1 files changed, 0 insertions, 170 deletions
diff --git a/benchmarks/CUDA/MUM/mummergpu.h b/benchmarks/CUDA/MUM/mummergpu.h
deleted file mode 100644
index 875d3b7..0000000
--- a/benchmarks/CUDA/MUM/mummergpu.h
+++ /dev/null
@@ -1,170 +0,0 @@
-#include <stdlib.h>
-#include "common.cu"
-
-extern "C" {
-struct QuerySet
-{
-	  int qfile;
-
-	  char * h_tex_array;
-	  char* d_tex_array;	
-	  int* d_addrs_tex_array; 
-	  int* h_addrs_tex_array;
-	  int* h_lengths_array;
-	  int* d_lengths_array;
-	  char** h_names;
-
-	  unsigned int count; 
-	  size_t texlen;
-
-	  // total device memory occupied by this query set
-	  size_t bytes_on_board;
-};
-
-
-struct AuxiliaryNodeData
-{
-	  int length;
-	  int depth;
-	  int leafid;
-      char leafchar;
-      TextureAddress parent;
-};
-
-
-struct Reference
-{
-	  /* Reference string */
-	  char* str;
-	  size_t len;
-
-	  unsigned int pitch;
-  	  void* d_ref_tex_array;  //cudaArray*
- 	  char* h_ref_tex_array;
- 
-	  /* Suffix tree for reference */
-	  void* d_node_tex_array;  //really a cudaArray*
-	  void* h_node_tex_array;  //really a PixelOfNode*	  
-	  
-	  void* d_children_tex_array; //cudaArray*
-	  void* h_children_tex_array; //PixelOfChildren*	  
-
-	  unsigned int tex_height;
-	  unsigned int tex_width;
-
-	  // total device memory occupied by this query set
-	  size_t bytes_on_board;
-
-	  AuxiliaryNodeData* aux_data;
-	  int num_nodes;
-
-};
-
-
-// Matches are reported as a node in the suffix tree,
-// plus a distance up the node's parent link for partial 
-// matches on the patch from the root to the node
-
-struct MatchCoord
-{
-	  unsigned int node; // match node
-	  short edge_match_length;  // number of missing characters UP the parent edge
-};
-
-struct MatchResults
-{	  
-	  // Each MatchCoord in the buffers below corresponds to the first character
-	  // of some substring of one of the queries
-	  MatchCoord* d_match_coords;
-	  MatchCoord* h_match_coords;
-
-	  size_t numCoords;
-
-	  // total device memory occupied by this query set
-	  size_t bytes_on_board;
-};
-
-typedef unsigned int MUMMERGPU_OPTIONS;
-
-enum MUMMerGPUOption {
-   DEFAULT,
-   ON_CPU = (1<<0)
-};
-
-//All times in milliseconds
-struct Statistics
-{
-	  float t_kernel;
-	  float t_output;
-      float t_to_board;
-      float t_from_board;
-	  float t_moving_tree_pages;
-	  float t_query_read;
-	  float t_total;
-	  float t_construction;
-
-	  float bp_avg_query_length;
-};
-
-struct MatchContext
-{
-	  char* full_ref;
-	  size_t full_ref_len;
-
-	  Reference* ref;
-	  QuerySet* queries;
-	  MatchResults results;
-
-	  bool on_cpu;
-
-	  int min_match_length;
-
-      bool reverse;
-      bool forwardreverse;
-      bool forwardcoordinates;
-      bool show_query_length;
-      bool maxmatch;
-
-	  char* stats_file;
-
-	  Statistics statistics;
-};
-
-
-struct ReferencePage
-{
-	  int begin;
-	  int end;
-	  int shadow_left;
-	  int shadow_right;
-	  MatchResults results;
-	  unsigned int id;
-	  Reference ref;
-};
-
-
-int createReference(const char* fromFile, Reference* ref);
-int destroyReference(Reference* ref);
-
-int createQuerySet(const char* fromFile, QuerySet* queries);
-int destroyQuerySet(QuerySet* queries);
-
-int createMatchContext(Reference* ref,
-					   QuerySet* queries,
-					   MatchResults* matches,
-					   MUMMERGPU_OPTIONS options,
-					   int min_match_length,
-					   char* stats_file,
-                       bool reverse,
-                       bool forwardreverse,
-                       bool forwardcoordinates,
-                       bool showQueryLength,
-					   MatchContext* ctx);
-
-int destroyMatchContext(MatchContext* ctx);
-
-
-int matchQueries(MatchContext* ctx);
-				 
-void printStringForError(int err);
-}