Changeset 873 for trunk/yat/utility/Alignment.h

Timestamp:

Sep 18, 2007, 3:14:38 AM (16 years ago)

Author:

Peter

Message:

fixing some docs

File:

• trunk/yat/utility/Alignment.h (modified) (1 diff)

trunk/yat/utility/Alignment.h

@@ -72 +72 @@
      whichever maximises the similarity measure.
 
-     \param s score matrix in which element $(i,j)$ is the score between
-     element $i$ in first sequence vs element $j$ in second sequence.
+     \param s score matrix in which element \f$(i,j)\f$ is the score between
+     element \f$i\f$ in first sequence vs element \f$j\f$ in second sequence.
      \param gap cost for having a gap (insertion or deletion)
      \param open_gap cost for open up a gap in sequence, in other words, for a
-     gap of length $l$ the total cost is $open_gap + l*gap$.
+     gap of length \f$l\f$ the total cost is \f$open_gap + l*gap\f$.
    */
   double SmithWaterman(const utility::matrix& s,