add Cython version of orientation module to provide faster orientation calculation.

Makefile

@@ -19,14 +19,20 @@ marc:
 
 .PHONY: processing
 processing:
+	@if hash cython 2>/dev/null; then \
+		cd ./lib/damask; \
+		python setup_corientation.py build_ext --inplace; \
+		rm -rv build; \
+		rm *.c; \
+	fi
 	@./installation/compile_CoreModule.py ${MAKEFLAGS}
 
 .PHONY: tidy
-tidy: 
+tidy:
 	@$(MAKE) tidy -C code >/dev/null
 
 .PHONY: clean
-clean: 
+clean:
 	@$(MAKE) clean -C code >/dev/null
 
 .PHONY: install

lib/damask/__init__.py

@@ -7,9 +7,13 @@ from .environment import Environment      # only one class
 from .asciitable  import ASCIItable       # only one class
 from .config      import Material         # will be extended to debug and numerics
 from .colormaps   import Colormap, Color
-from .orientation import Quaternion, Rodrigues, Symmetry, Orientation
+try:
+    from .corientation import Quaternion, Rodrigues, Symmetry, Orientation
+    print "Import Cython version of Orientation module"
+except:
+    from .orientation import Quaternion, Rodrigues, Symmetry, Orientation
 #from .block       import Block           # only one class
-from .result      import Result           # only one class 
+from .result      import Result           # only one class
 from .geometry    import Geometry         # one class with subclasses
 from .solver      import Solver           # one class with subclasses
 from .test        import Test
@@ -31,6 +35,7 @@ try:
   core.debug.init                    = core.debug.debug_init
   core.math.init                     = core.math.math_init
   core.math.periodicNearestNeighbor  = core.math.math_periodicNearestNeighbor
+  core.math.barycentricInterpolate   = core.math.math_barycentricInterpolate
   core.math.periodicNearestNeighborDistances  = core.math.math_periodicNearestNeighborDistances
   core.math.tensorAvg                = core.math.math_tensorAvg
   core.FEsolving.init                = core.FEsolving.FE_init

lib/damask/setup_corientation.py

@@ -0,0 +1,16 @@
+#!/usr/bin/env python
+# -*- coding: UTF-8 no BOM -*-
+
+from distutils.core import setup
+from distutils.extension import Extension
+from Cython.Distutils import build_ext
+import numpy as np
+
+ext = [Extension("corientation", ["corientation.pyx"])]
+
+setup(
+      name="corientation",
+      include_dirs=[np.get_include()],
+      cmdclass = {'build_ext': build_ext},
+      ext_modules=ext
+)