Merge branch 'optimizations' into 'master'

Optimizations

See merge request !6

COPYING

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+If the disclaimer of warranty and limitation of liability provided
+above cannot be given local legal effect according to their terms,
+reviewing courts shall apply local law that most closely approximates
+an absolute waiver of all civil liability in connection with the
+Program, unless a warranty or assumption of liability accompanies a
+copy of the Program in return for a fee.
+
+ END OF TERMS AND CONDITIONS
+
+How to Apply These Terms to Your New Programs
+
+If you develop a new program, and you want it to be of the greatest
+possible use to the public, the best way to achieve this is to make it
+free software which everyone can redistribute and change under these terms.
+
+To do so, attach the following notices to the program.  It is safest
+to attach them to the start of each source file to most effectively
+state the exclusion of warranty; and each file should have at least
+the "copyright" line and a pointer to where the full notice is found.
+
+<one line to give the program's name and a brief idea of what it does.>
+Copyright (C) <year>  <name of author>
+
+This program is free software: you can redistribute it and/or modify
+it under the terms of the GNU General Public License as published by
+the Free Software Foundation, either version 3 of the License, or
+(at your option) any later version.
+
+This program is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty of
+MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+GNU General Public License for more details.
+
+You should have received a copy of the GNU General Public License
+along with this program.  If not, see <http://www.gnu.org/licenses/>.
+
+Also add information on how to contact you by electronic and paper mail.
+
+If the program does terminal interaction, make it output a short
+notice like this when it starts in an interactive mode:
+
+<program>  Copyright (C) <year>  <name of author>
+This program comes with ABSOLUTELY NO WARRANTY; for details type `show w'.
+This is free software, and you are welcome to redistribute it
+under certain conditions; type `show c' for details.
+
+The hypothetical commands `show w' and `show c' should show the appropriate
+parts of the General Public License.  Of course, your program's commands
+might be different; for a GUI interface, you would use an "about box".
+
+You should also get your employer (if you work as a programmer) or school,
+if any, to sign a "copyright disclaimer" for the program, if necessary.
+For more information on this, and how to apply and follow the GNU GPL, see
+<http://www.gnu.org/licenses/>.
+
+The GNU General Public License does not permit incorporating your program
+into proprietary programs.  If your program is a subroutine library, you
+may consider it more useful to permit linking proprietary applications with
+the library.  If this is what you want to do, use the GNU Lesser General
+Public License instead of this License.  But first, please read
+<http://www.gnu.org/philosophy/why-not-lgpl.html>.

MANIFEST.in

 include README.rst bootstrap-buildout.py buildout.cfg develop.cfg requirements.txt version.txt
 recursive-include doc *.py *.rst *.png *.ico
-recursive-include bob/ip/qualitymeasure/data *.mp4 *.jpg *.h5 *.hdf5
+recursive-include bob/ip/qualitymeasure/data *.mp4 *.jpg *.h5 *.hdf5 *.ppm

bob/ip/qualitymeasure/__init__.py

 #!/usr/bin/env python
 # vim: set fileencoding=utf-8 :
 
+from ._library import remove_highlights
 from .galbally_iqm_features import compute_quality_features
 from .msu_iqa_features import compute_msu_iqa_features
 
 
+
 def get_config():
     """
     Returns a string containing the configuration information.

bob/ip/qualitymeasure/main.cpp

+// include directly and indirectly dependent libraries
+#ifdef NO_IMPORT_ARRAY
+#undef NO_IMPORT_ARRAY
+#endif
+
+
+#include <bob.blitz/cppapi.h>
+#include <bob.blitz/cleanup.h>
+#include <bob.extension/documentation.h>
+
+
+// declare C++ function
+void remove_highlights(   blitz::Array<float ,3> &img,
+                          blitz::Array<float ,3> &diff,
+                          blitz::Array<float ,3> &sfi,
+                          blitz::Array<float ,3> &residue,
+                          float epsilon,
+                          bool  skip_diffuse,
+                          bool  check_nan_inf);
+
+// use the documentation classes to document the function
+static bob::extension::FunctionDoc remove_highlights_doc = bob::extension::FunctionDoc(
+  "remove_highlights",
+  "This function implements a specular highlight removal algorithm.",
+  "This function implements a specular highlight removal algorithm which, by \
+     using an iterative process, separates the specular component from the \
+     diffuse component of the picture. It returns a color incorect specular free \
+     image, the diffuse component and the specular residue, respectively. It is \
+     based on the original code by Robby T. Tan \
+     reference: \
+     separating reflection components of textured surfaces using a single image \
+     by Robby T. Tan, Katsushi Ikeuchi, \
+     IEEE Transactions on Pattern Analysis and Machine Intelligence (PAMI), \
+     27(2), pp.179-193, February, 2005"
+)
+.add_prototype("image", "specular_free_image, diffuse_image, specular_residue, epsilon")
+.add_parameter("image", "array_like (3D, float32)", "The image to process")
+.add_return("specular_free_image", "array_like (3D, float32)", "Specular free image with altered colors.")
+.add_return("diffuse_image", "array_like (3D, float32)", "Diffuse component image, free of specularity.")
+.add_return("specular_residue", "array_like (3D, float32)", "Specular residue of the image.")
+.add_return("epsilon", "float32", "Parameter that specifies the number of iterations.")
+;
+
+
+// declare the function
+static PyObject* PyRemoveHighlights(PyObject*, PyObject* args, PyObject* kwargs) {
+
+  BOB_TRY
+
+  static const char* const_kwlist[] =
+    {"array", "startEps", "skip_diffuse", "check_nan_inf", 0};
+  static char** kwlist = const_cast<char**>(const_kwlist);
+
+  PyBlitzArrayObject* array;
+  double  epsilon  = 0.5f;
+  bool    skip_diffuse  = false;
+  bool    check_nan_inf = false;
+
+  if (!PyArg_ParseTupleAndKeywords(args, kwargs, "O&|dii", kwlist,
+                                  &PyBlitzArray_Converter, &array,