq (@build_with_f2c@, 0)
-FORT_LIBS = @FLIBS@
-else
-FORT_LIBS =
-endif
-
-# the C++ compiler
+VPATH = @srcdir@
+pkgdatadir = $(datadir)/@PACKAGE@
+pkgincludedir = $(includedir)/@PACKAGE@
+pkglibdir = $(libdir)/@PACKAGE@
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+am__cd = CDPATH="$${ZSH_VERSION+.}$(PATH_SEPARATOR)" && cd
+install_sh_DATA = $(install_sh) -c -m 644
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+transform = $(program_transform_name)
+NORMAL_INSTALL = :
+PRE_INSTALL = :
+POST_INSTALL = :
+NORMAL_UNINSTALL = :
+PRE_UNINSTALL = :
+POST_UNINSTALL = :
+build_triplet = @build@
+host_triplet = @host@
+bin_PROGRAMS = HMW_graph_VvT$(EXEEXT)
+subdir = test_problems/cathermo/HMW_graph_VvT
+DIST_COMMON = README $(srcdir)/Makefile.am $(srcdir)/Makefile.in
+ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
+am__aclocal_m4_deps = $(top_srcdir)/m4/common/ax_prog_doxygen.m4 \
+	$(top_srcdir)/m4/common/ax_split_version.m4 \
+	$(top_srcdir)/m4/config_summary.m4 $(top_srcdir)/m4/libtool.m4 \
+	$(top_srcdir)/m4/ltoptions.m4 $(top_srcdir)/m4/ltsugar.m4 \
+	$(top_srcdir)/m4/ltversion.m4 $(top_srcdir)/m4/lt~obsolete.m4 \
+	$(top_srcdir)/configure.ac
+am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
+	$(ACLOCAL_M4)
+mkinstalldirs = $(install_sh) -d
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+CONFIG_CLEAN_FILES =
+CONFIG_CLEAN_VPATH_FILES =
+am__installdirs = "$(DESTDIR)$(bindir)"
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+am__objects_1 = HMW_graph_VvT.$(OBJEXT) sortAlgorithms.$(OBJEXT)
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+HMW_graph_VvT_LDADD = $(LDADD)
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+am__depfiles_maybe = depfiles
+am__mv = mv -f
+CXXCOMPILE = $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) \
+	$(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS)
+LTCXXCOMPILE = $(LIBTOOL) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) \
+	--mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) \
+	$(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS)
+CXXLD = $(CXX)
+CXXLINK = $(LIBTOOL) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) \
+	--mode=link $(CXXLD) $(AM_CXXFLAGS) $(CXXFLAGS) $(AM_LDFLAGS) \
+	$(LDFLAGS) -o $@
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+am__tty_colors = \
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+top_builddir = @top_builddir@
+top_srcdir = @top_srcdir@
+cc_sources = HMW_graph_VvT.cpp sortAlgorithms.cpp
+INC = -I. -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera -I$(top_builddir)/build/include/cantera/kernel
+AM_CPPFLAGS = $(INC)
+AM_CXXFLAGS = $(AM_CPPFLAGS)
+LINK = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport \
+	-lthermo -lctnumerics -lctmath -ltpx -lctspectra -lconverters \
+	-lctbase -lcvode -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+library_includedir = $(INC)
 
-# C++ compile flags
-CXX_FLAGS = @CXXFLAGS@ @CXX_INCLUDES@
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+HMW_graph_VvT_SOURCES = $(cc_sources)
+TESTS_ENVIRONMENT = 
+TESTS = runtest
+all: all-am
 
-# Ending C++ linking libraries
-LCXX_END_LIBS = @LCXX_END_LIBS@
+.SUFFIXES:
+.SUFFIXES: .cpp .lo .o .obj
+$(srcdir)/Makefile.in:  $(srcdir)/Makefile.am  $(am__configure_deps)
+	@for dep in $?; do \
+	  case '$(am__configure_deps)' in \
+	    *$$dep*) \
+	      ( cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh ) \
+	        && { if test -f $@; then exit 0; else break; fi; }; \
+	      exit 1;; \
+	  esac; \
+	done; \
+	echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu test_problems/cathermo/HMW_graph_VvT/Makefile'; \
+	$(am__cd) $(top_srcdir) && \
+	  $(AUTOMAKE) --gnu test_problems/cathermo/HMW_graph_VvT/Makefile
+.PRECIOUS: Makefile
+Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status
+	@case '$?' in \
+	  *config.status*) \
+	    cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh;; \
+	  *) \
+	    echo ' cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe)'; \
+	    cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe);; \
+	esac;
 
-# the directory where the Cantera libraries are located
-CANTERA_LIBDIR=@buildlib@
+$(top_builddir)/config.status: $(top_srcdir)/configure $(CONFIG_STATUS_DEPENDENCIES)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
 
-# required Cantera libraries
-CANTERA_LIBS = @LOCAL_LIBS@ -lctcxx
+$(top_srcdir)/configure:  $(am__configure_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(ACLOCAL_M4):  $(am__aclocal_m4_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(am__aclocal_m4_deps):
+install-binPROGRAMS: $(bin_PROGRAMS)
+	@$(NORMAL_INSTALL)
+	test -z "$(bindir)" || $(MKDIR_P) "$(DESTDIR)$(bindir)"
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	for p in $$list; do echo "$$p $$p"; done | \
+	sed 's/$(EXEEXT)$$//' | \
+	while read p p1; do if test -f $$p || test -f $$p1; \
+	  then echo "$$p"; echo "$$p"; else :; fi; \
+	done | \
+	sed -e 'p;s,.*/,,;n;h' -e 's|.*|.|' \
+	    -e 'p;x;s,.*/,,;s/$(EXEEXT)$$//;$(transform);s/$$/$(EXEEXT)/' | \
+	sed 'N;N;N;s,\n, ,g' | \
+	$(AWK) 'BEGIN { files["."] = ""; dirs["."] = 1 } \
+	  { d=$$3; if (dirs[d] != 1) { print "d", d; dirs[d] = 1 } \
+	    if ($$2 == $$4) files[d] = files[d] " " $$1; \
+	    else { print "f", $$3 "/" $$4, $$1; } } \
+	  END { for (d in files) print "f", d, files[d] }' | \
+	while read type dir files; do \
+	    if test "$$dir" = .; then dir=; else dir=/$$dir; fi; \
+	    test -z "$$files" || { \
+	    echo " $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files '$(DESTDIR)$(bindir)$$dir'"; \
+	    $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files "$(DESTDIR)$(bindir)$$dir" || exit $$?; \
+	    } \
+	; done
 
-# Dependencies for CANTERA_LIBS
-CANTERA_LIBS_DEP = @LOCAL_LIBS_DEP@ $(CANTERA_LIBDIR)/libctcxx.a
+uninstall-binPROGRAMS:
+	@$(NORMAL_UNINSTALL)
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	files=`for p in $$list; do echo "$$p"; done | \
+	  sed -e 'h;s,^.*/,,;s/$(EXEEXT)$$//;$(transform)' \
+	      -e 's/$$/$(EXEEXT)/' `; \
+	test -n "$$list" || exit 0; \
+	echo " ( cd '$(DESTDIR)$(bindir)' && rm -f" $$files ")"; \
+	cd "$(DESTDIR)$(bindir)" && rm -f $$files
 
-# the directory where Cantera include files may be found.
-CANTERA_INCDIR=@ctroot@/build/include/cantera
-INCLUDES=-I$(CANTERA_INCDIR) -I$(CANTERA_INCDIR)/kernel
+clean-binPROGRAMS:
+	@list='$(bin_PROGRAMS)'; test -n "$$list" || exit 0; \
+	echo " rm -f" $$list; \
+	rm -f $$list || exit $$?; \
+	test -n "$(EXEEXT)" || exit 0; \
+	list=`for p in $$list; do echo "$$p"; done | sed 's/$(EXEEXT)$$//'`; \
+	echo " rm -f" $$list; \
+	rm -f $$list
+HMW_graph_VvT$(EXEEXT): $(HMW_graph_VvT_OBJECTS) $(HMW_graph_VvT_DEPENDENCIES) 
+	@rm -f HMW_graph_VvT$(EXEEXT)
+	$(CXXLINK) $(HMW_graph_VvT_OBJECTS) $(HMW_graph_VvT_LDADD) $(LIBS)
 
-# flags passed to the C++ compiler/linker for the linking step
-LCXX_FLAGS = -L$(CANTERA_LIBDIR) @LOCAL_LIB_DIRS@ @CXXFLAGS@
+mostlyclean-compile:
+	-rm -f *.$(OBJEXT)
 
-# How to compile C++ source files to object files
-.@CXX_EXT@.@OBJ_EXT@:
-	$(PURIFY) $(CXX) -c $< $(INCLUDES) $(CXX_FLAGS)
+distclean-compile:
+	-rm -f *.tab.c
 
-# How to compile the dependency file
-.cpp.d:
-	@CXX_DEPENDS@ $(INCLUDES) $(CXX_FLAGS) $*.cpp > $*.d
+@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/HMW_graph_VvT.Po@am__quote@
+@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/sortAlgorithms.Po@am__quote@
 
-# List of dependency files to be created
-DEPENDS=$(OBJS:.o=.d)
+.cpp.o:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=no @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(CXXCOMPILE) -c -o $@ $<
 
-# Program Name
-PROGRAM = $(PROG_NAME)$(EXE_EXT)
+.cpp.obj:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ `$(CYGPATH_W) '$<'`
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=no @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(CXXCOMPILE) -c -o $@ `$(CYGPATH_W) '$<'`
 
-all: $(PROGRAM) .depends V_standalone
+.cpp.lo:
+@am__fastdepCXX_TRUE@	$(LTCXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Plo
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=yes @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(LTCXXCOMPILE) -c -o $@ $<
 
-$(PROGRAM): $(OBJS) $(CANTERA_LIBS_DEP)
-	$(PURIFY) $(CXX) -o $(PROGRAM) $(OBJS) $(LCXX_FLAGS) $(LINK_OPTIONS) \
-                  $(CANTERA_LIBS) @LIBS@ $(FORT_LIBS) \
-                  $(LCXX_END_LIBS)
+mostlyclean-libtool:
+	-rm -f *.lo
+
+clean-libtool:
+	-rm -rf .libs _libs
+
+ID: $(HEADERS) $(SOURCES) $(LISP) $(TAGS_FILES)
+	list='$(SOURCES) $(HEADERS) $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	mkid -fID $$unique
+tags: TAGS
+
+TAGS:  $(HEADERS) $(SOURCES)  $(TAGS_DEPENDENCIES) \
+		$(TAGS_FILES) $(LISP)
+	set x; \
+	here=`pwd`; \
+	list='$(SOURCES) $(HEADERS)  $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	shift; \
+	if test -z "$(ETAGS_ARGS)$$*$$unique"; then :; else \
+	  test -n "$$unique" || unique=$$empty_fix; \
+	  if test $$# -gt 0; then \
+	    $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
+	      "$$@" $$unique; \
+	  else \
+	    $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
+	      $$unique; \
+	  fi; \
+	fi
+ctags: CTAGS
+CTAGS:  $(HEADERS) $(SOURCES)  $(TAGS_DEPENDENCIES) \
+		$(TAGS_FILES) $(LISP)
+	list='$(SOURCES) $(HEADERS)  $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	test -z "$(CTAGS_ARGS)$$unique" \
+	  || $(CTAGS) $(CTAGSFLAGS) $(AM_CTAGSFLAGS) $(CTAGS_ARGS) \
+	     $$unique
+
+GTAGS:
+	here=`$(am__cd) $(top_builddir) && pwd` \
+	  && $(am__cd) $(top_srcdir) \
+	  && gtags -i $(GTAGS_ARGS) "$$here"
+
+distclean-tags:
+	-rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags
+
+check-TESTS: $(TESTS)
+	@failed=0; all=0; xfail=0; xpass=0; skip=0; \
+	srcdir=$(srcdir); export srcdir; \
+	list=' $(TESTS) '; \
+	$(am__tty_colors); \
+	if test -n "$$list"; then \
+	  for tst in $$list; do \
+	    if test -f ./$$tst; then dir=./; \
+	    elif test -f $$tst; then dir=; \
+	    else dir="$(srcdir)/"; fi; \
+	    if $(TESTS_ENVIRONMENT) $${dir}$$tst; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xpass=`expr $$xpass + 1`; \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=XPASS; \
+	      ;; \
+	      *) \
+		col=$$grn; res=PASS; \
+	      ;; \
+	      esac; \
+	    elif test $$? -ne 77; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xfail=`expr $$xfail + 1`; \
+		col=$$lgn; res=XFAIL; \
+	      ;; \
+	      *) \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=FAIL; \
+	      ;; \
+	      esac; \
+	    else \
+	      skip=`expr $$skip + 1`; \
+	      col=$$blu; res=SKIP; \
+	    fi; \
+	    echo "$${col}$$res$${std}: $$tst"; \
+	  done; \
+	  if test "$$all" -eq 1; then \
+	    tests="test"; \
+	    All=""; \
+	  else \
+	    tests="tests"; \
+	    All="All "; \
+	  fi; \
+	  if test "$$failed" -eq 0; then \
+	    if test "$$xfail" -eq 0; then \
+	      banner="$$All$$all $$tests passed"; \
+	    else \
+	      if test "$$xfail" -eq 1; then failures=failure; else failures=failures; fi; \
+	      banner="$$All$$all $$tests behaved as expected ($$xfail expected $$failures)"; \
+	    fi; \
+	  else \
+	    if test "$$xpass" -eq 0; then \
+	      banner="$$failed of $$all $$tests failed"; \
+	    else \
+	      if test "$$xpass" -eq 1; then passes=pass; else passes=passes; fi; \
+	      banner="$$failed of $$all $$tests did not behave as expected ($$xpass unexpected $$passes)"; \
+	    fi; \
+	  fi; \
+	  dashes="$$banner"; \
+	  skipped=""; \
+	  if test "$$skip" -ne 0; then \
+	    if test "$$skip" -eq 1; then \
+	      skipped="($$skip test was not run)"; \
+	    else \
+	      skipped="($$skip tests were not run)"; \
+	    fi; \
+	    test `echo "$$skipped" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$skipped"; \
+	  fi; \
+	  report=""; \
+	  if test "$$failed" -ne 0 && test -n "$(PACKAGE_BUGREPORT)"; then \
+	    report="Please report to $(PACKAGE_BUGREPORT)"; \
+	    test `echo "$$report" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$report"; \
+	  fi; \
+	  dashes=`echo "$$dashes" | sed s/./=/g`; \
+	  if test "$$failed" -eq 0; then \
+	    echo "$$grn$$dashes"; \
+	  else \
+	    echo "$$red$$dashes"; \
+	  fi; \
+	  echo "$$banner"; \
+	  test -z "$$skipped" || echo "$$skipped"; \
+	  test -z "$$report" || echo "$$report"; \
+	  echo "$$dashes$$std"; \
+	  test "$$failed" -eq 0; \
+	else :; fi
+
+distdir: $(DISTFILES)
+	@srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	topsrcdirstrip=`echo "$(top_srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	list='$(DISTFILES)'; \
+	  dist_files=`for file in $$list; do echo $$file; done | \
+	  sed -e "s|^$$srcdirstrip/||;t" \
+	      -e "s|^$$topsrcdirstrip/|$(top_builddir)/|;t"`; \
+	case $$dist_files in \
+	  */*) $(MKDIR_P) `echo "$$dist_files" | \
+			   sed '/\//!d;s|^|$(distdir)/|;s,/[^/]*$$,,' | \
+			   sort -u` ;; \
+	esac; \
+	for file in $$dist_files; do \
+	  if test -f $$file || test -d $$file; then d=.; else d=$(srcdir); fi; \
+	  if test -d $$d/$$file; then \
+	    dir=`echo "/$$file" | sed -e 's,/[^/]*$$,,'`; \
+	    if test -d "$(distdir)/$$file"; then \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    if test -d $(srcdir)/$$file && test $$d != $(srcdir); then \
+	      cp -fpR $(srcdir)/$$file "$(distdir)$$dir" || exit 1; \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    cp -fpR $$d/$$file "$(distdir)$$dir" || exit 1; \
+	  else \
+	    test -f "$(distdir)/$$file" \
+	    || cp -p $$d/$$file "$(distdir)/$$file" \
+	    || exit 1; \
+	  fi; \
+	done
+check-am: all-am
+	$(MAKE) $(AM_MAKEFLAGS) check-TESTS
+check: check-am
+all-am: Makefile $(PROGRAMS)
+installdirs:
+	for dir in "$(DESTDIR)$(bindir)"; do \
+	  test -z "$$dir" || $(MKDIR_P) "$$dir"; \
+	done
+install: install-am
+install-exec: install-exec-am
+install-data: install-data-am
+uninstall: uninstall-am
+
+install-am: all-am
+	@$(MAKE) $(AM_MAKEFLAGS) install-exec-am install-data-am
+
+installcheck: installcheck-am
+install-strip:
+	$(MAKE) $(AM_MAKEFLAGS) INSTALL_PROGRAM="$(INSTALL_STRIP_PROGRAM)" \
+	  install_sh_PROGRAM="$(INSTALL_STRIP_PROGRAM)" INSTALL_STRIP_FLAG=-s \
+	  `test -z '$(STRIP)' || \
+	    echo "INSTALL_PROGRAM_ENV=STRIPPROG='$(STRIP)'"` install
+mostlyclean-generic:
+
+clean-generic:
+
+distclean-generic:
+	-test -z "$(CONFIG_CLEAN_FILES)" || rm -f $(CONFIG_CLEAN_FILES)
+	-test . = "$(srcdir)" || test -z "$(CONFIG_CLEAN_VPATH_FILES)" || rm -f $(CONFIG_CLEAN_VPATH_FILES)
+
+maintainer-clean-generic:
+	@echo "This command is intended for maintainers to use"
+	@echo "it deletes files that may require special tools to rebuild."
+clean: clean-am
+
+clean-am: clean-binPROGRAMS clean-generic clean-libtool mostlyclean-am
+
+distclean: distclean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+distclean-am: clean-am distclean-compile distclean-generic \
+	distclean-tags
+
+dvi: dvi-am
+
+dvi-am:
+
+html: html-am
+
+html-am:
+
+info: info-am
+
+info-am:
+
+install-data-am:
+
+install-dvi: install-dvi-am
+
+install-dvi-am:
+
+install-exec-am: install-binPROGRAMS
+
+install-html: install-html-am
+
+install-html-am:
+
+install-info: install-info-am
+
+install-info-am:
+
+install-man:
+
+install-pdf: install-pdf-am
+
+install-pdf-am:
+
+install-ps: install-ps-am
+
+install-ps-am:
+
+installcheck-am:
+
+maintainer-clean: maintainer-clean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+maintainer-clean-am: distclean-am maintainer-clean-generic
+
+mostlyclean: mostlyclean-am
+
+mostlyclean-am: mostlyclean-compile mostlyclean-generic \
+	mostlyclean-libtool
+
+pdf: pdf-am
+
+pdf-am:
+
+ps: ps-am
+
+ps-am:
+
+uninstall-am: uninstall-binPROGRAMS
+
+.MAKE: check-am install-am install-strip
+
+.PHONY: CTAGS GTAGS all all-am check check-TESTS check-am clean \
+	clean-binPROGRAMS clean-generic clean-libtool ctags distclean \
+	distclean-compile distclean-generic distclean-libtool \
+	distclean-tags distdir dvi dvi-am html html-am info info-am \
+	install install-am install-binPROGRAMS install-data \
+	install-data-am install-dvi install-dvi-am install-exec \
+	install-exec-am install-html install-html-am install-info \
+	install-info-am install-man install-pdf install-pdf-am \
+	install-ps install-ps-am install-strip installcheck \
+	installcheck-am installdirs maintainer-clean \
+	maintainer-clean-generic mostlyclean mostlyclean-compile \
+	mostlyclean-generic mostlyclean-libtool pdf pdf-am ps ps-am \
+	tags uninstall uninstall-am uninstall-binPROGRAMS
 
 
-# Add an additional target for stability:
-$(OBJS):  $(CANTERA_LIBDIR)/libctbase.a $(CANTERA_LIBDIR)/libthermo.a
-
-
-V_standalone: V_standalone.o
-	 $(CXX) -o V_standalone V_standalone.o \
-               $(LCXX_FLAGS) $(LINK_OPTIONS)  $(LCXX_END_LIBS)
-
-# depends target -> forces recalculation of dependencies
-depends:
-	@MAKE@ .depends
-
-.depends: $(DEPENDS)
-	cat $(DEPENDS) > .depends
-
-# Do the test -> For the windows vc++ environment, we have to skip checking on
-#                whether the program is uptodate, because we don't utilize make
-#                in that environment to build programs.
-test:
-ifeq ($(os_is_win), 1)
-else
-	@ @MAKE@ -s $(PROGRAM)
-endif
-	@ ./runtest
-
-clean:
-	$(RM) $(OBJS) $(PROGRAM) $(DEPENDS) .depends *.o
-	../../../bin/rm_cvsignore
-	(if test -d SunWS_cache ; then \
-           $(RM) -rf SunWS_cache ; \
-         fi )
-
-
-ifeq ($(wildcard .depends), .depends)
-include .depends
-endif
-
+# Tell versions [3.59,3.63) of GNU make to not export all variables.
+# Otherwise a system limit (for SysV at least) may be exceeded.
+.NOEXPORT:
diff --git a/test_problems/cathermo/HMW_test_1/Makefile.am b/test_problems/cathermo/HMW_test_1/Makefile.am
new file mode 100644
index 000000000..3a5cc66c4
--- /dev/null
+++ b/test_problems/cathermo/HMW_test_1/Makefile.am
@@ -0,0 +1,23 @@
+cc_sources = HMW_test_1.cpp
+
+INC                  = -I. -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera -I$(top_builddir)/build/include/cantera/kernel
+AM_CPPFLAGS          = $(INC)
+AM_CXXFLAGS          = $(AM_CPPFLAGS)
+
+LINK                 = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport -lthermo 
+LINK                += -lctnumerics -lctmath -ltpx -lctspectra -lconverters -lctbase -lcvode 
+LINK                += -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS           = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+LIBS                 =  $(LINK)
+
+bin_PROGRAMS         = HMW_test_1
+library_includedir   = $(INC)
+
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+
+HMW_test_1_SOURCES = $(cc_sources)
+
+TESTS_ENVIRONMENT = 
+TESTS             = runtest
diff --git a/test_problems/cathermo/HMW_test_1/Makefile.in b/test_problems/cathermo/HMW_test_1/Makefile.in
index 7ae9500eb..d4a9a7c73 100644
--- a/test_problems/cathermo/HMW_test_1/Makefile.in
+++ b/test_problems/cathermo/HMW_test_1/Makefile.in
@@ -1,123 +1,659 @@
-#!/bin/sh
+# Makefile.in generated by automake 1.11.1 from Makefile.am.
+# @configure_input@
 
-############################################################################
-#
-#  Makefile to compile and link a C++ application to 
-#  Cantera.
-#
-#############################################################################
+# Copyright (C) 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002,
+# 2003, 2004, 2005, 2006, 2007, 2008, 2009  Free Software Foundation,
+# Inc.
+# This Makefile.in is free software; the Free Software Foundation
+# gives unlimited permission to copy and/or distribute it,
+# with or without modifications, as long as this notice is preserved.
 
-# addition to suffixes
-.SUFFIXES : .d
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY, to the extent permitted by law; without
+# even the implied warranty of MERCHANTABILITY or FITNESS FOR A
+# PARTICULAR PURPOSE.
 
-# the name of the executable program to be created
-PROG_NAME = HMW_test_1
+@SET_MAKE@
 
-# the object files to be linked together. List those generated from Fortran
-# and from C/C++ separately
-OBJS = HMW_test_1.o
-
-# additional flags to be passed to the linker. If your program
-# requires other external libraries, put them here
-LINK_OPTIONS = @EXTRA_LINK@
-
-#############################################################################
-
-PURIFY=@PURIFY@
-
-# Check to see whether we are in the msvc++ environment
-os_is_win = @OS_IS_WIN@
-
-# Fortran libraries
-ifeq (@build_with_f2c@, 0)
-FORT_LIBS = @FLIBS@
-else
-FORT_LIBS =
-endif
-
-# the C++ compiler
+VPATH = @srcdir@
+pkgdatadir = $(datadir)/@PACKAGE@
+pkgincludedir = $(includedir)/@PACKAGE@
+pkglibdir = $(libdir)/@PACKAGE@
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+INSTALL_HEADER = $(INSTALL_DATA)
+transform = $(program_transform_name)
+NORMAL_INSTALL = :
+PRE_INSTALL = :
+POST_INSTALL = :
+NORMAL_UNINSTALL = :
+PRE_UNINSTALL = :
+POST_UNINSTALL = :
+build_triplet = @build@
+host_triplet = @host@
+bin_PROGRAMS = HMW_test_1$(EXEEXT)
+subdir = test_problems/cathermo/HMW_test_1
+DIST_COMMON = README $(srcdir)/Makefile.am $(srcdir)/Makefile.in
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+am__aclocal_m4_deps = $(top_srcdir)/m4/common/ax_prog_doxygen.m4 \
+	$(top_srcdir)/m4/common/ax_split_version.m4 \
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+	$(top_srcdir)/m4/ltoptions.m4 $(top_srcdir)/m4/ltsugar.m4 \
+	$(top_srcdir)/m4/ltversion.m4 $(top_srcdir)/m4/lt~obsolete.m4 \
+	$(top_srcdir)/configure.ac
+am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
+	$(ACLOCAL_M4)
+mkinstalldirs = $(install_sh) -d
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+CONFIG_CLEAN_FILES =
+CONFIG_CLEAN_VPATH_FILES =
+am__installdirs = "$(DESTDIR)$(bindir)"
+PROGRAMS = $(bin_PROGRAMS)
+am__objects_1 = HMW_test_1.$(OBJEXT)
+am_HMW_test_1_OBJECTS = $(am__objects_1)
+HMW_test_1_OBJECTS = $(am_HMW_test_1_OBJECTS)
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+LTCXXCOMPILE = $(LIBTOOL) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) \
+	--mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) \
+	$(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS)
+CXXLD = $(CXX)
+CXXLINK = $(LIBTOOL) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) \
+	--mode=link $(CXXLD) $(AM_CXXFLAGS) $(CXXFLAGS) $(AM_LDFLAGS) \
+	$(LDFLAGS) -o $@
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+CTAGS = ctags
+am__tty_colors = \
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+AMTAR = @AMTAR@
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+DX_FLAG_chm = @DX_FLAG_chm@
+DX_FLAG_doc = @DX_FLAG_doc@
+DX_FLAG_dot = @DX_FLAG_dot@
+DX_FLAG_html = @DX_FLAG_html@
+DX_FLAG_man = @DX_FLAG_man@
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+DX_FLAG_ps = @DX_FLAG_ps@
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+F77 = @F77@
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+FCFLAGS = @FCFLAGS@
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+FGREP = @FGREP@
+GENERIC_MAJOR_VERSION = @GENERIC_MAJOR_VERSION@
+GENERIC_MICRO_VERSION = @GENERIC_MICRO_VERSION@
+GENERIC_MINOR_VERSION = @GENERIC_MINOR_VERSION@
+GENERIC_RELEASE = @GENERIC_RELEASE@
+GENERIC_VERSION = @GENERIC_VERSION@
+GREP = @GREP@
+INSTALL = @INSTALL@
+INSTALL_DATA = @INSTALL_DATA@
+INSTALL_PROGRAM = @INSTALL_PROGRAM@
+INSTALL_SCRIPT = @INSTALL_SCRIPT@
+INSTALL_STRIP_PROGRAM = @INSTALL_STRIP_PROGRAM@
+LD = @LD@
+LDFLAGS = @LDFLAGS@
+LIBOBJS = @LIBOBJS@
+LIBS = $(LINK)
+LIBTOOL = @LIBTOOL@
+LIPO = @LIPO@
+LN_S = @LN_S@
+LTLIBOBJS = @LTLIBOBJS@
+MAKEINFO = @MAKEINFO@
+MKDIR_P = @MKDIR_P@
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+OBJDUMP = @OBJDUMP@
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+OTOOL64 = @OTOOL64@
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+PACKAGE_DESCRIPTION = @PACKAGE_DESCRIPTION@
+PACKAGE_NAME = @PACKAGE_NAME@
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+PACKAGE_TARNAME = @PACKAGE_TARNAME@
+PACKAGE_URL = @PACKAGE_URL@
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+PATH_SEPARATOR = @PATH_SEPARATOR@
+RANLIB = @RANLIB@
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+SHELL = @SHELL@
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+VERSION = @VERSION@
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+abs_srcdir = @abs_srcdir@
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+abs_top_srcdir = @abs_top_srcdir@
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+build_alias = @build_alias@
+build_cpu = @build_cpu@
+build_os = @build_os@
+build_vendor = @build_vendor@
+builddir = @builddir@
+datadir = @datadir@
+datarootdir = @datarootdir@
+docdir = @docdir@
+dvidir = @dvidir@
+exec_prefix = @exec_prefix@
+host = @host@
+host_alias = @host_alias@
+host_cpu = @host_cpu@
+host_os = @host_os@
+host_vendor = @host_vendor@
+htmldir = @htmldir@
+includedir = @includedir@
+infodir = @infodir@
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+libdir = @libdir@
+libexecdir = @libexecdir@
+localedir = @localedir@
+localstatedir = @localstatedir@
+lt_ECHO = @lt_ECHO@
+mandir = @mandir@
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+oldincludedir = @oldincludedir@
+pdfdir = @pdfdir@
+prefix = @prefix@
+program_transform_name = @program_transform_name@
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+sysconfdir = @sysconfdir@
+target_alias = @target_alias@
+top_build_prefix = @top_build_prefix@
+top_builddir = @top_builddir@
+top_srcdir = @top_srcdir@
+cc_sources = HMW_test_1.cpp
+INC = -I. -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera -I$(top_builddir)/build/include/cantera/kernel
+AM_CPPFLAGS = $(INC)
+AM_CXXFLAGS = $(AM_CPPFLAGS)
+LINK = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport \
+	-lthermo -lctnumerics -lctmath -ltpx -lctspectra -lconverters \
+	-lctbase -lcvode -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+library_includedir = $(INC)
 
-debug_mode = @CANTERA_DEBUG_MODE@
-ifeq ($(debug_mode), 1)
-   DEBUG_FLAG=-DDEBUG_MODE
-else
-   DEBUG_FLAG=
-endif
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+HMW_test_1_SOURCES = $(cc_sources)
+TESTS_ENVIRONMENT = 
+TESTS = runtest
+all: all-am
+
+.SUFFIXES:
+.SUFFIXES: .cpp .lo .o .obj
+$(srcdir)/Makefile.in:  $(srcdir)/Makefile.am  $(am__configure_deps)
+	@for dep in $?; do \
+	  case '$(am__configure_deps)' in \
+	    *$$dep*) \
+	      ( cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh ) \
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+	      exit 1;; \
+	  esac; \
+	done; \
+	echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu test_problems/cathermo/HMW_test_1/Makefile'; \
+	$(am__cd) $(top_srcdir) && \
+	  $(AUTOMAKE) --gnu test_problems/cathermo/HMW_test_1/Makefile
+.PRECIOUS: Makefile
+Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status
+	@case '$?' in \
+	  *config.status*) \
+	    cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh;; \
+	  *) \
+	    echo ' cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe)'; \
+	    cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe);; \
+	esac;
+
+$(top_builddir)/config.status: $(top_srcdir)/configure $(CONFIG_STATUS_DEPENDENCIES)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+
+$(top_srcdir)/configure:  $(am__configure_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(ACLOCAL_M4):  $(am__aclocal_m4_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(am__aclocal_m4_deps):
+install-binPROGRAMS: $(bin_PROGRAMS)
+	@$(NORMAL_INSTALL)
+	test -z "$(bindir)" || $(MKDIR_P) "$(DESTDIR)$(bindir)"
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	for p in $$list; do echo "$$p $$p"; done | \
+	sed 's/$(EXEEXT)$$//' | \
+	while read p p1; do if test -f $$p || test -f $$p1; \
+	  then echo "$$p"; echo "$$p"; else :; fi; \
+	done | \
+	sed -e 'p;s,.*/,,;n;h' -e 's|.*|.|' \
+	    -e 'p;x;s,.*/,,;s/$(EXEEXT)$$//;$(transform);s/$$/$(EXEEXT)/' | \
+	sed 'N;N;N;s,\n, ,g' | \
+	$(AWK) 'BEGIN { files["."] = ""; dirs["."] = 1 } \
+	  { d=$$3; if (dirs[d] != 1) { print "d", d; dirs[d] = 1 } \
+	    if ($$2 == $$4) files[d] = files[d] " " $$1; \
+	    else { print "f", $$3 "/" $$4, $$1; } } \
+	  END { for (d in files) print "f", d, files[d] }' | \
+	while read type dir files; do \
+	    if test "$$dir" = .; then dir=; else dir=/$$dir; fi; \
+	    test -z "$$files" || { \
+	    echo " $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files '$(DESTDIR)$(bindir)$$dir'"; \
+	    $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files "$(DESTDIR)$(bindir)$$dir" || exit $$?; \
+	    } \
+	; done
+
+uninstall-binPROGRAMS:
+	@$(NORMAL_UNINSTALL)
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	files=`for p in $$list; do echo "$$p"; done | \
+	  sed -e 'h;s,^.*/,,;s/$(EXEEXT)$$//;$(transform)' \
+	      -e 's/$$/$(EXEEXT)/' `; \
+	test -n "$$list" || exit 0; \
+	echo " ( cd '$(DESTDIR)$(bindir)' && rm -f" $$files ")"; \
+	cd "$(DESTDIR)$(bindir)" && rm -f $$files
+
+clean-binPROGRAMS:
+	@list='$(bin_PROGRAMS)'; test -n "$$list" || exit 0; \
+	echo " rm -f" $$list; \
+	rm -f $$list || exit $$?; \
+	test -n "$(EXEEXT)" || exit 0; \
+	list=`for p in $$list; do echo "$$p"; done | sed 's/$(EXEEXT)$$//'`; \
+	echo " rm -f" $$list; \
+	rm -f $$list
+HMW_test_1$(EXEEXT): $(HMW_test_1_OBJECTS) $(HMW_test_1_DEPENDENCIES) 
+	@rm -f HMW_test_1$(EXEEXT)
+	$(CXXLINK) $(HMW_test_1_OBJECTS) $(HMW_test_1_LDADD) $(LIBS)
+
+mostlyclean-compile:
+	-rm -f *.$(OBJEXT)
+
+distclean-compile:
+	-rm -f *.tab.c
+
+@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/HMW_test_1.Po@am__quote@
+
+.cpp.o:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
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+
+.cpp.obj:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ `$(CYGPATH_W) '$<'`
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
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+	-rm -rf .libs _libs
+
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+	list='$(SOURCES) $(HEADERS) $(LISP) $(TAGS_FILES)'; \
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+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
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+	mkid -fID $$unique
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+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
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+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
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+	shift; \
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+ctags: CTAGS
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+		$(TAGS_FILES) $(LISP)
+	list='$(SOURCES) $(HEADERS)  $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	test -z "$(CTAGS_ARGS)$$unique" \
+	  || $(CTAGS) $(CTAGSFLAGS) $(AM_CTAGSFLAGS) $(CTAGS_ARGS) \
+	     $$unique
+
+GTAGS:
+	here=`$(am__cd) $(top_builddir) && pwd` \
+	  && $(am__cd) $(top_srcdir) \
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+
+distclean-tags:
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+
+check-TESTS: $(TESTS)
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+	srcdir=$(srcdir); export srcdir; \
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+	$(am__tty_colors); \
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+	    else dir="$(srcdir)/"; fi; \
+	    if $(TESTS_ENVIRONMENT) $${dir}$$tst; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xpass=`expr $$xpass + 1`; \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=XPASS; \
+	      ;; \
+	      *) \
+		col=$$grn; res=PASS; \
+	      ;; \
+	      esac; \
+	    elif test $$? -ne 77; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xfail=`expr $$xfail + 1`; \
+		col=$$lgn; res=XFAIL; \
+	      ;; \
+	      *) \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=FAIL; \
+	      ;; \
+	      esac; \
+	    else \
+	      skip=`expr $$skip + 1`; \
+	      col=$$blu; res=SKIP; \
+	    fi; \
+	    echo "$${col}$$res$${std}: $$tst"; \
+	  done; \
+	  if test "$$all" -eq 1; then \
+	    tests="test"; \
+	    All=""; \
+	  else \
+	    tests="tests"; \
+	    All="All "; \
+	  fi; \
+	  if test "$$failed" -eq 0; then \
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+	      banner="$$All$$all $$tests passed"; \
+	    else \
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+	      banner="$$All$$all $$tests behaved as expected ($$xfail expected $$failures)"; \
+	    fi; \
+	  else \
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+	    else \
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+	      banner="$$failed of $$all $$tests did not behave as expected ($$xpass unexpected $$passes)"; \
+	    fi; \
+	  fi; \
+	  dashes="$$banner"; \
+	  skipped=""; \
+	  if test "$$skip" -ne 0; then \
+	    if test "$$skip" -eq 1; then \
+	      skipped="($$skip test was not run)"; \
+	    else \
+	      skipped="($$skip tests were not run)"; \
+	    fi; \
+	    test `echo "$$skipped" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$skipped"; \
+	  fi; \
+	  report=""; \
+	  if test "$$failed" -ne 0 && test -n "$(PACKAGE_BUGREPORT)"; then \
+	    report="Please report to $(PACKAGE_BUGREPORT)"; \
+	    test `echo "$$report" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$report"; \
+	  fi; \
+	  dashes=`echo "$$dashes" | sed s/./=/g`; \
+	  if test "$$failed" -eq 0; then \
+	    echo "$$grn$$dashes"; \
+	  else \
+	    echo "$$red$$dashes"; \
+	  fi; \
+	  echo "$$banner"; \
+	  test -z "$$skipped" || echo "$$skipped"; \
+	  test -z "$$report" || echo "$$report"; \
+	  echo "$$dashes$$std"; \
+	  test "$$failed" -eq 0; \
+	else :; fi
+
+distdir: $(DISTFILES)
+	@srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	topsrcdirstrip=`echo "$(top_srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	list='$(DISTFILES)'; \
+	  dist_files=`for file in $$list; do echo $$file; done | \
+	  sed -e "s|^$$srcdirstrip/||;t" \
+	      -e "s|^$$topsrcdirstrip/|$(top_builddir)/|;t"`; \
+	case $$dist_files in \
+	  */*) $(MKDIR_P) `echo "$$dist_files" | \
+			   sed '/\//!d;s|^|$(distdir)/|;s,/[^/]*$$,,' | \
+			   sort -u` ;; \
+	esac; \
+	for file in $$dist_files; do \
+	  if test -f $$file || test -d $$file; then d=.; else d=$(srcdir); fi; \
+	  if test -d $$d/$$file; then \
+	    dir=`echo "/$$file" | sed -e 's,/[^/]*$$,,'`; \
+	    if test -d "$(distdir)/$$file"; then \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    if test -d $(srcdir)/$$file && test $$d != $(srcdir); then \
+	      cp -fpR $(srcdir)/$$file "$(distdir)$$dir" || exit 1; \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    cp -fpR $$d/$$file "$(distdir)$$dir" || exit 1; \
+	  else \
+	    test -f "$(distdir)/$$file" \
+	    || cp -p $$d/$$file "$(distdir)/$$file" \
+	    || exit 1; \
+	  fi; \
+	done
+check-am: all-am
+	$(MAKE) $(AM_MAKEFLAGS) check-TESTS
+check: check-am
+all-am: Makefile $(PROGRAMS)
+installdirs:
+	for dir in "$(DESTDIR)$(bindir)"; do \
+	  test -z "$$dir" || $(MKDIR_P) "$$dir"; \
+	done
+install: install-am
+install-exec: install-exec-am
+install-data: install-data-am
+uninstall: uninstall-am
+
+install-am: all-am
+	@$(MAKE) $(AM_MAKEFLAGS) install-exec-am install-data-am
+
+installcheck: installcheck-am
+install-strip:
+	$(MAKE) $(AM_MAKEFLAGS) INSTALL_PROGRAM="$(INSTALL_STRIP_PROGRAM)" \
+	  install_sh_PROGRAM="$(INSTALL_STRIP_PROGRAM)" INSTALL_STRIP_FLAG=-s \
+	  `test -z '$(STRIP)' || \
+	    echo "INSTALL_PROGRAM_ENV=STRIPPROG='$(STRIP)'"` install
+mostlyclean-generic:
+
+clean-generic:
+
+distclean-generic:
+	-test -z "$(CONFIG_CLEAN_FILES)" || rm -f $(CONFIG_CLEAN_FILES)
+	-test . = "$(srcdir)" || test -z "$(CONFIG_CLEAN_VPATH_FILES)" || rm -f $(CONFIG_CLEAN_VPATH_FILES)
+
+maintainer-clean-generic:
+	@echo "This command is intended for maintainers to use"
+	@echo "it deletes files that may require special tools to rebuild."
+clean: clean-am
+
+clean-am: clean-binPROGRAMS clean-generic clean-libtool mostlyclean-am
+
+distclean: distclean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+distclean-am: clean-am distclean-compile distclean-generic \
+	distclean-tags
+
+dvi: dvi-am
+
+dvi-am:
+
+html: html-am
+
+html-am:
+
+info: info-am
+
+info-am:
+
+install-data-am:
+
+install-dvi: install-dvi-am
+
+install-dvi-am:
+
+install-exec-am: install-binPROGRAMS
+
+install-html: install-html-am
+
+install-html-am:
+
+install-info: install-info-am
+
+install-info-am:
+
+install-man:
+
+install-pdf: install-pdf-am
+
+install-pdf-am:
+
+install-ps: install-ps-am
+
+install-ps-am:
+
+installcheck-am:
+
+maintainer-clean: maintainer-clean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+maintainer-clean-am: distclean-am maintainer-clean-generic
+
+mostlyclean: mostlyclean-am
+
+mostlyclean-am: mostlyclean-compile mostlyclean-generic \
+	mostlyclean-libtool
+
+pdf: pdf-am
+
+pdf-am:
+
+ps: ps-am
+
+ps-am:
+
+uninstall-am: uninstall-binPROGRAMS
+
+.MAKE: check-am install-am install-strip
+
+.PHONY: CTAGS GTAGS all all-am check check-TESTS check-am clean \
+	clean-binPROGRAMS clean-generic clean-libtool ctags distclean \
+	distclean-compile distclean-generic distclean-libtool \
+	distclean-tags distdir dvi dvi-am html html-am info info-am \
+	install install-am install-binPROGRAMS install-data \
+	install-data-am install-dvi install-dvi-am install-exec \
+	install-exec-am install-html install-html-am install-info \
+	install-info-am install-man install-pdf install-pdf-am \
+	install-ps install-ps-am install-strip installcheck \
+	installcheck-am installdirs maintainer-clean \
+	maintainer-clean-generic mostlyclean mostlyclean-compile \
+	mostlyclean-generic mostlyclean-libtool pdf pdf-am ps ps-am \
+	tags uninstall uninstall-am uninstall-binPROGRAMS
 
 
-# C++ compile flags
-CXX_FLAGS = @CXXFLAGS@ $(DEBUG_FLAG)
-
-# Ending C++ linking libraries
-LCXX_END_LIBS = @LCXX_END_LIBS@
-
-# the directory where the Cantera libraries are located
-CANTERA_LIBDIR=@buildlib@
-
-# required Cantera libraries
-CANTERA_LIBS = @LOCAL_LIBS@ -lctcxx
-
-# Dependencies for CANTERA_LIBS
-CANTERA_LIBS_DEP = @LOCAL_LIBS_DEP@ $(CANTERA_LIBDIR)/libctcxx.a
-
-# the directory where Cantera include files may be found.
-CANTERA_INCDIR=@ctroot@/build/include/cantera
-INCLUDES=-I$(CANTERA_INCDIR) -I$(CANTERA_INCDIR)/kernel
-
-# flags passed to the C++ compiler/linker for the linking step
-LCXX_FLAGS = -L$(CANTERA_LIBDIR) @LOCAL_LIB_DIRS@ @CXXFLAGS@
-
-# How to compile C++ source files to object files
-.@CXX_EXT@.@OBJ_EXT@:
-	$(PURIFY) $(CXX) -c $< $(INCLUDES) $(CXX_FLAGS)
-
-# How to compile the dependency file
-.cpp.d:
-	@CXX_DEPENDS@ $(INCLUDES) $(CXX_FLAGS) $*.cpp > $*.d
-
-# List of dependency files to be created
-DEPENDS=$(OBJS:.o=.d)
-
-# Program Name
-PROGRAM = $(PROG_NAME)$(EXE_EXT)
-
-all: $(PROGRAM) .depends 
-
-$(PROGRAM): $(OBJS) $(CANTERA_LIBS_DEP)
-	$(PURIFY) $(CXX) -o $(PROGRAM) $(OBJS) $(LCXX_FLAGS) $(LINK_OPTIONS) \
-                  $(CANTERA_LIBS) @LIBS@ $(FORT_LIBS) \
-                  $(LCXX_END_LIBS)
-
-# Add an additional target for stability:
-$(OBJS):  $(CANTERA_LIBDIR)/libctbase.a $(CANTERA_LIBDIR)/libthermo.a
-
-
-# depends target -> forces recalculation of dependencies
-depends:
-	@MAKE@ .depends
-
-.depends: $(DEPENDS)
-	cat $(DEPENDS) > .depends
-
-# Do the test -> For the windows vc++ environment, we have to skip checking on
-#                whether the program is uptodate, because we don't utilize make
-#                in that environment to build programs.
-test:
-ifeq ($(os_is_win), 1)
-else
-	@ @MAKE@ -s $(PROGRAM)
-endif
-	@ ./runtest
-
-clean:
-	$(RM) $(OBJS) $(PROGRAM) $(DEPENDS) .depends
-	../../../bin/rm_cvsignore
-	(if test -d SunWS_cache ; then \
-           $(RM) -rf SunWS_cache ; \
-         fi )
-
-ifeq ($(wildcard .depends), .depends)
-include .depends
-endif
-
+# Tell versions [3.59,3.63) of GNU make to not export all variables.
+# Otherwise a system limit (for SysV at least) may be exceeded.
+.NOEXPORT:
diff --git a/test_problems/cathermo/HMW_test_3/Makefile.am b/test_problems/cathermo/HMW_test_3/Makefile.am
new file mode 100644
index 000000000..8836282e9
--- /dev/null
+++ b/test_problems/cathermo/HMW_test_3/Makefile.am
@@ -0,0 +1,23 @@
+cc_sources = HMW_test_3.cpp
+
+INC                  = -I. -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera -I$(top_builddir)/build/include/cantera/kernel
+AM_CPPFLAGS          = $(INC)
+AM_CXXFLAGS          = $(AM_CPPFLAGS)
+
+LINK                 = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport -lthermo 
+LINK                += -lctnumerics -lctmath -ltpx -lctspectra -lconverters -lctbase -lcvode 
+LINK                += -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS           = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+LIBS                 =  $(LINK)
+
+bin_PROGRAMS         = HMW_test_3
+library_includedir   = $(INC)
+
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+
+HMW_test_3_SOURCES = $(cc_sources)
+
+TESTS_ENVIRONMENT = 
+TESTS             = runtest
diff --git a/test_problems/cathermo/HMW_test_3/Makefile.in b/test_problems/cathermo/HMW_test_3/Makefile.in
index a535d3067..776f610a3 100644
--- a/test_problems/cathermo/HMW_test_3/Makefile.in
+++ b/test_problems/cathermo/HMW_test_3/Makefile.in
@@ -1,119 +1,659 @@
-#!/bin/sh
+# Makefile.in generated by automake 1.11.1 from Makefile.am.
+# @configure_input@
 
-############################################################################
-#
-#  Makefile to compile and link a C++ application to 
-#  Cantera.
-#
-#############################################################################
+# Copyright (C) 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002,
+# 2003, 2004, 2005, 2006, 2007, 2008, 2009  Free Software Foundation,
+# Inc.
+# This Makefile.in is free software; the Free Software Foundation
+# gives unlimited permission to copy and/or distribute it,
+# with or without modifications, as long as this notice is preserved.
 
-# addition to suffixes
-.SUFFIXES : .d
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY, to the extent permitted by law; without
+# even the implied warranty of MERCHANTABILITY or FITNESS FOR A
+# PARTICULAR PURPOSE.
 
-# the name of the executable program to be created
-PROG_NAME = HMW_test_3
+@SET_MAKE@
 
-# the object files to be linked together. List those generated from Fortran
-# and from C/C++ separately
-OBJS = HMW_test_3.o
-
-# additional flags to be passed to the linker. If your program
-# requires other external libraries, put them here
-LINK_OPTIONS = @EXTRA_LINK@
-
-#############################################################################
-
-# Check to see whether we are in the msvc++ environment
-os_is_win = @OS_IS_WIN@
-
-# Fortran libraries
-ifeq (@build_with_f2c@, 0)
-FORT_LIBS = @FLIBS@
-else
-FORT_LIBS =
-endif
-
-# the C++ compiler
+VPATH = @srcdir@
+pkgdatadir = $(datadir)/@PACKAGE@
+pkgincludedir = $(includedir)/@PACKAGE@
+pkglibdir = $(libdir)/@PACKAGE@
+pkglibexecdir = $(libexecdir)/@PACKAGE@
+am__cd = CDPATH="$${ZSH_VERSION+.}$(PATH_SEPARATOR)" && cd
+install_sh_DATA = $(install_sh) -c -m 644
+install_sh_PROGRAM = $(install_sh) -c
+install_sh_SCRIPT = $(install_sh) -c
+INSTALL_HEADER = $(INSTALL_DATA)
+transform = $(program_transform_name)
+NORMAL_INSTALL = :
+PRE_INSTALL = :
+POST_INSTALL = :
+NORMAL_UNINSTALL = :
+PRE_UNINSTALL = :
+POST_UNINSTALL = :
+build_triplet = @build@
+host_triplet = @host@
+bin_PROGRAMS = HMW_test_3$(EXEEXT)
+subdir = test_problems/cathermo/HMW_test_3
+DIST_COMMON = README $(srcdir)/Makefile.am $(srcdir)/Makefile.in
+ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
+am__aclocal_m4_deps = $(top_srcdir)/m4/common/ax_prog_doxygen.m4 \
+	$(top_srcdir)/m4/common/ax_split_version.m4 \
+	$(top_srcdir)/m4/config_summary.m4 $(top_srcdir)/m4/libtool.m4 \
+	$(top_srcdir)/m4/ltoptions.m4 $(top_srcdir)/m4/ltsugar.m4 \
+	$(top_srcdir)/m4/ltversion.m4 $(top_srcdir)/m4/lt~obsolete.m4 \
+	$(top_srcdir)/configure.ac
+am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
+	$(ACLOCAL_M4)
+mkinstalldirs = $(install_sh) -d
+CONFIG_HEADER = $(top_builddir)/config.h
+CONFIG_CLEAN_FILES =
+CONFIG_CLEAN_VPATH_FILES =
+am__installdirs = "$(DESTDIR)$(bindir)"
+PROGRAMS = $(bin_PROGRAMS)
+am__objects_1 = HMW_test_3.$(OBJEXT)
+am_HMW_test_3_OBJECTS = $(am__objects_1)
+HMW_test_3_OBJECTS = $(am_HMW_test_3_OBJECTS)
+HMW_test_3_LDADD = $(LDADD)
+DEFAULT_INCLUDES = -I.@am__isrc@ -I$(top_builddir)
+depcomp = $(SHELL) $(top_srcdir)/build-aux/depcomp
+am__depfiles_maybe = depfiles
+am__mv = mv -f
+CXXCOMPILE = $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) \
+	$(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS)
+LTCXXCOMPILE = $(LIBTOOL) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) \
+	--mode=compile $(CXX) $(DEFS) $(DEFAULT_INCLUDES) $(INCLUDES) \
+	$(AM_CPPFLAGS) $(CPPFLAGS) $(AM_CXXFLAGS) $(CXXFLAGS)
+CXXLD = $(CXX)
+CXXLINK = $(LIBTOOL) --tag=CXX $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) \
+	--mode=link $(CXXLD) $(AM_CXXFLAGS) $(CXXFLAGS) $(AM_LDFLAGS) \
+	$(LDFLAGS) -o $@
+SOURCES = $(HMW_test_3_SOURCES)
+DIST_SOURCES = $(HMW_test_3_SOURCES)
+ETAGS = etags
+CTAGS = ctags
+am__tty_colors = \
+red=; grn=; lgn=; blu=; std=
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+AMTAR = @AMTAR@
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+GENERIC_VERSION = @GENERIC_VERSION@
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+INSTALL = @INSTALL@
+INSTALL_DATA = @INSTALL_DATA@
+INSTALL_PROGRAM = @INSTALL_PROGRAM@
+INSTALL_SCRIPT = @INSTALL_SCRIPT@
+INSTALL_STRIP_PROGRAM = @INSTALL_STRIP_PROGRAM@
+LD = @LD@
+LDFLAGS = @LDFLAGS@
+LIBOBJS = @LIBOBJS@
+LIBS = $(LINK)
+LIBTOOL = @LIBTOOL@
+LIPO = @LIPO@
+LN_S = @LN_S@
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+build_vendor = @build_vendor@
+builddir = @builddir@
+datadir = @datadir@
+datarootdir = @datarootdir@
+docdir = @docdir@
+dvidir = @dvidir@
+exec_prefix = @exec_prefix@
+host = @host@
+host_alias = @host_alias@
+host_cpu = @host_cpu@
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+host_vendor = @host_vendor@
+htmldir = @htmldir@
+includedir = @includedir@
+infodir = @infodir@
+install_sh = @install_sh@
+libdir = @libdir@
+libexecdir = @libexecdir@
+localedir = @localedir@
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+lt_ECHO = @lt_ECHO@
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+mkdir_p = @mkdir_p@
+oldincludedir = @oldincludedir@
+pdfdir = @pdfdir@
+prefix = @prefix@
+program_transform_name = @program_transform_name@
+psdir = @psdir@
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+sharedstatedir = @sharedstatedir@
+srcdir = @srcdir@
+sysconfdir = @sysconfdir@
+target_alias = @target_alias@
+top_build_prefix = @top_build_prefix@
+top_builddir = @top_builddir@
+top_srcdir = @top_srcdir@
+cc_sources = HMW_test_3.cpp
+INC = -I. -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera -I$(top_builddir)/build/include/cantera/kernel
+AM_CPPFLAGS = $(INC)
+AM_CXXFLAGS = $(AM_CPPFLAGS)
+LINK = -lctcxx -luser -loneD -lzeroD -lequil -lkinetics -ltransport \
+	-lthermo -lctnumerics -lctmath -ltpx -lctspectra -lconverters \
+	-lctbase -lcvode -lctlapack -lctblas -lctf2c -lm -lstdc++
+AM_LDFLAGS = -L/workspace/src/cantera/pecos_autotools/build/lib/ 
+library_includedir = $(INC)
 
-do_DEBUG_MODE = @CANTERA_DEBUG_MODE@
-ifeq ($(do_DEBUG_MODE), 1)
-DDD = -DDEBUG_MODE
-else
-DDD =
-endif
+#-----------------------
+# Cantera DH graph test
+#-----------------------
+HMW_test_3_SOURCES = $(cc_sources)
+TESTS_ENVIRONMENT = 
+TESTS = runtest
+all: all-am
 
-# C++ compile flags
-CXX_FLAGS = @CXXFLAGS@ $(DDD)
+.SUFFIXES:
+.SUFFIXES: .cpp .lo .o .obj
+$(srcdir)/Makefile.in:  $(srcdir)/Makefile.am  $(am__configure_deps)
+	@for dep in $?; do \
+	  case '$(am__configure_deps)' in \
+	    *$$dep*) \
+	      ( cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh ) \
+	        && { if test -f $@; then exit 0; else break; fi; }; \
+	      exit 1;; \
+	  esac; \
+	done; \
+	echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu test_problems/cathermo/HMW_test_3/Makefile'; \
+	$(am__cd) $(top_srcdir) && \
+	  $(AUTOMAKE) --gnu test_problems/cathermo/HMW_test_3/Makefile
+.PRECIOUS: Makefile
+Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status
+	@case '$?' in \
+	  *config.status*) \
+	    cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh;; \
+	  *) \
+	    echo ' cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe)'; \
+	    cd $(top_builddir) && $(SHELL) ./config.status $(subdir)/$@ $(am__depfiles_maybe);; \
+	esac;
 
-# Ending C++ linking libraries
-LCXX_END_LIBS = @LCXX_END_LIBS@
+$(top_builddir)/config.status: $(top_srcdir)/configure $(CONFIG_STATUS_DEPENDENCIES)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
 
-# the directory where the Cantera libraries are located
-CANTERA_LIBDIR=@buildlib@
+$(top_srcdir)/configure:  $(am__configure_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(ACLOCAL_M4):  $(am__aclocal_m4_deps)
+	cd $(top_builddir) && $(MAKE) $(AM_MAKEFLAGS) am--refresh
+$(am__aclocal_m4_deps):
+install-binPROGRAMS: $(bin_PROGRAMS)
+	@$(NORMAL_INSTALL)
+	test -z "$(bindir)" || $(MKDIR_P) "$(DESTDIR)$(bindir)"
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	for p in $$list; do echo "$$p $$p"; done | \
+	sed 's/$(EXEEXT)$$//' | \
+	while read p p1; do if test -f $$p || test -f $$p1; \
+	  then echo "$$p"; echo "$$p"; else :; fi; \
+	done | \
+	sed -e 'p;s,.*/,,;n;h' -e 's|.*|.|' \
+	    -e 'p;x;s,.*/,,;s/$(EXEEXT)$$//;$(transform);s/$$/$(EXEEXT)/' | \
+	sed 'N;N;N;s,\n, ,g' | \
+	$(AWK) 'BEGIN { files["."] = ""; dirs["."] = 1 } \
+	  { d=$$3; if (dirs[d] != 1) { print "d", d; dirs[d] = 1 } \
+	    if ($$2 == $$4) files[d] = files[d] " " $$1; \
+	    else { print "f", $$3 "/" $$4, $$1; } } \
+	  END { for (d in files) print "f", d, files[d] }' | \
+	while read type dir files; do \
+	    if test "$$dir" = .; then dir=; else dir=/$$dir; fi; \
+	    test -z "$$files" || { \
+	    echo " $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files '$(DESTDIR)$(bindir)$$dir'"; \
+	    $(INSTALL_PROGRAM_ENV) $(LIBTOOL) $(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=install $(INSTALL_PROGRAM) $$files "$(DESTDIR)$(bindir)$$dir" || exit $$?; \
+	    } \
+	; done
 
-# required Cantera libraries
-CANTERA_LIBS = @LOCAL_LIBS@ -lctcxx
+uninstall-binPROGRAMS:
+	@$(NORMAL_UNINSTALL)
+	@list='$(bin_PROGRAMS)'; test -n "$(bindir)" || list=; \
+	files=`for p in $$list; do echo "$$p"; done | \
+	  sed -e 'h;s,^.*/,,;s/$(EXEEXT)$$//;$(transform)' \
+	      -e 's/$$/$(EXEEXT)/' `; \
+	test -n "$$list" || exit 0; \
+	echo " ( cd '$(DESTDIR)$(bindir)' && rm -f" $$files ")"; \
+	cd "$(DESTDIR)$(bindir)" && rm -f $$files
 
-# Dependencies for CANTERA_LIBS
-CANTERA_LIBS_DEP = @LOCAL_LIBS_DEP@ $(CANTERA_LIBDIR)/libctcxx.a
+clean-binPROGRAMS:
+	@list='$(bin_PROGRAMS)'; test -n "$$list" || exit 0; \
+	echo " rm -f" $$list; \
+	rm -f $$list || exit $$?; \
+	test -n "$(EXEEXT)" || exit 0; \
+	list=`for p in $$list; do echo "$$p"; done | sed 's/$(EXEEXT)$$//'`; \
+	echo " rm -f" $$list; \
+	rm -f $$list
+HMW_test_3$(EXEEXT): $(HMW_test_3_OBJECTS) $(HMW_test_3_DEPENDENCIES) 
+	@rm -f HMW_test_3$(EXEEXT)
+	$(CXXLINK) $(HMW_test_3_OBJECTS) $(HMW_test_3_LDADD) $(LIBS)
 
-# the directory where Cantera include files may be found.
-CANTERA_INCDIR=@ctroot@/build/include/cantera
-INCLUDES=-I$(CANTERA_INCDIR) -I$(CANTERA_INCDIR)/kernel
+mostlyclean-compile:
+	-rm -f *.$(OBJEXT)
 
-# flags passed to the C++ compiler/linker for the linking step
-LCXX_FLAGS = -L$(CANTERA_LIBDIR) @LOCAL_LIB_DIRS@ @CXXFLAGS@
+distclean-compile:
+	-rm -f *.tab.c
 
-# How to compile C++ source files to object files
-.@CXX_EXT@.@OBJ_EXT@:
-	$(CXX) -c $< $(INCLUDES) $(CXX_FLAGS)
+@AMDEP_TRUE@@am__include@ @am__quote@./$(DEPDIR)/HMW_test_3.Po@am__quote@
 
-# How to compile the dependency file
-.cpp.d:
-	@CXX_DEPENDS@ $(INCLUDES) $(CXX_FLAGS) $*.cpp > $*.d
+.cpp.o:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=no @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(CXXCOMPILE) -c -o $@ $<
 
-# List of dependency files to be created
-DEPENDS=$(OBJS:.o=.d)
+.cpp.obj:
+@am__fastdepCXX_TRUE@	$(CXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ `$(CYGPATH_W) '$<'`
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Po
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=no @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(CXXCOMPILE) -c -o $@ `$(CYGPATH_W) '$<'`
 
-# Program Name
-PROGRAM = $(PROG_NAME)$(EXE_EXT)
+.cpp.lo:
+@am__fastdepCXX_TRUE@	$(LTCXXCOMPILE) -MT $@ -MD -MP -MF $(DEPDIR)/$*.Tpo -c -o $@ $<
+@am__fastdepCXX_TRUE@	$(am__mv) $(DEPDIR)/$*.Tpo $(DEPDIR)/$*.Plo
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	source='$<' object='$@' libtool=yes @AMDEPBACKSLASH@
+@AMDEP_TRUE@@am__fastdepCXX_FALSE@	DEPDIR=$(DEPDIR) $(CXXDEPMODE) $(depcomp) @AMDEPBACKSLASH@
+@am__fastdepCXX_FALSE@	$(LTCXXCOMPILE) -c -o $@ $<
 
-all: .depends $(PROGRAM) 
+mostlyclean-libtool:
+	-rm -f *.lo
 
-$(PROGRAM): $(OBJS) $(CANTERA_LIBS_DEP)
-	$(CXX) -o $(PROGRAM) $(OBJS) $(LCXX_FLAGS) $(LINK_OPTIONS) \
-                  $(CANTERA_LIBS) @LIBS@ $(FORT_LIBS) \
-                  $(LCXX_END_LIBS)
+clean-libtool:
+	-rm -rf .libs _libs
 
-# Add an additional target for stability:
-$(OBJS):  $(CANTERA_LIBDIR)/libctbase.a $(CANTERA_LIBDIR)/libthermo.a
+ID: $(HEADERS) $(SOURCES) $(LISP) $(TAGS_FILES)
+	list='$(SOURCES) $(HEADERS) $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	mkid -fID $$unique
+tags: TAGS
 
-# depends target -> forces recalculation of dependencies
-depends:
-	@MAKE@ .depends
+TAGS:  $(HEADERS) $(SOURCES)  $(TAGS_DEPENDENCIES) \
+		$(TAGS_FILES) $(LISP)
+	set x; \
+	here=`pwd`; \
+	list='$(SOURCES) $(HEADERS)  $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	shift; \
+	if test -z "$(ETAGS_ARGS)$$*$$unique"; then :; else \
+	  test -n "$$unique" || unique=$$empty_fix; \
+	  if test $$# -gt 0; then \
+	    $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
+	      "$$@" $$unique; \
+	  else \
+	    $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
+	      $$unique; \
+	  fi; \
+	fi
+ctags: CTAGS
+CTAGS:  $(HEADERS) $(SOURCES)  $(TAGS_DEPENDENCIES) \
+		$(TAGS_FILES) $(LISP)
+	list='$(SOURCES) $(HEADERS)  $(LISP) $(TAGS_FILES)'; \
+	unique=`for i in $$list; do \
+	    if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+	  done | \
+	  $(AWK) '{ files[$$0] = 1; nonempty = 1; } \
+	      END { if (nonempty) { for (i in files) print i; }; }'`; \
+	test -z "$(CTAGS_ARGS)$$unique" \
+	  || $(CTAGS) $(CTAGSFLAGS) $(AM_CTAGSFLAGS) $(CTAGS_ARGS) \
+	     $$unique
 
-.depends: $(DEPENDS)
-	cat $(DEPENDS) > .depends
+GTAGS:
+	here=`$(am__cd) $(top_builddir) && pwd` \
+	  && $(am__cd) $(top_srcdir) \
+	  && gtags -i $(GTAGS_ARGS) "$$here"
 
-# Do the test -> For the windows vc++ environment, we have to skip checking on
-#                whether the program is uptodate, because we don't utilize make
-#                in that environment to build programs.
-test:
-ifeq ($(os_is_win), 1)
-else
-	@ @MAKE@ -s $(PROGRAM)
-endif
-	@ ./runtest
+distclean-tags:
+	-rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH tags
 
-clean:
-	$(RM) $(OBJS) $(PROGRAM) $(DEPENDS) .depends
-	../../../bin/rm_cvsignore
-	(if test -d SunWS_cache ; then \
-           $(RM) -rf SunWS_cache ; \
-         fi )
+check-TESTS: $(TESTS)
+	@failed=0; all=0; xfail=0; xpass=0; skip=0; \
+	srcdir=$(srcdir); export srcdir; \
+	list=' $(TESTS) '; \
+	$(am__tty_colors); \
+	if test -n "$$list"; then \
+	  for tst in $$list; do \
+	    if test -f ./$$tst; then dir=./; \
+	    elif test -f $$tst; then dir=; \
+	    else dir="$(srcdir)/"; fi; \
+	    if $(TESTS_ENVIRONMENT) $${dir}$$tst; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xpass=`expr $$xpass + 1`; \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=XPASS; \
+	      ;; \
+	      *) \
+		col=$$grn; res=PASS; \
+	      ;; \
+	      esac; \
+	    elif test $$? -ne 77; then \
+	      all=`expr $$all + 1`; \
+	      case " $(XFAIL_TESTS) " in \
+	      *[\ \	]$$tst[\ \	]*) \
+		xfail=`expr $$xfail + 1`; \
+		col=$$lgn; res=XFAIL; \
+	      ;; \
+	      *) \
+		failed=`expr $$failed + 1`; \
+		col=$$red; res=FAIL; \
+	      ;; \
+	      esac; \
+	    else \
+	      skip=`expr $$skip + 1`; \
+	      col=$$blu; res=SKIP; \
+	    fi; \
+	    echo "$${col}$$res$${std}: $$tst"; \
+	  done; \
+	  if test "$$all" -eq 1; then \
+	    tests="test"; \
+	    All=""; \
+	  else \
+	    tests="tests"; \
+	    All="All "; \
+	  fi; \
+	  if test "$$failed" -eq 0; then \
+	    if test "$$xfail" -eq 0; then \
+	      banner="$$All$$all $$tests passed"; \
+	    else \
+	      if test "$$xfail" -eq 1; then failures=failure; else failures=failures; fi; \
+	      banner="$$All$$all $$tests behaved as expected ($$xfail expected $$failures)"; \
+	    fi; \
+	  else \
+	    if test "$$xpass" -eq 0; then \
+	      banner="$$failed of $$all $$tests failed"; \
+	    else \
+	      if test "$$xpass" -eq 1; then passes=pass; else passes=passes; fi; \
+	      banner="$$failed of $$all $$tests did not behave as expected ($$xpass unexpected $$passes)"; \
+	    fi; \
+	  fi; \
+	  dashes="$$banner"; \
+	  skipped=""; \
+	  if test "$$skip" -ne 0; then \
+	    if test "$$skip" -eq 1; then \
+	      skipped="($$skip test was not run)"; \
+	    else \
+	      skipped="($$skip tests were not run)"; \
+	    fi; \
+	    test `echo "$$skipped" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$skipped"; \
+	  fi; \
+	  report=""; \
+	  if test "$$failed" -ne 0 && test -n "$(PACKAGE_BUGREPORT)"; then \
+	    report="Please report to $(PACKAGE_BUGREPORT)"; \
+	    test `echo "$$report" | wc -c` -le `echo "$$banner" | wc -c` || \
+	      dashes="$$report"; \
+	  fi; \
+	  dashes=`echo "$$dashes" | sed s/./=/g`; \
+	  if test "$$failed" -eq 0; then \
+	    echo "$$grn$$dashes"; \
+	  else \
+	    echo "$$red$$dashes"; \
+	  fi; \
+	  echo "$$banner"; \
+	  test -z "$$skipped" || echo "$$skipped"; \
+	  test -z "$$report" || echo "$$report"; \
+	  echo "$$dashes$$std"; \
+	  test "$$failed" -eq 0; \
+	else :; fi
 
-ifeq ($(wildcard .depends), .depends)
-include .depends
-endif
+distdir: $(DISTFILES)
+	@srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	topsrcdirstrip=`echo "$(top_srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
+	list='$(DISTFILES)'; \
+	  dist_files=`for file in $$list; do echo $$file; done | \
+	  sed -e "s|^$$srcdirstrip/||;t" \
+	      -e "s|^$$topsrcdirstrip/|$(top_builddir)/|;t"`; \
+	case $$dist_files in \
+	  */*) $(MKDIR_P) `echo "$$dist_files" | \
+			   sed '/\//!d;s|^|$(distdir)/|;s,/[^/]*$$,,' | \
+			   sort -u` ;; \
+	esac; \
+	for file in $$dist_files; do \
+	  if test -f $$file || test -d $$file; then d=.; else d=$(srcdir); fi; \
+	  if test -d $$d/$$file; then \
+	    dir=`echo "/$$file" | sed -e 's,/[^/]*$$,,'`; \
+	    if test -d "$(distdir)/$$file"; then \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    if test -d $(srcdir)/$$file && test $$d != $(srcdir); then \
+	      cp -fpR $(srcdir)/$$file "$(distdir)$$dir" || exit 1; \
+	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
+	    fi; \
+	    cp -fpR $$d/$$file "$(distdir)$$dir" || exit 1; \
+	  else \
+	    test -f "$(distdir)/$$file" \
+	    || cp -p $$d/$$file "$(distdir)/$$file" \
+	    || exit 1; \
+	  fi; \
+	done
+check-am: all-am
+	$(MAKE) $(AM_MAKEFLAGS) check-TESTS
+check: check-am
+all-am: Makefile $(PROGRAMS)
+installdirs:
+	for dir in "$(DESTDIR)$(bindir)"; do \
+	  test -z "$$dir" || $(MKDIR_P) "$$dir"; \
+	done
+install: install-am
+install-exec: install-exec-am
+install-data: install-data-am
+uninstall: uninstall-am
 
+install-am: all-am
+	@$(MAKE) $(AM_MAKEFLAGS) install-exec-am install-data-am
+
+installcheck: installcheck-am
+install-strip:
+	$(MAKE) $(AM_MAKEFLAGS) INSTALL_PROGRAM="$(INSTALL_STRIP_PROGRAM)" \
+	  install_sh_PROGRAM="$(INSTALL_STRIP_PROGRAM)" INSTALL_STRIP_FLAG=-s \
+	  `test -z '$(STRIP)' || \
+	    echo "INSTALL_PROGRAM_ENV=STRIPPROG='$(STRIP)'"` install
+mostlyclean-generic:
+
+clean-generic:
+
+distclean-generic:
+	-test -z "$(CONFIG_CLEAN_FILES)" || rm -f $(CONFIG_CLEAN_FILES)
+	-test . = "$(srcdir)" || test -z "$(CONFIG_CLEAN_VPATH_FILES)" || rm -f $(CONFIG_CLEAN_VPATH_FILES)
+
+maintainer-clean-generic:
+	@echo "This command is intended for maintainers to use"
+	@echo "it deletes files that may require special tools to rebuild."
+clean: clean-am
+
+clean-am: clean-binPROGRAMS clean-generic clean-libtool mostlyclean-am
+
+distclean: distclean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+distclean-am: clean-am distclean-compile distclean-generic \
+	distclean-tags
+
+dvi: dvi-am
+
+dvi-am:
+
+html: html-am
+
+html-am:
+
+info: info-am
+
+info-am:
+
+install-data-am:
+
+install-dvi: install-dvi-am
+
+install-dvi-am:
+
+install-exec-am: install-binPROGRAMS
+
+install-html: install-html-am
+
+install-html-am:
+
+install-info: install-info-am
+
+install-info-am:
+
+install-man:
+
+install-pdf: install-pdf-am
+
+install-pdf-am:
+
+install-ps: install-ps-am
+
+install-ps-am:
+
+installcheck-am:
+
+maintainer-clean: maintainer-clean-am
+	-rm -rf ./$(DEPDIR)
+	-rm -f Makefile
+maintainer-clean-am: distclean-am maintainer-clean-generic
+
+mostlyclean: mostlyclean-am
+
+mostlyclean-am: mostlyclean-compile mostlyclean-generic \
+	mostlyclean-libtool
+
+pdf: pdf-am
+
+pdf-am:
+
+ps: ps-am
+
+ps-am:
+
+uninstall-am: uninstall-binPROGRAMS
+
+.MAKE: check-am install-am install-strip
+
+.PHONY: CTAGS GTAGS all all-am check check-TESTS check-am clean \
+	clean-binPROGRAMS clean-generic clean-libtool ctags distclean \
+	distclean-compile distclean-generic distclean-libtool \
+	distclean-tags distdir dvi dvi-am html html-am info info-am \
+	install install-am install-binPROGRAMS install-data \
+	install-data-am install-dvi install-dvi-am install-exec \
+	install-exec-am install-html install-html-am install-info \
+	install-info-am install-man install-pdf install-pdf-am \
+	install-ps install-ps-am install-strip installcheck \
+	installcheck-am installdirs maintainer-clean \
+	maintainer-clean-generic mostlyclean mostlyclean-compile \
+	mostlyclean-generic mostlyclean-libtool pdf pdf-am ps ps-am \
+	tags uninstall uninstall-am uninstall-binPROGRAMS
+
+
+# Tell versions [3.59,3.63) of GNU make to not export all variables.
+# Otherwise a system limit (for SysV at least) may be exceeded.
+.NOEXPORT:
diff --git a/test_problems/cathermo/Makefile.am b/test_problems/cathermo/Makefile.am
index d83de99a5..008e6e775 100644
--- a/test_problems/cathermo/Makefile.am
+++ b/test_problems/cathermo/Makefile.am
@@ -1,5 +1,5 @@
-SUBDIRS  = DH_graph_1 DH_graph_acommon DH_graph_bdotak/ DH_graph_Pitzer/ DH_graph_NM/ HMW_dupl_test/ HMW_graph_CpvT
-#SUBDIRS +=
+SUBDIRS  = DH_graph_1 DH_graph_acommon DH_graph_bdotak DH_graph_Pitzer DH_graph_NM HMW_dupl_test HMW_graph_CpvT
+SUBDIRS += HMW_graph_CpvT HMW_graph_GvT HMW_graph_VvT HMW_test_3 HMW_graph_GvI HMW_graph_HvT HMW_test_1    
 
-#  HMW_graph_CpvT/  HMW_graph_GvT/  HMW_graph_VvT/  HMW_test_3/  issp/     Makefile.am  stoichSubSSTP/  testIAPWSPres/   testWaterPDSS/  VPissp/
-#  HMW_graph_GvI/   HMW_graph_HvT/  HMW_test_1/     ims/         Makefile  Makefile.in  testIAPWS/      testIAPWSTripP/  testWaterTP/    wtWater/
+#  issp/     Makefile.am  stoichSubSSTP/  testIAPWSPres/   testWaterPDSS/  VPissp/
+#  ims/         Makefile  Makefile.in  testIAPWS/      testIAPWSTripP/  testWaterTP/    wtWater/