90339aa1d74677c8180a416e9361280acfab9caa
markd
  Tue Aug 16 19:23:22 2016 -0700
fix compilation error with C99 style inline used by default by clang on OS/X

diff --git src/aladdin/aladdin/aladdin.c src/aladdin/aladdin/aladdin.c
index ae921e8..62976c0 100644
--- src/aladdin/aladdin/aladdin.c
+++ src/aladdin/aladdin/aladdin.c
@@ -317,43 +317,43 @@
     curScores[destState] = newScore; \
     allStates[destState][dnaIx] = parent; \
     }
 
 #define source(sourceState, emitScore) \
     if ((oneScore = transProbLookup[sourceState][destState] + emitScore + prevScores[sourceState]) > newScore) \
         { \
         newScore = oneScore; \
         parent = sourceState; \
         }
 
 typedef int Mark0[5];
 typedef int Mark1[5][5];
 typedef int Mark2[5][5][5];
 
-inline int prob0(Mark0 m, DNA base)
+static inline int prob0(Mark0 m, DNA base)
 /* Return probability of base considering 0 before */
 {
 return m[ntVal[(int)base]+1];
 }
 
-inline int prob1(Mark1 m, DNA *dna)
+static inline int prob1(Mark1 m, DNA *dna)
 /* Return probability of base considering 1 before */
 {
 return m[ntVal[(int)dna[-1]]+1][ntVal[(int)dna[0]]+1];
 }
 
-inline int prob2(Mark2 m, DNA *dna)
+static inline int prob2(Mark2 m, DNA *dna)
 /* Return probability of base considering 2 before */
 {
 return m[ntVal[(int)dna[-2]]+1][ntVal[(int)dna[-1]]+1][ntVal[(int)dna[0]]+1];
 }
 
 void makeM2Ig(Mark2 m, int unlikely)
 /* Make approximation of intergenic. */
 {
 int i,j;
 
 for (i=0; i<5; i++)
     {
     for (j=0; j<5; j++)
         {
         m[i][j][A_BASE_VAL+1] = m[i][j][T_BASE_VAL+1] = scaledLog(0.32);