Modernize "C" includes in mert.

This is one of those little chores in managing a long-lived C++
project: standard C headers like stdio.h and math.h now have their own
place in the C++ standard as resp. cstdio, cmath, and so on.  In this
branch the #include names are updated for the mert/ subdirectory; more
branches to follow.

C++11 adds cstdint, but to support compilation with the previous
standard, that change is left for later.

Author: Jeroen Vermeulen

mert/HypPackEnumerator.h

@@ -12,7 +12,7 @@
 #include <string>
 #include <vector>
 #include <utility>
-#include <stddef.h>
+#include <cstddef>
 
 #include "FeatureDataIterator.h"
 #include "ScoreDataIterator.h"

mert/MeteorScorer.cpp

@@ -6,7 +6,7 @@
 #include <iterator>
 #include <sstream>
 #include <stdexcept>
-#include <stdio.h>
+#include <cstdio>
 #include <string>
 #include <vector>
 

mert/Permutation.cpp

@@ -8,7 +8,7 @@
 
 #include <fstream>
 #include <sstream>
-#include <math.h>
+#include <cmath>
 #include "Permutation.h"
 #include "Util.h"
 

mert/PermutationScorer.h

@@ -10,7 +10,7 @@
 #include <stdexcept>
 #include <string>
 #include <vector>
-#include <limits.h>
+#include <climits>
 #include "Types.h"
 #include "ScoreData.h"
 #include "Scorer.h"

mert/TER/alignmentStruct.h

@@ -23,7 +23,7 @@ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
 
 
 #include <vector>
-#include <stdio.h>
+#include <cstdio>
 #include <string>
 #include <sstream>
 #include "tools.h"
@@ -64,4 +64,4 @@ class alignmentStruct
 };
 
 }
-#endif
+#endif

mert/TER/bestShiftStruct.h

@@ -23,7 +23,7 @@ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
 
 
 #include <vector>
-#include <stdio.h>
+#include <cstdio>
 #include <string>
 #include <sstream>
 #include "tools.h"

mert/TER/infosHasher.h

@@ -22,7 +22,7 @@ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
 #define __INFOSHASHER_H__
 #include <string>
 // #include <ext/hash_map>
-#include <stdio.h>
+#include <cstdio>
 #include <iostream>
 #include <sstream>
 #include <vector>
@@ -51,4 +51,4 @@ class infosHasher
 
 
 }
-#endif
+#endif

mert/TER/terAlignment.h

@@ -23,8 +23,8 @@ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
 
 
 #include <vector>
-#include <stdio.h>
-#include <string.h>
+#include <cstdio>
+#include <cstring>
 #include "tools.h"
 #include "terShift.h"
 
@@ -74,4 +74,4 @@ class terAlignment
 };
 
 }
-#endif
+#endif

mert/TER/terShift.h

@@ -23,7 +23,7 @@ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
 
 
 #include <vector>
-#include <stdio.h>
+#include <cstdio>
 #include <string>
 #include <sstream>
 #include "tools.h"
@@ -65,4 +65,4 @@ class terShift
 };
 
 }
-#endif
+#endif

mert/TER/tercalc.h

@@ -22,8 +22,8 @@ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
 #define _TERCPPTERCALC_H___
 
 #include <vector>
-#include <stdio.h>
-#include <string.h>
+#include <cstdio>
+#include <cstring>
 #include <sstream>
 #include "hashMap.h"
 #include "hashMapInfos.h"

mert/TER/tools.h

@@ -24,8 +24,8 @@ Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
 
 #include <vector>
 #include <iostream>
-#include <stdio.h>
-#include <stdlib.h>
+#include <cstdio>
+#include <cstdlib>
 #include <string>
 #include <sstream>
 #include <boost/xpressive/xpressive.hpp>

mert/evaluator.cpp

@@ -4,10 +4,10 @@
 #include <vector>
 #include <algorithm>
 #include <getopt.h>
-#include <math.h>
+#include <cmath>
 
 #if defined __MINGW32__
-#include <time.h>
+#include <ctime>
 #endif // defined
 
 #include "Scorer.h"