X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=dmat.h;fp=dmat.h;h=1c2be5501f8951f3d61ca38a3319a343204d26d1;hb=51d85e945d26324e50d6406829ce006ccc9eb1c0;hp=0000000000000000000000000000000000000000;hpb=6e81846c8e5b2614f6b06643a9f558fb0e6669fa;p=mothur.git

diff --git a/dmat.h b/dmat.h
new file mode 100644
index 0000000..1c2be55
--- /dev/null
+++ b/dmat.h
@@ -0,0 +1,91 @@
+/*
+ * dmat.h
+ *
+ * $Id$
+ *
+ *****************************************************************************
+ *
+ * Copyright (c) 2004,  Luke Sheneman
+ * All rights reserved.
+ *
+ * Redistribution and use in source and binary forms, with or without 
+ * modification, are permitted provided that the following conditions 
+ * are met:
+ * 
+ *  + Redistributions of source code must retain the above copyright 
+ *    notice, this list of conditions and the following disclaimer. 
+ *  + Redistributions in binary form must reproduce the above copyright 
+ *    notice, this list of conditions and the following disclaimer in 
+ *    the documentation and/or other materials provided with the 
+ *    distribution. 
+ *  + The names of its contributors may not be used to endorse or promote 
+ *    products derived  from this software without specific prior 
+ *    written permission. 
+ *
+ * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" 
+ * AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE 
+ * IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE 
+ * ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE 
+ * LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR 
+ * CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF 
+ * SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS 
+ * INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN 
+ * CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) 
+ * ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE 
+ * POSSIBILITY OF SUCH DAMAGE.  
+ *
+ *****************************************************************************
+ *
+ * Distance matrix parser header file
+ *
+ *****************************************************************************
+ *
+ * AUTHOR:
+ * 
+ *   Luke Sheneman
+ *   sheneman@cs.uidaho.edu
+ */
+
+
+#ifndef _INC_DMAT_H_
+#define _INC_DMAT_H_ 1
+
+#include "clearcut.h"
+
+
+#define NJ_INITIAL_BUFSIZE 32
+
+#define NJ_NAME_STATE  100
+#define NJ_FLOAT_STATE 101
+#define NJ_WS_STATE    102
+#define NJ_EOF_STATE   103
+
+#define NJ_PARSE_SYMMETRIC 100
+#define NJ_PARSE_LOWER     101
+#define NJ_PARSE_UPPER     102
+#define NJ_PARSE_UNKNOWN   103
+
+
+/* some data structures */
+typedef struct _NJ_DIST_TOKEN_STRUCT {
+  
+  char *buf;
+  long int bufsize;
+  int type;
+
+} NJ_DIST_TOKEN;
+
+
+
+/* some function prototypes */
+
+DMAT *
+NJ_parse_distance_matrix(NJ_ARGS *nj_args);
+
+void
+NJ_output_matrix(NJ_ARGS *nj_args,
+		 DMAT *dmat);
+
+
+#endif /* _INC_DMAT_H_ */
+