Delete unneeded directory

[jabaws.git] / website / archive / binaries / mac / src / muscle / hydro.cpp

diff --git a/website/archive/binaries/mac/src/muscle/hydro.cpp b/website/archive/binaries/mac/src/muscle/hydro.cpp
deleted file mode 100644 (file)
index 30167bd..0000000
--- a/website/archive/binaries/mac/src/muscle/hydro.cpp
+++ /dev/null
@@ -1,42 +0,0 @@
-#include "muscle.h"\r
-#include "profile.h"\r
-\r
-extern void TomHydro(ProfPos *Prof, unsigned Length);\r
-\r
-// Apply hydrophobicity heuristic to a profile\r
-void Hydro(ProfPos *Prof, unsigned uLength)\r
-       {\r
-       if (ALPHA_Amino != g_Alpha)\r
-               return;\r
-\r
-       if (g_bTomHydro)\r
-               {\r
-               TomHydro(Prof, uLength);\r
-               return;\r
-               }\r
-\r
-       if (0 == g_uHydrophobicRunLength)\r
-               return;\r
-\r
-       if (uLength <= g_uHydrophobicRunLength)\r
-               return;\r
-\r
-       unsigned uRunLength = 0;\r
-       unsigned L2 = g_uHydrophobicRunLength/2;\r
-       for (unsigned uColIndex = L2; uColIndex < uLength - L2; ++uColIndex)\r
-               {\r
-               ProfPos &PP = Prof[uColIndex];\r
-               bool bHydro = IsHydrophobic(PP.m_fcCounts);\r
-               if (bHydro)\r
-                       {\r
-                       ++uRunLength;\r
-                       if (uRunLength >= g_uHydrophobicRunLength)\r
-                               {\r
-                               Prof[uColIndex-L2].m_scoreGapOpen *= (SCORE) g_dHydroFactor;\r
-                               Prof[uColIndex-L2].m_scoreGapClose *= (SCORE) g_dHydroFactor;\r
-                               }\r
-                       }\r
-               else\r
-                       uRunLength = 0;\r
-               }\r
-       }\r