e9c75e7382c49565a3fae9791ab5da4f631debaa
angie
  Mon Feb 12 11:02:58 2018 -0800
In ad3a17645 I removed isAllDna from dnautil.c but not from dnautil.h - cleaned up now.

diff --git src/inc/dnautil.h src/inc/dnautil.h
index 5f249fa..882d411 100644
--- src/inc/dnautil.h
+++ src/inc/dnautil.h
@@ -249,33 +249,30 @@
  * noise to be trimmed too, but skips last two tt for revcomp'd taa stop 
  * codon.  
  * It is less conservative in extending the polyA region than maskHeadPolyT. */
 
 int maskTailPolyA(DNA *dna, int size);
 /* Convert PolyA at end to n.  This allows a few non-A's as noise to be 
  * trimmed too.  Returns number of bases trimmed.  */
 
 int maskHeadPolyT(DNA *dna, int size);
 /* Convert PolyT at start.  This allows a few non-T's as noise to be 
  * trimmed too.  Returns number of bases trimmed.  */
 
 boolean isDna(char *poly, int size);
 /* Return TRUE if letters in poly are at least 90% ACGTNU- */
 
-boolean isAllDna(char *poly, int size);
-/* Return TRUE if size is great than 1 and all letters in poly are 100% ACGTNU- */
-
 boolean isAllNt(char *seq, int size);
 /* Return TRUE if all letters in seq are ACGTNU-. */
 
 char aaAbbrToLetter(char *abbr);
 /* Convert an AA abbreviation such as "Ala", "Asp" etc., to its single letter code
  * such as "A", "D" etc.  Return the null char '\0' if abbr is not found. */
 
 void aaToAbbr(char aa, char *abbrBuf, size_t abbrBufSize);
 /* Convert an AA single letter such as "A", "D" etc. to its abbreviation such as "Ala", "Asp" etc.
  * abbrBufSize must be at least 4.  If aa is not found, "?%c?",aa is written into abbrBuf. */
 
 void trimRefAlt(char *ref, char *alt, uint *pStart, uint *pEnd, int *pRefLen, int *pAltLen);
 /* If ref and alt have identical bases at beginning and/or end, trim those & update all params. */
 
 #endif /* DNAUTIL_H */