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Commit c211ab90 authored by William F Godoy's avatar William F Godoy
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Reading bp files using stepping mode BeginStep EndStep

Modifying file names
parent b1962d80
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1 merge request!319Reading bp files using stepping mode BeginStep EndStep
......@@ -25,6 +25,43 @@ BPFileReader::BPFileReader(IO &io, const std::string &name, const Mode mode,
Init();
}
StepStatus BPFileReader::BeginStep(StepMode mode, const float timeoutSeconds)
{
if (m_DebugMode && mode != StepMode::NextAvailable)
{
throw std::invalid_argument("ERROR: mode is not supported yet for "
"engine BPFileReader, in call to "
"BeginStep\n");
}
const auto &variablesData = m_IO.GetVariablesDataMap();
for (const auto &variableData : variablesData)
{
const std::string name = variableData.first;
const std::string type = m_IO.InquireVariableType(name);
if (type == "compound")
{
}
#define declare_type(T) \
else if (type == GetType<T>()) \
{ \
auto variable = m_IO.InquireVariable<T>(name); \
if (mode == StepMode::NextAvailable) \
{ \
variable->SetStepSelection({m_CurrentStep + 1, 1}); \
} \
}
ADIOS2_FOREACH_TYPE_1ARG(declare_type)
#undef declare_type
}
return StepStatus::OK;
}
void BPFileReader::EndStep() { ++m_CurrentStep; }
void BPFileReader::PerformGets()
{
const std::map<std::string, SubFileInfoMap> variablesSubfileInfo =
......
......@@ -42,6 +42,11 @@ public:
virtual ~BPFileReader() = default;
StepStatus BeginStep(StepMode mode = StepMode::NextAvailable,
const float timeoutSeconds = 0.f) final;
void EndStep() final;
void PerformGets() final;
void Close(const int transportIndex = -1);
......@@ -51,6 +56,9 @@ private:
transportman::TransportMan m_FileManager;
transportman::TransportMan m_SubFileManager;
/** updates if step=1 in EndStep function, used for per-step reads */
size_t m_CurrentStep = 0;
void Init();
void InitTransports();
void InitBuffer();
......
......@@ -64,4 +64,19 @@ SmallTestData generateNewSmallTestData(SmallTestData in, int step, int rank,
return in;
}
void UpdateSmallTestData(SmallTestData &in, int step, int rank, int size)
{
int j = rank + 1 + step * size;
std::for_each(in.I8.begin(), in.I8.end(), [&](int8_t &v) { v += j; });
std::for_each(in.I16.begin(), in.I16.end(), [&](int16_t &v) { v += j; });
std::for_each(in.I32.begin(), in.I32.end(), [&](int32_t &v) { v += j; });
std::for_each(in.I64.begin(), in.I64.end(), [&](int64_t &v) { v += j; });
std::for_each(in.U8.begin(), in.U8.end(), [&](uint8_t &v) { v += j; });
std::for_each(in.U16.begin(), in.U16.end(), [&](uint16_t &v) { v += j; });
std::for_each(in.U32.begin(), in.U32.end(), [&](uint32_t &v) { v += j; });
std::for_each(in.U64.begin(), in.U64.end(), [&](uint64_t &v) { v += j; });
std::for_each(in.R32.begin(), in.R32.end(), [&](float &v) { v += j; });
std::for_each(in.R64.begin(), in.R64.end(), [&](double &v) { v += j; });
}
#endif // TESTING_ADIOS2_ENGINE_SMALLTESTDATA_H_
......@@ -6,18 +6,23 @@
add_executable(TestBPWriteReadADIOS2 TestBPWriteReadADIOS2.cpp)
target_link_libraries(TestBPWriteReadADIOS2 adios2 gtest gtest_main)
add_executable(TestBPWriteReadAsStreamADIOS2 TestBPWriteReadAsStreamADIOS2.cpp)
target_link_libraries(TestBPWriteReadAsStreamADIOS2 adios2 gtest gtest_main)
add_executable(TestBPWriteReadAttributesADIOS2 TestBPWriteReadAttributesADIOS2.cpp)
target_link_libraries(TestBPWriteReadAttributesADIOS2 adios2 gtest gtest_main)
if(ADIOS2_HAVE_MPI)
target_link_libraries(TestBPWriteReadADIOS2 MPI::MPI_C)
target_link_libraries(TestBPWriteReadAsStreamADIOS2 MPI::MPI_C)
target_link_libraries(TestBPWriteReadAttributesADIOS2 MPI::MPI_C)
set(extra_test_args EXEC_WRAPPER ${MPIEXEC_COMMAND})
endif()
gtest_add_tests(TARGET TestBPWriteReadADIOS2 ${extra_test_args})
gtest_add_tests(TARGET TestBPWriteReadAsStreamADIOS2 ${extra_test_args})
gtest_add_tests(TARGET TestBPWriteReadAttributesADIOS2 ${extra_test_args})
if (ADIOS2_HAVE_ADIOS1)
......
/*
* Distributed under the OSI-approved Apache License, Version 2.0. See
* accompanying file Copyright.txt for details.
*/
#include <cstdint>
#include <cstring>
#include <iostream>
#include <stdexcept>
#include <adios2.h>
#include <gtest/gtest.h>
#include "../SmallTestData.h"
class BPWriteReadAsStreamTestADIOS2 : public ::testing::Test
{
public:
BPWriteReadAsStreamTestADIOS2() = default;
SmallTestData m_TestData;
SmallTestData m_OriginalData;
};
//******************************************************************************
// 1D 1x8 test data
//******************************************************************************
// ADIOS2 BP write, native ADIOS1 read
TEST_F(BPWriteReadAsStreamTestADIOS2, ADIOS2BPWriteRead1D8)
{
// Each process would write a 1x8 array and all processes would
// form a mpiSize * Nx 1D array
const std::string fname("ADIOS2BPWriteReadAsStream1D8.bp");
int mpiRank = 0, mpiSize = 1;
// Number of rows
const size_t Nx = 8;
// Number of steps
const size_t NSteps = 3;
#ifdef ADIOS2_HAVE_MPI
MPI_Comm_rank(MPI_COMM_WORLD, &mpiRank);
MPI_Comm_size(MPI_COMM_WORLD, &mpiSize);
#endif
// Write test data using BP
#ifdef ADIOS2_HAVE_MPI
adios2::ADIOS adios(MPI_COMM_WORLD, adios2::DebugON);
#else
adios2::ADIOS adios(true);
#endif
{
adios2::IO &io = adios.DeclareIO("TestIO");
// Declare 1D variables (NumOfProcesses * Nx)
// The local process' part (start, count) can be defined now or later
// before Write().
{
const adios2::Dims shape{static_cast<size_t>(Nx * mpiSize)};
const adios2::Dims start{static_cast<size_t>(Nx * mpiRank)};
const adios2::Dims count{Nx};
io.DefineVariable<int8_t>("i8", shape, start, count,
adios2::ConstantDims,
m_TestData.I8.data());
io.DefineVariable<int16_t>("i16", shape, start, count,
adios2::ConstantDims,
m_TestData.I16.data());
io.DefineVariable<int32_t>("i32", shape, start, count,
adios2::ConstantDims,
m_TestData.I32.data());
io.DefineVariable<int64_t>("i64", shape, start, count,
adios2::ConstantDims,
m_TestData.I64.data());
io.DefineVariable<uint8_t>("u8", shape, start, count,
adios2::ConstantDims,
m_TestData.U8.data());
io.DefineVariable<uint16_t>("u16", shape, start, count,
adios2::ConstantDims,
m_TestData.U16.data());
io.DefineVariable<uint32_t>("u32", shape, start, count,
adios2::ConstantDims,
m_TestData.U32.data());
io.DefineVariable<uint64_t>("u64", shape, start, count,
adios2::ConstantDims,
m_TestData.U64.data());
io.DefineVariable<float>("r32", shape, start, count,
adios2::ConstantDims,
m_TestData.R32.data());
io.DefineVariable<double>("r64", shape, start, count,
adios2::ConstantDims,
m_TestData.R64.data());
}
// Create the BP Engine
io.SetEngine("BPFileWriter");
io.AddTransport("file");
// QUESTION: It seems that BPFilterWriter cannot overwrite existing
// files
// Ex. if you tune Nx and NSteps, the test would fail. But if you clear
// the cache in
// ${adios2Build}/testing/adios2/engine/bp/ADIOS2BPWriteADIOS1Read1D8.bp.dir,
// then it works
adios2::Engine &bpWriter = io.Open(fname, adios2::Mode::Write);
for (size_t step = 0; step < NSteps; ++step)
{
UpdateSmallTestData(m_TestData, static_cast<int>(step), mpiRank,
mpiSize);
bpWriter.WriteStep();
}
bpWriter.Close();
}
{
adios2::IO &io = adios.DeclareIO("ReadIO");
adios2::Engine &bpReader = io.Open(fname, adios2::Mode::Read);
auto var_i8 = io.InquireVariable<int8_t>("i8");
ASSERT_NE(var_i8, nullptr);
ASSERT_EQ(var_i8->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i8->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i8->m_Shape[0], mpiSize * Nx);
auto var_i16 = io.InquireVariable<int16_t>("i16");
ASSERT_NE(var_i16, nullptr);
ASSERT_EQ(var_i16->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i16->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i16->m_Shape[0], mpiSize * Nx);
auto var_i32 = io.InquireVariable<int32_t>("i32");
ASSERT_NE(var_i32, nullptr);
ASSERT_EQ(var_i32->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i32->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i32->m_Shape[0], mpiSize * Nx);
auto var_i64 = io.InquireVariable<int64_t>("i64");
ASSERT_NE(var_i64, nullptr);
ASSERT_EQ(var_i64->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i64->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i64->m_Shape[0], mpiSize * Nx);
auto var_u8 = io.InquireVariable<uint8_t>("u8");
ASSERT_NE(var_u8, nullptr);
ASSERT_EQ(var_u8->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u8->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u8->m_Shape[0], mpiSize * Nx);
auto var_u16 = io.InquireVariable<uint16_t>("u16");
ASSERT_NE(var_u16, nullptr);
ASSERT_EQ(var_u16->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u16->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u16->m_Shape[0], mpiSize * Nx);
auto var_u32 = io.InquireVariable<uint32_t>("u32");
ASSERT_NE(var_u32, nullptr);
ASSERT_EQ(var_u32->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u32->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u32->m_Shape[0], mpiSize * Nx);
auto var_u64 = io.InquireVariable<uint64_t>("u64");
ASSERT_NE(var_u64, nullptr);
ASSERT_EQ(var_u64->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u64->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u64->m_Shape[0], mpiSize * Nx);
auto var_r32 = io.InquireVariable<float>("r32");
ASSERT_NE(var_r32, nullptr);
ASSERT_EQ(var_r32->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_r32->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_r32->m_Shape[0], mpiSize * Nx);
auto var_r64 = io.InquireVariable<double>("r64");
ASSERT_NE(var_r64, nullptr);
ASSERT_EQ(var_r64->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_r64->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_r64->m_Shape[0], mpiSize * Nx);
std::string IString;
std::array<int8_t, Nx> I8;
std::array<int16_t, Nx> I16;
std::array<int32_t, Nx> I32;
std::array<int64_t, Nx> I64;
std::array<uint8_t, Nx> U8;
std::array<uint16_t, Nx> U16;
std::array<uint32_t, Nx> U32;
std::array<uint64_t, Nx> U64;
std::array<float, Nx> R32;
std::array<double, Nx> R64;
const adios2::Dims start{mpiRank * Nx};
const adios2::Dims count{Nx};
const adios2::Box<adios2::Dims> sel(start, count);
var_i8->SetSelection(sel);
var_i16->SetSelection(sel);
var_i32->SetSelection(sel);
var_i64->SetSelection(sel);
var_u8->SetSelection(sel);
var_u16->SetSelection(sel);
var_u32->SetSelection(sel);
var_u64->SetSelection(sel);
var_r32->SetSelection(sel);
var_r64->SetSelection(sel);
for (size_t t = 0; t < NSteps; ++t)
{
bpReader.BeginStep();
bpReader.GetDeferred(*var_i8, I8.data());
bpReader.GetDeferred(*var_i16, I16.data());
bpReader.GetDeferred(*var_i32, I32.data());
bpReader.GetDeferred(*var_i64, I64.data());
bpReader.GetDeferred(*var_u8, U8.data());
bpReader.GetDeferred(*var_u16, U16.data());
bpReader.GetDeferred(*var_u32, U32.data());
bpReader.GetDeferred(*var_u64, U64.data());
bpReader.GetDeferred(*var_r32, R32.data());
bpReader.GetDeferred(*var_r64, R64.data());
bpReader.PerformGets();
bpReader.EndStep();
UpdateSmallTestData(m_OriginalData, static_cast<int>(t), mpiRank,
mpiSize);
for (size_t i = 0; i < Nx; ++i)
{
std::stringstream ss;
ss << "t=" << t << " i=" << i << " rank=" << mpiRank;
std::string msg = ss.str();
EXPECT_EQ(I8[i], m_OriginalData.I8[i]) << msg;
EXPECT_EQ(I16[i], m_OriginalData.I16[i]) << msg;
EXPECT_EQ(I32[i], m_OriginalData.I32[i]) << msg;
EXPECT_EQ(I64[i], m_OriginalData.I64[i]) << msg;
EXPECT_EQ(U8[i], m_OriginalData.U8[i]) << msg;
EXPECT_EQ(U16[i], m_OriginalData.U16[i]) << msg;
EXPECT_EQ(U32[i], m_OriginalData.U32[i]) << msg;
EXPECT_EQ(U64[i], m_OriginalData.U64[i]) << msg;
EXPECT_EQ(R32[i], m_OriginalData.R32[i]) << msg;
EXPECT_EQ(R64[i], m_OriginalData.R64[i]) << msg;
}
}
bpReader.Close();
}
}
//******************************************************************************
// 2D 2x4 test data
//******************************************************************************
// ADIOS2 BP write, native ADIOS1 read
TEST_F(BPWriteReadAsStreamTestADIOS2, ADIOS2BPWriteRead2D2x4)
{
// Each process would write a 2x4 array and all processes would
// form a 2D 2 * (numberOfProcess*Nx) matrix where Nx is 4 here
const std::string fname("ADIOS2BPWriteReadAsStream2D2x4Test.bp");
int mpiRank = 0, mpiSize = 1;
// Number of rows
const std::size_t Nx = 4;
// Number of rows
const std::size_t Ny = 2;
// Number of steps
const std::size_t NSteps = 3;
#ifdef ADIOS2_HAVE_MPI
MPI_Comm_rank(MPI_COMM_WORLD, &mpiRank);
MPI_Comm_size(MPI_COMM_WORLD, &mpiSize);
#endif
// Write test data using ADIOS2
#ifdef ADIOS2_HAVE_MPI
adios2::ADIOS adios(MPI_COMM_WORLD, adios2::DebugON);
#else
adios2::ADIOS adios(true);
#endif
{
adios2::IO &io = adios.DeclareIO("TestIO");
// Declare 2D variables (Ny * (NumOfProcesses * Nx))
// The local process' part (start, count) can be defined now or later
// before Write().
{
const adios2::Dims shape{Ny, static_cast<size_t>(Nx * mpiSize)};
const adios2::Dims start{0, static_cast<size_t>(mpiRank * Nx)};
const adios2::Dims count{Ny, Nx};
io.DefineVariable<int8_t>("i8", shape, start, count,
adios2::ConstantDims,
m_TestData.I8.data());
io.DefineVariable<int16_t>("i16", shape, start, count,
adios2::ConstantDims,
m_TestData.I16.data());
io.DefineVariable<int32_t>("i32", shape, start, count,
adios2::ConstantDims,
m_TestData.I32.data());
io.DefineVariable<int64_t>("i64", shape, start, count,
adios2::ConstantDims,
m_TestData.I64.data());
io.DefineVariable<uint8_t>("u8", shape, start, count,
adios2::ConstantDims,
m_TestData.U8.data());
io.DefineVariable<uint16_t>("u16", shape, start, count,
adios2::ConstantDims,
m_TestData.U16.data());
io.DefineVariable<uint32_t>("u32", shape, start, count,
adios2::ConstantDims,
m_TestData.U32.data());
io.DefineVariable<uint64_t>("u64", shape, start, count,
adios2::ConstantDims,
m_TestData.U64.data());
io.DefineVariable<float>("r32", shape, start, count,
adios2::ConstantDims,
m_TestData.R32.data());
io.DefineVariable<double>("r64", shape, start, count,
adios2::ConstantDims,
m_TestData.R64.data());
}
// Create the BP Engine
io.SetEngine("BPFileWriter");
io.AddTransport("file");
adios2::Engine &bpWriter = io.Open(fname, adios2::Mode::Write);
for (size_t step = 0; step < NSteps; ++step)
{
UpdateSmallTestData(m_TestData, static_cast<int>(step), mpiRank,
mpiSize);
bpWriter.WriteStep();
}
// Close the file
bpWriter.Close();
}
{
adios2::IO &io = adios.DeclareIO("ReadIO");
adios2::Engine &bpReader = io.Open(fname, adios2::Mode::Read);
auto var_i8 = io.InquireVariable<int8_t>("i8");
ASSERT_NE(var_i8, nullptr);
ASSERT_EQ(var_i8->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i8->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i8->m_Shape[0], Ny);
ASSERT_EQ(var_i8->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_i16 = io.InquireVariable<int16_t>("i16");
ASSERT_NE(var_i16, nullptr);
ASSERT_EQ(var_i16->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i16->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i16->m_Shape[0], Ny);
ASSERT_EQ(var_i16->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_i32 = io.InquireVariable<int32_t>("i32");
ASSERT_NE(var_i32, nullptr);
ASSERT_EQ(var_i32->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i32->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i32->m_Shape[0], Ny);
ASSERT_EQ(var_i32->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_i64 = io.InquireVariable<int64_t>("i64");
ASSERT_NE(var_i64, nullptr);
ASSERT_EQ(var_i64->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i64->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i64->m_Shape[0], Ny);
ASSERT_EQ(var_i64->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_u8 = io.InquireVariable<uint8_t>("u8");
ASSERT_NE(var_u8, nullptr);
ASSERT_EQ(var_u8->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u8->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u8->m_Shape[0], Ny);
ASSERT_EQ(var_u8->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_u16 = io.InquireVariable<uint16_t>("u16");
ASSERT_NE(var_u16, nullptr);
ASSERT_EQ(var_u16->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u16->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u16->m_Shape[0], Ny);
ASSERT_EQ(var_u16->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_u32 = io.InquireVariable<uint32_t>("u32");
ASSERT_NE(var_u32, nullptr);
ASSERT_EQ(var_u32->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u32->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u32->m_Shape[0], Ny);
ASSERT_EQ(var_u32->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_u64 = io.InquireVariable<uint64_t>("u64");
ASSERT_NE(var_u64, nullptr);
ASSERT_EQ(var_u64->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u64->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u64->m_Shape[0], Ny);
ASSERT_EQ(var_u64->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_r32 = io.InquireVariable<float>("r32");
ASSERT_NE(var_r32, nullptr);
ASSERT_EQ(var_r32->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_r32->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_r32->m_Shape[0], Ny);
ASSERT_EQ(var_r32->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_r64 = io.InquireVariable<double>("r64");
ASSERT_NE(var_r64, nullptr);
ASSERT_EQ(var_r64->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_r64->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_r64->m_Shape[0], Ny);
ASSERT_EQ(var_r64->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
// If the size of the array is smaller than the data
// the result is weird... double and uint64_t would get
// completely garbage data
std::array<int8_t, Nx * Ny> I8;
std::array<int16_t, Nx * Ny> I16;
std::array<int32_t, Nx * Ny> I32;
std::array<int64_t, Nx * Ny> I64;
std::array<uint8_t, Nx * Ny> U8;
std::array<uint16_t, Nx * Ny> U16;
std::array<uint32_t, Nx * Ny> U32;
std::array<uint64_t, Nx * Ny> U64;
std::array<float, Nx * Ny> R32;
std::array<double, Nx * Ny> R64;
const adios2::Dims start{0, static_cast<size_t>(mpiRank * Nx)};
const adios2::Dims count{Ny, Nx};
const adios2::Box<adios2::Dims> sel(start, count);
var_i8->SetSelection(sel);
var_i16->SetSelection(sel);
var_i32->SetSelection(sel);
var_i64->SetSelection(sel);
var_u8->SetSelection(sel);
var_u16->SetSelection(sel);
var_u32->SetSelection(sel);
var_u64->SetSelection(sel);
var_r32->SetSelection(sel);
var_r64->SetSelection(sel);
for (size_t t = 0; t < NSteps; ++t)
{
bpReader.BeginStep();
bpReader.GetDeferred(*var_i8, I8.data());
bpReader.GetDeferred(*var_i16, I16.data());
bpReader.GetDeferred(*var_i32, I32.data());
bpReader.GetDeferred(*var_i64, I64.data());
bpReader.GetDeferred(*var_u8, U8.data());
bpReader.GetDeferred(*var_u16, U16.data());
bpReader.GetDeferred(*var_u32, U32.data());
bpReader.GetDeferred(*var_u64, U64.data());
bpReader.GetDeferred(*var_r32, R32.data());
bpReader.GetDeferred(*var_r64, R64.data());
bpReader.PerformGets();
bpReader.EndStep();
// Generate test data for each rank uniquely
UpdateSmallTestData(m_OriginalData, static_cast<int>(t), mpiRank,
mpiSize);
for (size_t i = 0; i < Nx * Ny; ++i)
{
std::stringstream ss;
ss << "t=" << t << " i=" << i << " rank=" << mpiRank;
std::string msg = ss.str();
EXPECT_EQ(I8[i], m_OriginalData.I8[i]) << msg;
EXPECT_EQ(I16[i], m_OriginalData.I16[i]) << msg;
EXPECT_EQ(I32[i], m_OriginalData.I32[i]) << msg;
EXPECT_EQ(I64[i], m_OriginalData.I64[i]) << msg;
EXPECT_EQ(U8[i], m_OriginalData.U8[i]) << msg;
EXPECT_EQ(U16[i], m_OriginalData.U16[i]) << msg;
EXPECT_EQ(U32[i], m_OriginalData.U32[i]) << msg;
EXPECT_EQ(U64[i], m_OriginalData.U64[i]) << msg;
EXPECT_EQ(R32[i], m_OriginalData.R32[i]) << msg;
EXPECT_EQ(R64[i], m_OriginalData.R64[i]) << msg;
}
}
bpReader.Close();
}
}
//******************************************************************************
// 2D 4x2 test data
//******************************************************************************
TEST_F(BPWriteReadAsStreamTestADIOS2, ADIOS2BPWriteRead2D4x2)
{
// Each process would write a 4x2 array and all processes would
// form a 2D 4 * (NumberOfProcess * Nx) matrix where Nx is 2 here
const std::string fname("ADIOS2BPWriteReadAsStream2D4x2Test.bp");
int mpiRank = 0, mpiSize = 1;
// Number of rows
const std::size_t Nx = 2;
// Number of cols
const std::size_t Ny = 4;
// Number of steps
const std::size_t NSteps = 3;
#ifdef ADIOS2_HAVE_MPI
MPI_Comm_rank(MPI_COMM_WORLD, &mpiRank);
MPI_Comm_size(MPI_COMM_WORLD, &mpiSize);
#endif
// Write test data using ADIOS2
#ifdef ADIOS2_HAVE_MPI
adios2::ADIOS adios(MPI_COMM_WORLD, adios2::DebugON);
#else
adios2::ADIOS adios(true);
#endif
{
adios2::IO &io = adios.DeclareIO("TestIO");
// Declare 2D variables (4 * (NumberOfProcess * Nx))
// The local process' part (start, count) can be defined now or later
// before Write().
{
adios2::Dims shape{static_cast<unsigned int>(Ny),
static_cast<unsigned int>(mpiSize * Nx)};
adios2::Dims start{static_cast<unsigned int>(0),
static_cast<unsigned int>(mpiRank * Nx)};
adios2::Dims count{static_cast<unsigned int>(Ny),
static_cast<unsigned int>(Nx)};
io.DefineVariable<int8_t>("i8", shape, start, count,
adios2::ConstantDims,
m_TestData.I8.data());
io.DefineVariable<int16_t>("i16", shape, start, count,
adios2::ConstantDims,
m_TestData.I16.data());
io.DefineVariable<int32_t>("i32", shape, start, count,
adios2::ConstantDims,
m_TestData.I32.data());
io.DefineVariable<int64_t>("i64", shape, start, count,
adios2::ConstantDims,
m_TestData.I64.data());
io.DefineVariable<uint8_t>("u8", shape, start, count,
adios2::ConstantDims,
m_TestData.U8.data());
io.DefineVariable<uint16_t>("u16", shape, start, count,
adios2::ConstantDims,
m_TestData.U16.data());
io.DefineVariable<uint32_t>("u32", shape, start, count,
adios2::ConstantDims,
m_TestData.U32.data());
io.DefineVariable<uint64_t>("u64", shape, start, count,
adios2::ConstantDims,
m_TestData.U64.data());
io.DefineVariable<float>("r32", shape, start, count,
adios2::ConstantDims,
m_TestData.R32.data());
io.DefineVariable<double>("r64", shape, start, count,
adios2::ConstantDims,
m_TestData.R64.data());
}
// Create the BP Engine
io.SetEngine("BPFileWriter");
io.AddTransport("file");
adios2::Engine &bpWriter = io.Open(fname, adios2::Mode::Write);
for (size_t step = 0; step < NSteps; ++step)
{
// Generate test data for each process uniquely
UpdateSmallTestData(m_TestData, static_cast<int>(step), mpiRank,
mpiSize);
bpWriter.WriteStep();
}
// Close the file
bpWriter.Close();
}
{
adios2::IO &io = adios.DeclareIO("ReadIO");
adios2::Engine &bpReader = io.Open(fname, adios2::Mode::Read);
auto var_i8 = io.InquireVariable<int8_t>("i8");
ASSERT_NE(var_i8, nullptr);
ASSERT_EQ(var_i8->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i8->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i8->m_Shape[0], Ny);
ASSERT_EQ(var_i8->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_i16 = io.InquireVariable<int16_t>("i16");
ASSERT_NE(var_i16, nullptr);
ASSERT_EQ(var_i16->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i16->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i16->m_Shape[0], Ny);
ASSERT_EQ(var_i16->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_i32 = io.InquireVariable<int32_t>("i32");
ASSERT_NE(var_i32, nullptr);
ASSERT_EQ(var_i32->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i32->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i32->m_Shape[0], Ny);
ASSERT_EQ(var_i32->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_i64 = io.InquireVariable<int64_t>("i64");
ASSERT_NE(var_i64, nullptr);
ASSERT_EQ(var_i64->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_i64->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_i64->m_Shape[0], Ny);
ASSERT_EQ(var_i64->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_u8 = io.InquireVariable<uint8_t>("u8");
ASSERT_NE(var_u8, nullptr);
ASSERT_EQ(var_u8->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u8->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u8->m_Shape[0], Ny);
ASSERT_EQ(var_u8->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_u16 = io.InquireVariable<uint16_t>("u16");
ASSERT_NE(var_u16, nullptr);
ASSERT_EQ(var_u16->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u16->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u16->m_Shape[0], Ny);
ASSERT_EQ(var_u16->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_u32 = io.InquireVariable<uint32_t>("u32");
ASSERT_NE(var_u32, nullptr);
ASSERT_EQ(var_u32->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u32->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u32->m_Shape[0], Ny);
ASSERT_EQ(var_u32->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_u64 = io.InquireVariable<uint64_t>("u64");
ASSERT_NE(var_u64, nullptr);
ASSERT_EQ(var_u64->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_u64->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_u64->m_Shape[0], Ny);
ASSERT_EQ(var_u64->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_r32 = io.InquireVariable<float>("r32");
ASSERT_NE(var_r32, nullptr);
ASSERT_EQ(var_r32->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_r32->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_r32->m_Shape[0], Ny);
ASSERT_EQ(var_r32->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
auto var_r64 = io.InquireVariable<double>("r64");
ASSERT_NE(var_r64, nullptr);
ASSERT_EQ(var_r64->m_ShapeID, adios2::ShapeID::GlobalArray);
ASSERT_EQ(var_r64->m_AvailableStepsCount, NSteps);
ASSERT_EQ(var_r64->m_Shape[0], Ny);
ASSERT_EQ(var_r64->m_Shape[1], static_cast<size_t>(mpiSize * Nx));
// If the size of the array is smaller than the data
// the result is weird... double and uint64_t would get
// completely garbage data
std::array<int8_t, Nx * Ny> I8;
std::array<int16_t, Nx * Ny> I16;
std::array<int32_t, Nx * Ny> I32;
std::array<int64_t, Nx * Ny> I64;
std::array<uint8_t, Nx * Ny> U8;
std::array<uint16_t, Nx * Ny> U16;
std::array<uint32_t, Nx * Ny> U32;
std::array<uint64_t, Nx * Ny> U64;
std::array<float, Nx * Ny> R32;
std::array<double, Nx * Ny> R64;
const adios2::Dims start{0, static_cast<size_t>(mpiRank * Nx)};
const adios2::Dims count{Ny, Nx};
const adios2::Box<adios2::Dims> sel(start, count);
var_i8->SetSelection(sel);
var_i16->SetSelection(sel);
var_i32->SetSelection(sel);
var_i64->SetSelection(sel);
var_u8->SetSelection(sel);
var_u16->SetSelection(sel);
var_u32->SetSelection(sel);
var_u64->SetSelection(sel);
var_r32->SetSelection(sel);
var_r64->SetSelection(sel);
for (size_t t = 0; t < NSteps; ++t)
{
bpReader.BeginStep();
bpReader.GetDeferred(*var_i8, I8.data());
bpReader.GetDeferred(*var_i16, I16.data());
bpReader.GetDeferred(*var_i32, I32.data());
bpReader.GetDeferred(*var_i64, I64.data());
bpReader.GetDeferred(*var_u8, U8.data());
bpReader.GetDeferred(*var_u16, U16.data());
bpReader.GetDeferred(*var_u32, U32.data());
bpReader.GetDeferred(*var_u64, U64.data());
bpReader.GetDeferred(*var_r32, R32.data());
bpReader.GetDeferred(*var_r64, R64.data());
bpReader.PerformGets();
bpReader.EndStep();
// Generate test data for each rank uniquely
UpdateSmallTestData(m_OriginalData, static_cast<int>(t), mpiRank,
mpiSize);
for (size_t i = 0; i < Nx * Ny; ++i)
{
std::stringstream ss;
ss << "t=" << t << " i=" << i << " rank=" << mpiRank;
std::string msg = ss.str();
EXPECT_EQ(I8[i], m_OriginalData.I8[i]) << msg;
EXPECT_EQ(I16[i], m_OriginalData.I16[i]) << msg;
EXPECT_EQ(I32[i], m_OriginalData.I32[i]) << msg;
EXPECT_EQ(I64[i], m_OriginalData.I64[i]) << msg;
EXPECT_EQ(U8[i], m_OriginalData.U8[i]) << msg;
EXPECT_EQ(U16[i], m_OriginalData.U16[i]) << msg;
EXPECT_EQ(U32[i], m_OriginalData.U32[i]) << msg;
EXPECT_EQ(U64[i], m_OriginalData.U64[i]) << msg;
EXPECT_EQ(R32[i], m_OriginalData.R32[i]) << msg;
EXPECT_EQ(R64[i], m_OriginalData.R64[i]) << msg;
}
}
bpReader.Close();
}
}
//******************************************************************************
// main
//******************************************************************************
int main(int argc, char **argv)
{
#ifdef ADIOS2_HAVE_MPI
MPI_Init(nullptr, nullptr);
#endif
::testing::InitGoogleTest(&argc, argv);
int result = RUN_ALL_TESTS();
#ifdef ADIOS2_HAVE_MPI
MPI_Finalize();
#endif
return result;
}
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