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#include "common.hpp"
#include "sdsl/suffix_arrays.hpp"
#include "gtest/gtest.h"
#include <cstdlib>
#include <vector>
#include <string>
#include <algorithm>
namespace
{
using namespace sdsl;
using namespace std;
typedef int_vector<>::size_type size_type;
tMSS test_case_file_map;
string test_file;
uint8_t num_bytes;
string temp_file;
string temp_dir;
template<class T>
class csa_int_test : public ::testing::Test { };
using testing::Types;
#ifdef FULL_TEST_SUITE
typedef Types<
csa_wt<wt_int<>, 32, 32, sa_order_sa_sampling<>, isa_sampling<>, int_alphabet<>>,
csa_sada<enc_vector<>, 32, 32, sa_order_sa_sampling<>, isa_sampling<>, int_alphabet<>>,
csa_bitcompressed<int_alphabet<>>,
csa_wt<wt_int<rrr_vector<63> >, 8, 8, sa_order_sa_sampling<>, isa_sampling<>, int_alphabet<>>,
csa_wt<wt_int<>, 16, 16, text_order_sa_sampling<>, text_order_isa_sampling_support<>, int_alphabet<>>,
csa_sada<enc_vector<>, 32, 32, text_order_sa_sampling<>, isa_sampling<>, int_alphabet<>>
> Implementations;
#else
typedef Types<
csa_wt<wt_int<>, 32, 32, sa_order_sa_sampling<>, isa_sampling<>, int_alphabet<>>,
csa_sada<enc_vector<>, 32, 32, sa_order_sa_sampling<>, isa_sampling<>, int_alphabet<>>,
csa_bitcompressed<int_alphabet<>>
> Implementations;
#endif
TYPED_TEST_CASE(csa_int_test, Implementations);
TYPED_TEST(csa_int_test, create_and_store)
{
static_assert(sdsl::util::is_regular<TypeParam>::value, "Type is not regular");
TypeParam csa;
std::string temp_file2 = sdsl::tmp_file(temp_dir+"/"+util::basename(test_file),util::basename(test_file));
cache_config config(false, temp_dir, util::basename(temp_file2));
construct(csa, test_file, config, num_bytes);
test_case_file_map = config.file_map;
ASSERT_TRUE(store_to_file(csa, temp_file));
}
//! Test access methods
TYPED_TEST(csa_int_test, sigma)
{
TypeParam csa;
ASSERT_TRUE(load_from_file(csa, temp_file));
int_vector<> text;
load_vector_from_file(text, test_file, num_bytes);
text.resize(text.size()+1);
text[text.size()-1] = 0; // add 0-character at the end
size_type n = text.size();
ASSERT_EQ(n, csa.size());
std::set<uint64_t> occur;
size_type sigma = 0;
for (size_type j=0; j<n; ++j) {
if (occur.end() == occur.find(text[j])) {
occur.insert(text[j]);
++sigma;
}
}
ASSERT_EQ(sigma, csa.sigma);
}
//! Test suffix array access methods
TYPED_TEST(csa_int_test, sa_access)
{
TypeParam csa;
ASSERT_TRUE(load_from_file(csa, temp_file));
int_vector<> sa;
load_from_file(sa, test_case_file_map[conf::KEY_SA]);
size_type n = sa.size();
ASSERT_EQ(n, csa.size());
for (size_type j=0; j<n; ++j) {
ASSERT_EQ(sa[j], csa[j])<<" j="<<j;
}
}
//! Test inverse suffix access methods
TYPED_TEST(csa_int_test, isa_access)
{
TypeParam csa;
ASSERT_TRUE(load_from_file(csa, temp_file));
int_vector<> isa;
size_type n = 0;
{
int_vector<> sa;
load_from_file(sa, test_case_file_map[conf::KEY_SA]);
n = sa.size();
ASSERT_EQ(n, csa.size());
isa = sa;
for (size_type j=0; j<n; ++j) {
isa[sa[j]] = j; // calculate inverse suffix array
}
}
for (size_type j=0; j<n; ++j) {
ASSERT_EQ(isa[j], csa.isa[j])<<" j="<<j;
}
}
//! Test Burrows-Wheeler access methods
TYPED_TEST(csa_int_test, bwt_access)
{
if (test_case_file_map.end() != test_case_file_map.find(conf::KEY_BWT_INT)) {
TypeParam csa;
ASSERT_TRUE(load_from_file(csa, temp_file));
int_vector<> bwt;
load_from_file(bwt, test_case_file_map[conf::KEY_BWT_INT]);
size_type n = bwt.size();
ASSERT_EQ(n, csa.size());
for (size_type j=0; j<n; ++j) {
ASSERT_EQ(bwt[j], csa.bwt[j])<<" j="<<j;
}
}
}
TYPED_TEST(csa_int_test, f_access)
{
if (test_case_file_map.end() != test_case_file_map.find(conf::KEY_TEXT_INT)) {
TypeParam csa;
ASSERT_TRUE(load_from_file(csa, temp_file));
int_vector<> text;
load_from_file(text, test_case_file_map[conf::KEY_TEXT_INT]);
std::sort(begin(text),end(text));
size_type n = text.size();
ASSERT_EQ(n, csa.size());
for (size_type j=0; j<n; j+=200) {
ASSERT_EQ(text[j], csa.F[j])<<" j="<<j;
}
}
}
//! Test text access methods
TYPED_TEST(csa_int_test, text_access)
{
if (test_case_file_map.end() != test_case_file_map.find(conf::KEY_TEXT_INT)) {
TypeParam csa;
ASSERT_TRUE(load_from_file(csa, temp_file));
int_vector<> text;
load_from_file(text, test_case_file_map[conf::KEY_TEXT_INT]);
size_type n = text.size();
ASSERT_EQ(n, csa.size());
for (size_type j=0; j<n; ++j) {
ASSERT_EQ(text[j], csa.text[j])<<" j="<<j;
}
auto len = std::min(csa.size(),
std::max(csa.size()/10, (decltype(csa.size()))20));
auto ex_text = extract(csa, 0, len-1);
for (size_type j=0; j<len; ++j) {
ASSERT_EQ(text[j], ex_text[j])<<" j="<<j;
}
if (n > 0) {
auto c_out_of_range = (*std::max_element(text.begin(), text.end()))+1;
auto cnt = count(csa, {c_out_of_range});
ASSERT_EQ(0ULL, cnt) << " c_out_of_range="<<c_out_of_range<<" text="<<csa.text;
}
}
}
//! Test Psi access methods
TYPED_TEST(csa_int_test, psi_access)
{
if (test_case_file_map.end() != test_case_file_map.find(conf::KEY_PSI)) {
TypeParam csa;
ASSERT_TRUE(load_from_file(csa, temp_file));
int_vector<> psi;
load_from_file(psi, test_case_file_map[conf::KEY_PSI]);
size_type n = psi.size();
ASSERT_EQ(n, csa.size());
for (size_type j=0; j<n; ++j) {
ASSERT_EQ(psi[j], csa.psi[j])<<" j="<<j;
}
}
}
//! Test if Psi[LF[i]]=i
TYPED_TEST(csa_int_test, psi_lf_access)
{
TypeParam csa;
ASSERT_TRUE(load_from_file(csa, temp_file));
for (size_type j=0; j<csa.size(); ++j) {
size_type lf = csa.lf[j];
ASSERT_TRUE(lf < csa.size());
ASSERT_EQ(j, csa.psi[lf])<<" j="<<j;
}
}
//! Test access after swap
TYPED_TEST(csa_int_test, swap_test)
{
TypeParam csa1;
ASSERT_TRUE(load_from_file(csa1, temp_file));
TypeParam csa2;
std::swap(csa1, csa2);
int_vector<> sa;
load_from_file(sa, test_case_file_map[conf::KEY_SA]);
size_type n = sa.size();
ASSERT_EQ(n, csa2.size());
for (size_type j=0; j<n; ++j) {
ASSERT_EQ((typename TypeParam::value_type)sa[j], csa2[j]);
}
}
#if SDSL_HAS_CEREAL
template <typename in_archive_t, typename out_archive_t, typename TypeParam>
void do_serialisation(TypeParam const & l)
{
{
std::ofstream os{temp_file, std::ios::binary};
out_archive_t oarchive{os};
oarchive(l);
}
{
TypeParam in_l{};
std::ifstream is{temp_file, std::ios::binary};
in_archive_t iarchive{is};
iarchive(in_l);
EXPECT_EQ(l, in_l);
}
}
TYPED_TEST(csa_int_test, cereal)
{
if (temp_dir != "@/")
{
TypeParam csa;
ASSERT_TRUE(load_from_file(csa, temp_file));
do_serialisation<cereal::BinaryInputArchive, cereal::BinaryOutputArchive> (csa);
do_serialisation<cereal::PortableBinaryInputArchive, cereal::PortableBinaryOutputArchive>(csa);
do_serialisation<cereal::JSONInputArchive, cereal::JSONOutputArchive> (csa);
do_serialisation<cereal::XMLInputArchive, cereal::XMLOutputArchive> (csa);
}
}
#endif // SDSL_HAS_CEREAL
TYPED_TEST(csa_int_test, delete_)
{
sdsl::remove(temp_file);
util::delete_all_files(test_case_file_map);
}
} // namespace
int main(int argc, char** argv)
{
::testing::InitGoogleTest(&argc, argv);
if ( init_3_arg_test(argc, argv, "CSA_INT", test_file, num_bytes, temp_dir, temp_file) == 1 ) {
return 1;
}
return RUN_ALL_TESTS();
}
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