Reorganized source tree structure

These changes make it unnecessary to copy header files around during
the build process, which tends to confuse IDEs and debuggers. The
headers which comprise Cantera's external C++ interface are now in
the 'include' directory.

All of the samples and demos are now in the 'samples' subdirectory.

Cantera/Makefile.am

@@ -1,4 +0,0 @@
-# $Id: $
-
-# will need to add python and matlab 
-SUBDIRS                 =  ext src user cxx

Cantera/README.txt

@@ -1,11 +0,0 @@
-
-This directory contains the source for Cantera and its various
-language interfaces.
-
-clib    -  the library of C-callable functions used by the Python and
-              Matlab interfaces.
-cxx     -  files that are only required for C++ application programs.
-matlab  -  the Cantera Matlab toolbox
-python  -  the Cantera Python package
-src     -  the Cantera kernel, used by Cantera in all its forms
-

Cantera/cxx/Makefile.am

@@ -1 +0,0 @@
-SUBDIRS = src

Cantera/cxx/src/Makefile.am

@@ -1,28 +0,0 @@
-h_sources               = 
-
-cc_sources              = importPhase.cpp
-
-AM_CPPFLAGS             = -I$(top_builddir)/build/include
-AM_CXXFLAGS             = $(AM_CPPFLAGS)
-
-lib_LTLIBRARIES         = $(top_builddir)/build/lib/libctcxx.la
-library_includedir      = $(top_builddir)/build/include
-library_include_HEADERS = $(h_sources)
-
-#-----------------------
-# Cantera Converters C/C++ library
-#-----------------------
-
-__top_builddir__build_lib_libctcxx_la_LDFLAGS      = $(all_libraries) -release $(GENERIC_RELEASE)
-__top_builddir__build_lib_libctcxx_la_SOURCES      = $(cc_sources) $(h_sources)
-
-__top_builddir__build_lib_libctcxx_include_HEADERS = $(h_sources)
-__top_builddir__build_lib_libctcxx_includedir = $(prefix)/include
-
-
-# header file accumulation
-all:
-	@echo copying headers $<
-	cp -p *.h $(top_builddir)/build/include/
-
-CLEANFILES = *.o

Cantera/user/Makefile.am

@@ -1,17 +0,0 @@
-cc_sources              = user.cpp
-
-AM_CPPFLAGS             = -I$(top_builddir)/build/include/ -I$(top_builddir)/build/include/cantera
-AM_CXXFLAGS             = $(AM_CPPFLAGS)
-
-lib_LTLIBRARIES         = $(top_builddir)/build/lib/libuser.la
-library_includedir      = $(top_builddir)/build/include
-library_include_HEADERS = $(h_sources)
-
-#-----------------------
-# Cantera Converters C/C++ library
-#-----------------------
-
-__top_builddir__build_lib_libuser_la_LDFLAGS      = $(all_libraries) -release $(GENERIC_RELEASE)
-__top_builddir__build_lib_libuser_la_SOURCES      = $(cc_sources) $(h_sources)
-
-CLEANFILES = *.o

apps/README.txt

@@ -1,8 +0,0 @@
-This directory is for applications that are not part of Cantera
-itself, but may be distributed with Cantera.
-
-Contents:
-
-MixMaster --  A graphical control panel for viewing mixture properties 
-              (Python)
-