X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=sources%2Fmulticoil%2Finterface.h;fp=sources%2Fmulticoil%2Finterface.h;h=c32ab3c8142cb5c7dd7b24aac2f7fa515d2c9390;hb=81362e35a140cd040e948b921053e74267f8a6e3;hp=0000000000000000000000000000000000000000;hpb=2cf032f4b987ba747c04159965aed78e3820d942;p=jpred.git

diff --git a/sources/multicoil/interface.h b/sources/multicoil/interface.h
new file mode 100644
index 0000000..c32ab3c
--- /dev/null
+++ b/sources/multicoil/interface.h
@@ -0,0 +1,70 @@
+#define NUMBER_METHODS 7
+#define NUMBER_PREPROCESSORS 5
+#define MAX_ALGOR_NUMBER 32
+#define USABLE_ALGOR_NUMBER 32   /* MAX_TABLE_NUMBER*8  where 8 is from      */
+                                 /* 4 methods with 2 possible "offset types" */
+/*#define USABLE_ALGOR_NUMBER 8 */  /* 4 methods with 2 possible "offset types" */
+
+
+#define LENGTH_OF_COIL 0   /** For the dimer-trimer likelihood algorithm. */
+#define ONCE_PER_COIL 1
+
+    /*  Currently: DimerTrimerSingle, DimerTrimerPair,
+                   TableDiffSingle where score coil once
+                   TableDiffSingle where score coil length coil times
+                   TableDiffPair where score coil once
+                   TableDiffPair where score coil lenth coil times for like. */
+
+/** Think of Single=0, Once=0, Length=1, Pair=2 and just add up.... **/
+/*
+enum {TableDiffSingleOnce, TableDiffSingleLength,
+	TableDiffPairOnce, TableDiffPairLength,
+	DTSingleLike, DTPairLike};
+*/
+
+enum {TDRes, TDCoil};     /*  For computing which number likelihood line to 
+			         use in TableDiff method. */
+                          /* The algorithm line number is 2*TD? + pairs. */
+
+enum {MultiCoil, PairCoil, NEWCOILS, HMMCoil, ActualCoil, 
+	/** TableDiffRes, TableDiffCoil, **/
+	PairCoilDiff, PairCoilDiffAvg, STOCK_PAIR};
+
+/*  Can use pairs or singles for first 3.  Singles for PairCoil is NEWCOIL. */
+enum {Raw, Percent};
+
+extern char *methodname[];
+extern int main_method;
+ 
+/******The following are declared in sc2seq_interface.c ****/
+extern double many_pprobs[MAX_TABLE_NUMBER][NUM_RES_TYPE][POSNUM], 
+        many_pprobp[MAX_TABLE_NUMBER][NUM_RES_TYPE][NUM_RES_TYPE][POSNUM][POSNUM];
+extern double many_weights[MAX_TABLE_NUMBER][AANUM][POSNUM],
+             many_weightp[MAX_TABLE_NUMBER][AANUM][AANUM][POSNUM][POSNUM];
+
+
+extern double (*pprobs)[POSNUM];
+extern double (*pprobp)[NUM_RES_TYPE][POSNUM][POSNUM];
+extern double (*weights)[POSNUM];
+extern double (*weightp)[AANUM][POSNUM][POSNUM];
+/*********************************************************/
+
+void output_seq(char lib[MAXFUNCTNUM],
+		char multi_lib[MAX_TABLE_NUMBER][MAXFUNCTNUM],
+		double *m,double *b,
+		double *m_single, double *b_single, 
+		int mode, 
+		double log_bound,FILE *flog, 
+		FILE *fout_coils,
+		FILE *fout,  
+		int avg_max,
+		int main_method, int main_preprocessor_method,
+		int main_table);
+
+
+
+
+
+
+
+