remove mafft extensions - we do not support them

[jabaws.git] / binaries / src / mafft / extensions / mxscarna_src / GlobalParameters.cpp

diff --git a/binaries/src/mafft/extensions/mxscarna_src/GlobalParameters.cpp b/binaries/src/mafft/extensions/mxscarna_src/GlobalParameters.cpp
deleted file mode 100644 (file)
index 4d32c8e..0000000
--- a/binaries/src/mafft/extensions/mxscarna_src/GlobalParameters.cpp
+++ /dev/null
@@ -1,27 +0,0 @@
-//////////////////////////////////////////////////////////////
-// GlobalParameters.cpp
-// This file include Global Parameters, command line options, etc.
-//////////////////////////////////////////////////////////////
-
-#include "scarna.hpp"
-
-// These paramenters are defined in scarna.hpp
-
-float RNA_Match_AA      = RNAMATCHAA;
-float RNA_Match_AT      = RNAMATCHAT;
-float RNA_Match_AG      = RNAMATCHAG;
-float RNA_Match_AC      = RNAMATCHAC;
-float RNA_Match_TT      = RNAMATCHTT;
-float RNA_Match_TG      = RNAMATCHTG;
-float RNA_Match_TC      = RNAMATCHTC;
-float RNA_Match_GG      = RNAMATCHGG;
-float RNA_Match_GC      = RNAMATCHGC;
-float RNA_Match_CC      = RNAMATCHCC;
-float RNA_Gap_Penalty   = GAPPENALTY;
-float RNA_Gap_Extension = GAPEXTENTIONPENALTY;
-
-int   numIterativeRefinementReps = REFINEMENTREPS;
-bool  PostProcessAlignment = false;
-int   scsLength = SCSLENGTH;
-float BaseProbThreshold = BASEPROBTHRESHOLD;
-float BasePairConst     = BASEPAIRCONST;