suachar_t changed to int

concordia/concordia_index.cpp

@@ -37,7 +37,7 @@ void ConcordiaIndex::generateSuffixArray() {
                                              ios::ate|ios::binary);
 
     /* Get the file size. */
-    long n = hashedIndexFile.tellg();
+    long n = hashedIndexFile.tellg() / sizeof(sauchar_t);
 
     sauchar_t *T;
     saidx_t *SA;

concordia/index_searcher.cpp

@@ -38,11 +38,17 @@ void IndexSearcher::loadIndex(const string & wordMapFilepath,
     ifstream hashedIndexFile;
     hashedIndexFile.open(hashedIndexFilepath.c_str(), ios::in
                                                 | ios::ate | ios::binary);
-    _n = hashedIndexFile.tellg();
+    _n = hashedIndexFile.tellg() / sizeof(sauchar_t);
     _T = new sauchar_t[_n];
 
     hashedIndexFile.seekg(0, ios::beg);
-    hashedIndexFile.read(reinterpret_cast<char*> (_T), _n);
+    sauchar_t sauchar_buff;
+    int pos = 0;
+    while (!hashedIndexFile.eof()) {
+        hashedIndexFile.read(reinterpret_cast<char *>(&sauchar_buff),
+                                                 sizeof(sauchar_t));
+        _T[pos++] = sauchar_buff;
+    }
     hashedIndexFile.close();
 
     _SA = new saidx_t[_n];
@@ -50,11 +56,11 @@ void IndexSearcher::loadIndex(const string & wordMapFilepath,
     ifstream suffixArrayFile;
     suffixArrayFile.open(suffixArrayFilepath.c_str(), ios::in | ios::binary);
 
-    saidx_t buff;
-    int pos = 0;
+    saidx_t saidx_buff;
+    pos = 0;
     while (!suffixArrayFile.eof() && pos < _n) {
-        suffixArrayFile.read(reinterpret_cast<char *>(&buff), sizeof(saidx_t));
-        _SA[pos++] = buff;
+        suffixArrayFile.read(reinterpret_cast<char *>(&saidx_buff), sizeof(saidx_t));
+        _SA[pos++] = saidx_buff;
     }
     suffixArrayFile.close();
 }
@@ -72,8 +78,7 @@ vector<saidx_t> IndexSearcher::simpleSearch(const string & pattern)
                                           it != hash.end(); ++it) {
         patternArray[i] = *it;
         i++;
-    }
-
+    }    
     int size = sa_search(_T, (saidx_t) _n,
                (const sauchar_t *) patternArray, patternLength,
                _SA, (saidx_t) _n, &left);

concordia/t/CMakeLists.txt

@@ -1,10 +1,10 @@
 add_library(concordia-tests
-  test_concordia.cpp
-  test_concordia_config.cpp
   test_word_map.cpp
   test_hash_generator.cpp
   test_concordia_index.cpp
   test_index_searcher.cpp
+  test_concordia_config.cpp
+  test_concordia.cpp
   )
 
 target_link_libraries(concordia-tests concordia ${LIBCONFIG_LIB} concordia-tests-common)

concordia/t/test_concordia_index.cpp

@@ -11,16 +11,8 @@ using namespace std;
 
 BOOST_AUTO_TEST_SUITE(concordia_index)
 
+
 BOOST_AUTO_TEST_CASE( ResourcesExistenceTest1 )
-{
-    ConcordiaIndex index(TestResourcesManager::getTestFilePath("concordia-index","mock_word_map.bin"),
-                         TestResourcesManager::getTestFilePath("concordia-index","mock_hash_index.bin"),
-                         TestResourcesManager::getTestFilePath("concordia-index","test_SA.bin"));
-                         
-}
-
-
-BOOST_AUTO_TEST_CASE( ResourcesExistenceTest2 )
 {
     bool exceptionThrown = false;
     string message = "";
@@ -38,7 +30,7 @@ BOOST_AUTO_TEST_CASE( ResourcesExistenceTest2 )
     BOOST_CHECK_EQUAL(boost::starts_with(message, "E01"), true);    
 }
 
-BOOST_AUTO_TEST_CASE( ResourcesExistenceTest3 )
+BOOST_AUTO_TEST_CASE( ResourcesExistenceTest2 )
 {
     bool exceptionThrown = false;
     string message = "";

libdivsufsort/include/CMakeLists.txt

@@ -56,18 +56,8 @@ endif(HAVE_INLINE)
 configure_file("${CMAKE_CURRENT_SOURCE_DIR}/config.h.cmake" "${CMAKE_CURRENT_BINARY_DIR}/config.h")
 
 ## Checks for types ##
-# sauchar_t (8bit)
-check_type_size("uint8_t" UINT8_T)
-if(HAVE_UINT8_T)
-  set(SAUCHAR_TYPE "uint8_t")
-else(HAVE_UINT8_T)
-  check_type_size("unsigned char" SIZEOF_UNSIGNED_CHAR)
-  if("${SIZEOF_UNSIGNED_CHAR}" STREQUAL "1")
-    set(SAUCHAR_TYPE "unsigned char")
-  else("${SIZEOF_UNSIGNED_CHAR}" STREQUAL "1")
-    message(FATAL_ERROR "Cannot find unsigned 8-bit integer type")
-  endif("${SIZEOF_UNSIGNED_CHAR}" STREQUAL "1")
-endif(HAVE_UINT8_T)
+# sauchar_t (32bit)
+set(SAUCHAR_TYPE "int")
 # saint_t (32bit)
 check_type_size("int32_t" INT32_T)
 if(HAVE_INT32_T)