 #include <vector>
 #include <algorithm>
 
-//#define SSWLIB
-#if defined(SSWLIB)
-#include "ssw.h"
-#include <omp.h>
-#endif
+enum { MAX_READ_LENGTH = 1024 };
 
 using namespace nvbio;
 

                    nvbio::plain_view( score_dvec ) );
            }
        }

        #if defined(SSWLIB)
        if (TEST_MASK & SSW)

// sw-benchmark.cu
//

//
// This project supports comparisons against multi-core SSE-enabled CPUs using
// conditional compilation of the SSW library:
//
//  https://github.com/mengyao/Complete-Striped-Smith-Waterman-Library
//
// In order to perform these additional tests, the user must download ssw.h and ssw.c
// from the above repository, copy them in the sw-benchmark directory, and run cmake with
// the option -DSSWLIB=ON.
//
#if defined(SSWLIB)
#include "ssw.h"
#include <omp.h>
#endif

#include <nvbio/basic/timer.h>
#include <nvbio/basic/console.h>
#include <nvbio/basic/cuda/ldg.h>
