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CoreTest.cpp
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// expose private and protected members for invasive testing
#if openPMD_USE_INVASIVE_TESTS
#define OPENPMD_private public:
#define OPENPMD_protected public:
#endif
#include "openPMD/openPMD.hpp"
#include "Files_Core/CoreTests.hpp"
#include "openPMD/IO/ADIOS/macros.hpp"
#include "openPMD/auxiliary/Filesystem.hpp"
#include "openPMD/auxiliary/JSON.hpp"
#include "openPMD/auxiliary/UniquePtr.hpp"
#include <catch2/catch.hpp>
#include <algorithm>
#include <array>
#include <complex>
#include <cstddef>
#include <cstdint>
#include <iostream>
#include <sstream>
// cstdlib does not have setenv
#include <stdlib.h> // NOLINT(modernize-deprecated-headers)
#include <string>
#include <vector>
// On Windows, REQUIRE() might not be able to print more complex data structures
// upon failure:
// CoreTest.obj : error LNK2001: unresolved external symbol
// "class std::string const Catch::Detail::unprintableString" (...)
#ifdef _WIN32
#define OPENPMD_REQUIRE_GUARD_WINDOWS(...) \
do \
{ \
bool guarded_require_boolean = __VA_ARGS__; \
REQUIRE(guarded_require_boolean); \
} while (0);
#else
#define OPENPMD_REQUIRE_GUARD_WINDOWS(...) REQUIRE(__VA_ARGS__)
#endif
using namespace openPMD;
Dataset globalDataset(Datatype::CHAR, {1});
TEST_CASE("versions_test", "[core]")
{
auto const apiVersion = getVersion();
auto const is_dot = [](char const c) { return c == '.'; };
REQUIRE(2u == std::count_if(apiVersion.begin(), apiVersion.end(), is_dot));
auto const standardDefault = getStandardDefault();
REQUIRE(standardDefault == "1.1.0");
auto const standard = getStandardMaximum();
REQUIRE(standard == "2.0.0");
auto const standardMin = getStandardMinimum();
REQUIRE(standardMin == "1.0.0");
auto const featureVariants = getVariants();
REQUIRE(featureVariants.at("json") == true);
}
TEST_CASE("attribute_dtype_test", "[core]")
{
Attribute a = Attribute(static_cast<char>(' '));
REQUIRE(Datatype::CHAR == a.dtype);
{
// check that copy constructor works
// NOLINTNEXTLINE(performance-unnecessary-copy-initialization)
[[maybe_unused]] Attribute b = a;
}
{
// check that move constructor works
[[maybe_unused]] Attribute b = std::move(a);
}
a = Attribute(static_cast<unsigned char>(' '));
REQUIRE(Datatype::UCHAR == a.dtype);
a = Attribute(static_cast<short>(0));
REQUIRE(Datatype::SHORT == a.dtype);
a = Attribute(static_cast<int>(0));
REQUIRE(Datatype::INT == a.dtype);
a = Attribute(static_cast<long>(0));
REQUIRE(Datatype::LONG == a.dtype);
a = Attribute(static_cast<long long>(0));
REQUIRE(Datatype::LONGLONG == a.dtype);
a = Attribute(static_cast<unsigned short>(0));
REQUIRE(Datatype::USHORT == a.dtype);
a = Attribute(static_cast<unsigned int>(0));
REQUIRE(Datatype::UINT == a.dtype);
a = Attribute(static_cast<unsigned long>(0));
REQUIRE(Datatype::ULONG == a.dtype);
a = Attribute(static_cast<unsigned long long>(0));
REQUIRE(Datatype::ULONGLONG == a.dtype);
a = Attribute(static_cast<float>(0.));
REQUIRE(Datatype::FLOAT == a.dtype);
a = Attribute(static_cast<double>(0.));
REQUIRE(Datatype::DOUBLE == a.dtype);
a = Attribute(static_cast<long double>(0.));
REQUIRE(Datatype::LONG_DOUBLE == a.dtype);
a = Attribute(static_cast<std::complex<float>>(0.));
REQUIRE(Datatype::CFLOAT == a.dtype);
a = Attribute(static_cast<std::complex<double>>(0.));
REQUIRE(Datatype::CDOUBLE == a.dtype);
a = Attribute(static_cast<std::complex<long double>>(0.));
REQUIRE(Datatype::CLONG_DOUBLE == a.dtype);
a = Attribute(std::string(""));
REQUIRE(Datatype::STRING == a.dtype);
a = Attribute(std::vector<char>());
REQUIRE(Datatype::VEC_CHAR == a.dtype);
a = Attribute(std::vector<short>());
REQUIRE(Datatype::VEC_SHORT == a.dtype);
a = Attribute(std::vector<int>());
REQUIRE(Datatype::VEC_INT == a.dtype);
a = Attribute(std::vector<long>());
REQUIRE(Datatype::VEC_LONG == a.dtype);
a = Attribute(std::vector<long long>());
REQUIRE(Datatype::VEC_LONGLONG == a.dtype);
a = Attribute(std::vector<unsigned char>());
REQUIRE(Datatype::VEC_UCHAR == a.dtype);
a = Attribute(std::vector<unsigned short>());
REQUIRE(Datatype::VEC_USHORT == a.dtype);
a = Attribute(std::vector<unsigned int>());
REQUIRE(Datatype::VEC_UINT == a.dtype);
a = Attribute(std::vector<unsigned long>());
REQUIRE(Datatype::VEC_ULONG == a.dtype);
a = Attribute(std::vector<unsigned long long>());
REQUIRE(Datatype::VEC_ULONGLONG == a.dtype);
a = Attribute(std::vector<float>());
REQUIRE(Datatype::VEC_FLOAT == a.dtype);
a = Attribute(std::vector<double>());
REQUIRE(Datatype::VEC_DOUBLE == a.dtype);
a = Attribute(std::vector<long double>());
REQUIRE(Datatype::VEC_LONG_DOUBLE == a.dtype);
a = Attribute(std::vector<std::string>());
REQUIRE(Datatype::VEC_STRING == a.dtype);
a = Attribute(std::array<double, 7>());
REQUIRE(Datatype::ARR_DBL_7 == a.dtype);
a = Attribute(static_cast<bool>(false));
REQUIRE(Datatype::BOOL == a.dtype);
// fixed size integers
a = Attribute(static_cast<int16_t>(0));
REQUIRE(determineDatatype<int16_t>() == a.dtype);
a = Attribute(static_cast<int32_t>(0));
REQUIRE(determineDatatype<int32_t>() == a.dtype);
a = Attribute(static_cast<int64_t>(0));
REQUIRE(determineDatatype<int64_t>() == a.dtype);
a = Attribute(static_cast<uint16_t>(0));
REQUIRE(determineDatatype<uint16_t>() == a.dtype);
a = Attribute(static_cast<uint32_t>(0));
REQUIRE(determineDatatype<uint32_t>() == a.dtype);
a = Attribute(static_cast<uint64_t>(0));
REQUIRE(determineDatatype<uint64_t>() == a.dtype);
// TODO fixed size floats
// same implementation types (not necessary aliases) detection
if (sizeof(long) == sizeof(long long))
{
a = Attribute(static_cast<long>(0));
REQUIRE(isSame(Datatype::LONGLONG, a.dtype));
#if !defined(_MSC_VER)
REQUIRE(Datatype::LONGLONG == a.dtype);
#endif
a = Attribute(static_cast<long long>(0));
REQUIRE(isSame(Datatype::LONG, a.dtype));
#if !defined(_MSC_VER)
REQUIRE(Datatype::LONG == a.dtype);
#endif
}
if (sizeof(int) == sizeof(long))
{
a = Attribute(static_cast<long>(0));
REQUIRE(isSame(Datatype::INT, a.dtype));
#if !defined(_MSC_VER)
REQUIRE(Datatype::INT == a.dtype);
#endif
a = Attribute(static_cast<int>(0));
REQUIRE(isSame(Datatype::LONG, a.dtype));
#if !defined(_MSC_VER)
REQUIRE(Datatype::LONG == a.dtype);
#endif
}
}
TEST_CASE("myPath", "[core]")
{
#if openPMD_USE_INVASIVE_TESTS
using vec_t = std::vector<std::string>;
auto pathOf = [](Attributable &attr) {
auto res = attr.myPath();
#if false
std::cout << "Directory:\t" << res.directory << "\nSeries name:\t"
<< res.seriesName << "\nSeries ext:\t" << res.seriesExtension
<< std::endl;
#endif
REQUIRE(res.directory == "../samples/");
REQUIRE(res.seriesName == "myPath");
REQUIRE(res.seriesExtension == ".json");
REQUIRE(res.filePath() == "../samples/myPath.json");
return res.group;
};
Series series("../samples/myPath.json", Access::CREATE);
REQUIRE(pathOf(series) == vec_t{});
auto iteration = series.iterations[1234];
REQUIRE(pathOf(iteration) == vec_t{"iterations", "1234"});
auto writeSomething = [](auto &recordComponent) {
recordComponent.resetDataset({Datatype::INT, {100}});
recordComponent.template makeConstant<int>(5678);
};
REQUIRE(pathOf(iteration.meshes) == vec_t{"iterations", "1234", "meshes"});
auto scalarMesh = iteration.meshes["e_chargeDensity"];
REQUIRE(
pathOf(scalarMesh) ==
vec_t{"iterations", "1234", "meshes", "e_chargeDensity"});
auto scalarMeshComponent = scalarMesh[RecordComponent::SCALAR];
REQUIRE(
pathOf(scalarMeshComponent) ==
vec_t{"iterations", "1234", "meshes", "e_chargeDensity"});
writeSomething(scalarMeshComponent);
auto vectorMesh = iteration.meshes["E"];
REQUIRE(pathOf(vectorMesh) == vec_t{"iterations", "1234", "meshes", "E"});
auto vectorMeshComponent = vectorMesh["x"];
REQUIRE(
pathOf(vectorMeshComponent) ==
vec_t{"iterations", "1234", "meshes", "E", "x"});
REQUIRE(
pathOf(iteration.particles) ==
vec_t{"iterations", "1234", "particles"});
auto speciesE = iteration.particles["e"];
REQUIRE(pathOf(speciesE) == vec_t{"iterations", "1234", "particles", "e"});
auto speciesPosition = speciesE["position"];
REQUIRE(
pathOf(speciesPosition) ==
vec_t{"iterations", "1234", "particles", "e", "position"});
auto speciesPositionX = speciesPosition["x"];
REQUIRE(
pathOf(speciesPositionX) ==
vec_t{"iterations", "1234", "particles", "e", "position", "x"});
writeSomething(speciesPositionX);
auto speciesWeighting = speciesE["weighting"];
REQUIRE(
pathOf(speciesWeighting) ==
vec_t{"iterations", "1234", "particles", "e", "weighting"});
auto speciesWeightingX = speciesWeighting[RecordComponent::SCALAR];
REQUIRE(
pathOf(speciesWeightingX) ==
vec_t{"iterations", "1234", "particles", "e", "weighting"});
writeSomething(speciesWeightingX);
REQUIRE(
pathOf(speciesE.particlePatches) ==
vec_t{"iterations", "1234", "particles", "e", "particlePatches"});
auto patchExtent = speciesE.particlePatches["extent"];
REQUIRE(
pathOf(patchExtent) ==
vec_t{
"iterations",
"1234",
"particles",
"e",
"particlePatches",
"extent"});
auto patchExtentX = patchExtent["x"];
REQUIRE(
pathOf(patchExtentX) ==
vec_t{
"iterations",
"1234",
"particles",
"e",
"particlePatches",
"extent",
"x"});
auto patchNumParticles = speciesE.particlePatches["numParticles"];
REQUIRE(
pathOf(patchNumParticles) ==
vec_t{
"iterations",
"1234",
"particles",
"e",
"particlePatches",
"numParticles"});
auto patchNumParticlesComponent =
patchNumParticles[RecordComponent::SCALAR];
REQUIRE(
pathOf(patchNumParticlesComponent) ==
vec_t{
"iterations",
"1234",
"particles",
"e",
"particlePatches",
"numParticles"});
#endif
}
TEST_CASE("output_default_test", "[core]")
{
using IE = IterationEncoding;
Series o = Series("./new_openpmd_output_%T.json", Access::CREATE);
REQUIRE(o.openPMD() == "1.1.0");
REQUIRE(o.openPMDextension() == static_cast<uint32_t>(0));
REQUIRE(o.basePath() == "/data/%T/");
REQUIRE(o.iterationEncoding() == IE::fileBased);
REQUIRE(o.iterationFormat() == "new_openpmd_output_%T");
REQUIRE(o.iterations.empty());
REQUIRE(
o.numAttributes() ==
8); /* openPMD, openPMDextension, basePath, iterationEncoding,
iterationFormat, date, software, softwareVersion */
REQUIRE(o.name() == "new_openpmd_output_%T");
o.iterations[0];
}
TEST_CASE("output_constructor_test", "[core]")
{
using IE = IterationEncoding;
Series o = Series("./MyCustomOutput.json", Access::CREATE);
o.setMeshesPath("customMeshesPath").setParticlesPath("customParticlesPath");
o.iterations[1].meshes["foo"]["baz"].resetDataset(
Dataset(Datatype::DOUBLE, {1}));
auto species = o.iterations[1].particles["bar"];
auto dset = Dataset(Datatype::DOUBLE, {1});
species["position"][RecordComponent::SCALAR].resetDataset(dset);
species["positionOffset"][RecordComponent::SCALAR].resetDataset(dset);
REQUIRE(o.openPMD() == "1.1.0");
REQUIRE(o.openPMDextension() == static_cast<uint32_t>(0));
REQUIRE(o.basePath() == "/data/%T/");
REQUIRE(o.meshesPath() == "customMeshesPath/");
REQUIRE(o.particlesPath() == "customParticlesPath/");
REQUIRE(o.iterationEncoding() == IE::groupBased);
REQUIRE(o.iterationFormat() == "/data/%T/");
REQUIRE(o.iterations.size() == 1);
REQUIRE(
o.numAttributes() ==
10); /* openPMD, openPMDextension, basePath, meshesPath, particlesPath,
iterationEncoding, iterationFormat, date, software,
softwareVersion */
REQUIRE(o.name() == "MyCustomOutput");
}
TEST_CASE("output_modification_test", "[core]")
{
Series o = Series("./MyOutput_%T.json", Access::CREATE);
o.setOpenPMD("1.0.0");
REQUIRE(o.openPMD() == "1.0.0");
o.setOpenPMDextension(1);
REQUIRE(o.openPMDextension() == static_cast<uint32_t>(1));
o.setMeshesPath("customMeshesPath");
REQUIRE(o.meshesPath() == "customMeshesPath/");
o.setParticlesPath("customParticlesPath");
REQUIRE(o.particlesPath() == "customParticlesPath/");
o.setIterationFormat("SomeOtherOutputScheme_%T");
REQUIRE(o.iterationFormat() == "SomeOtherOutputScheme_%T");
o.setName("MyOutput");
REQUIRE(o.name() == "MyOutput");
o.iterations[0];
}
TEST_CASE("iteration_default_test", "[core]")
{
Series o = Series("./MyOutput_%T.json", Access::CREATE);
Iteration &i = o.iterations[42];
REQUIRE(i.time<double>() == static_cast<double>(0));
REQUIRE(i.dt<double>() == static_cast<double>(1));
REQUIRE(i.timeUnitSI() == static_cast<double>(1));
REQUIRE(i.numAttributes() == 3);
REQUIRE(i.meshes.empty());
REQUIRE(i.particles.empty());
}
TEST_CASE("iteration_modification_test", "[core]")
{
Series o = Series("./MyOutput_%T.json", Access::CREATE);
Iteration &i = o.iterations[42];
float time = 0.314f;
i.setTime(time);
REQUIRE(i.time<float>() == time);
double dt = 0.42;
i.setDt(dt);
REQUIRE(i.dt<long double>() == static_cast<long double>(dt));
i.setTimeUnitSI(0.000000000001);
REQUIRE(i.timeUnitSI() == static_cast<double>(0.000000000001));
}
TEST_CASE("particleSpecies_modification_test", "[core]")
{
Series o = Series("./MyOutput_%T.json", Access::CREATE);
auto &particles = o.iterations[42].particles;
REQUIRE(0 == particles.numAttributes());
auto &species = particles["species"];
REQUIRE(1 == particles.size());
REQUIRE(1 == particles.count("species"));
REQUIRE(0 == species.numAttributes());
auto dset = Dataset(Datatype::DOUBLE, {1});
species["position"][RecordComponent::SCALAR].resetDataset(dset);
species["positionOffset"][RecordComponent::SCALAR].resetDataset(dset);
REQUIRE(1 == species.count("positionOffset"));
auto &patches = species.particlePatches;
REQUIRE(0 == patches.size());
REQUIRE(0 == patches.numAttributes());
auto &offset = patches["offset"];
REQUIRE(0 == offset.size());
REQUIRE(1 == offset.numAttributes()); // unitDimension
std::array<double, 7> zeros{{0., 0., 0., 0., 0., 0., 0.}};
REQUIRE(zeros == offset.unitDimension());
auto &off_x = offset["x"];
off_x.resetDataset(dset);
REQUIRE(1 == off_x.unitSI());
}
TEST_CASE("record_constructor_test", "[core]")
{
Series o = Series("./MyOutput_%T.json", Access::CREATE);
ParticleSpecies ps = o.iterations[42].particles["species"];
Record &r = ps["record"];
auto dset = Dataset(Datatype::DOUBLE, {1});
ps["position"][RecordComponent::SCALAR].resetDataset(dset);
ps["positionOffset"][RecordComponent::SCALAR].resetDataset(dset);
// unitSI is set upon flushing
// REQUIRE(r["x"].unitSI() == 1);
REQUIRE(r["x"].resetDataset(dset).numAttributes() == 0); /* unitSI */
// REQUIRE(r["y"].unitSI() == 1);
REQUIRE(r["y"].resetDataset(dset).numAttributes() == 0); /* unitSI */
// REQUIRE(r["z"].unitSI() == 1);
REQUIRE(r["z"].resetDataset(dset).numAttributes() == 0); /* unitSI */
std::array<double, 7> zeros{{0., 0., 0., 0., 0., 0., 0.}};
REQUIRE(r.unitDimension() == zeros);
REQUIRE(r.timeOffset<float>() == static_cast<float>(0));
REQUIRE(r.numAttributes() == 2); /* timeOffset, unitDimension */
o.flush();
REQUIRE(r["x"].unitSI() == 1);
REQUIRE(r["y"].unitSI() == 1);
REQUIRE(r["z"].unitSI() == 1);
}
TEST_CASE("record_modification_test", "[core]")
{
Series o = Series("./MyOutput_%T.json", Access::CREATE);
auto species = o.iterations[42].particles["species"];
Record &r = species["position"];
auto dset = Dataset(Datatype::DOUBLE, {1});
species["position"][RecordComponent::SCALAR].resetDataset(dset);
species["positionOffset"][RecordComponent::SCALAR].resetDataset(dset);
using RUD = UnitDimension;
r.setUnitDimension(
{{RUD::L, 1.}, {RUD::M, 1.}, {RUD::T, -3.}, {RUD::I, -1.}});
std::array<double, 7> e_field_unitDimension{{1., 1., -3., -1., 0., 0., 0.}};
REQUIRE(r.unitDimension() == e_field_unitDimension);
r.setUnitDimension({{RUD::L, 0.}, {RUD::T, -2.}});
std::array<double, 7> b_field_unitDimension{{0., 1., -2., -1., 0., 0., 0.}};
REQUIRE(r.unitDimension() == b_field_unitDimension);
float timeOffset = 0.314f;
r.setTimeOffset(timeOffset);
REQUIRE(r.timeOffset<float>() == timeOffset);
}
TEST_CASE("recordComponent_modification_test", "[core]")
{
Series o = Series("./MyOutput_%T.json", Access::CREATE);
ParticleSpecies ps = o.iterations[42].particles["species"];
Record &r = ps["record"];
auto dset = Dataset(Datatype::DOUBLE, {1});
ps["position"][RecordComponent::SCALAR].resetDataset(dset);
ps["positionOffset"][RecordComponent::SCALAR].resetDataset(dset);
r["x"].setUnitSI(2.55999e-7);
r["y"].setUnitSI(4.42999e-8);
REQUIRE(
r["x"].resetDataset(dset).unitSI() == static_cast<double>(2.55999e-7));
REQUIRE(r["x"].numAttributes() == 1); /* unitSI */
REQUIRE(
r["y"].resetDataset(dset).unitSI() == static_cast<double>(4.42999e-8));
REQUIRE(r["y"].numAttributes() == 1); /* unitSI */
r["z"].setUnitSI(1);
REQUIRE(r["z"].resetDataset(dset).unitSI() == static_cast<double>(1));
REQUIRE(r["z"].numAttributes() == 1); /* unitSI */
}
TEST_CASE("mesh_constructor_test", "[core]")
{
Series o = Series("./MyOutput_%T.json", Access::CREATE);
Mesh &m = o.iterations[42].meshes["E"];
std::vector<double> pos{0};
/* unitSI and position are set to default values upon flushing */
REQUIRE(m["x"].resetDataset(globalDataset).numAttributes() == 0);
REQUIRE(m["y"].resetDataset(globalDataset).numAttributes() == 0);
REQUIRE(m["z"].resetDataset(globalDataset).numAttributes() == 0);
REQUIRE(m.geometry() == Mesh::Geometry::cartesian);
REQUIRE(m.dataOrder() == Mesh::DataOrder::C);
std::vector<std::string> al{"x"};
REQUIRE(m.axisLabels() == al);
std::vector<double> gs{1};
REQUIRE(m.gridSpacing<double>() == gs);
std::vector<double> ggo{0};
REQUIRE(m.gridGlobalOffset() == ggo);
REQUIRE(
m.numAttributes() ==
7); /* axisLabels, dataOrder, geometry, gridGlobalOffset, gridSpacing,
timeOffset, unitDimension */
o.flush();
REQUIRE(m["x"].unitSI() == 1);
REQUIRE(m["x"].numAttributes() == 2); /* unitSI, position */
REQUIRE(m["x"].position<double>() == pos);
REQUIRE(m["y"].unitSI() == 1);
REQUIRE(m["y"].numAttributes() == 2); /* unitSI, position */
REQUIRE(m["y"].position<double>() == pos);
REQUIRE(m["z"].unitSI() == 1);
REQUIRE(m["z"].numAttributes() == 2); /* unitSI, position */
REQUIRE(m["z"].position<double>() == pos);
}
TEST_CASE("mesh_modification_test", "[core]")
{
Series o = Series("./MyOutput_%T.json", Access::CREATE);
Mesh &m = o.iterations[42].meshes["E"];
m["x"].resetDataset(globalDataset);
m["y"].resetDataset(globalDataset);
m["z"].resetDataset(globalDataset);
m.setGeometry(Mesh::Geometry::spherical);
REQUIRE(m.geometry() == Mesh::Geometry::spherical);
REQUIRE(m.numAttributes() == 7);
m.setDataOrder(Mesh::DataOrder::F);
REQUIRE(m.dataOrder() == Mesh::DataOrder::F);
REQUIRE(m.numAttributes() == 7);
std::vector<std::string> al{"z_", "y_", "x_"};
m.setAxisLabels({"z_", "y_", "x_"});
REQUIRE(m.axisLabels() == al);
REQUIRE(m.numAttributes() == 7);
std::vector<double> gs{1e-5, 2e-5, 3e-5};
m.setGridSpacing(gs);
REQUIRE(m.gridSpacing<double>() == gs);
REQUIRE(m.numAttributes() == 7);
std::vector<double> ggo{1e-10, 2e-10, 3e-10};
m.setGridGlobalOffset({1e-10, 2e-10, 3e-10});
REQUIRE(m.gridGlobalOffset() == ggo);
REQUIRE(m.numAttributes() == 7);
m.setGridUnitSI(42.0);
REQUIRE(m.gridUnitSI() == static_cast<double>(42));
REQUIRE(m.numAttributes() == 8);
std::string gp{"FORMULA GOES HERE"};
m.setGeometryParameters("FORMULA GOES HERE");
REQUIRE(m.geometryParameters() == gp);
REQUIRE(m.numAttributes() == 9);
m["x"].setPosition(std::vector<float>{0, 0, 0});
REQUIRE(m.numAttributes() == 9);
}
TEST_CASE("structure_test", "[core]")
{
#if openPMD_USE_INVASIVE_TESTS
Series o = Series("./new_openpmd_output_%T.json", Access::CREATE);
REQUIRE(o.IOHandler());
REQUIRE(o.iterations.IOHandler());
REQUIRE(!o.parent());
REQUIRE(o.iterations.parent() == getWritable(&o));
Iteration i = o.iterations[1];
REQUIRE(i.IOHandler());
REQUIRE(o.iterations[1].IOHandler());
REQUIRE(i.parent() == getWritable(&o.iterations));
REQUIRE(o.iterations[1].parent() == getWritable(&o.iterations));
Mesh m = o.iterations[1].meshes["M"];
REQUIRE(m.IOHandler());
REQUIRE(o.iterations[1].meshes["M"].IOHandler());
REQUIRE(m.parent() == getWritable(&o.iterations[1].meshes));
REQUIRE(
o.iterations[1].meshes["M"].parent() ==
getWritable(&o.iterations[1].meshes));
MeshRecordComponent mrc = o.iterations[1].meshes["M"]["MRC"];
REQUIRE(mrc.IOHandler());
REQUIRE(o.iterations[1].meshes["M"]["MRC"].IOHandler());
REQUIRE(mrc.parent() == getWritable(&o.iterations[1].meshes["M"]));
REQUIRE(
o.iterations[1].meshes["M"]["MRC"].parent() ==
getWritable(&o.iterations[1].meshes["M"]));
mrc = o.iterations[1].meshes["M"]["MRC"].makeConstant(1.0);
REQUIRE(mrc.IOHandler());
REQUIRE(o.iterations[1].meshes["M"]["MRC"].IOHandler());
REQUIRE(mrc.parent() == getWritable(&o.iterations[1].meshes["M"]));
REQUIRE(
o.iterations[1].meshes["M"]["MRC"].parent() ==
getWritable(&o.iterations[1].meshes["M"]));
MeshRecordComponent scalar_mrc =
o.iterations[1].meshes["M2"][MeshRecordComponent::SCALAR];
REQUIRE(scalar_mrc.IOHandler());
REQUIRE(o.iterations[1].meshes["M2"].IOHandler());
REQUIRE(
o.iterations[1].meshes["M2"][MeshRecordComponent::SCALAR].IOHandler());
REQUIRE(scalar_mrc.parent() == getWritable(&o.iterations[1].meshes));
REQUIRE(
o.iterations[1].meshes["M2"].parent() ==
getWritable(&o.iterations[1].meshes));
REQUIRE(
o.iterations[1].meshes["M2"][MeshRecordComponent::SCALAR].parent() ==
getWritable(&o.iterations[1].meshes));
scalar_mrc =
o.iterations[1].meshes["M2"][MeshRecordComponent::SCALAR].makeConstant(
1.0);
REQUIRE(scalar_mrc.IOHandler());
REQUIRE(o.iterations[1].meshes["M2"].IOHandler());
REQUIRE(
o.iterations[1].meshes["M2"][MeshRecordComponent::SCALAR].IOHandler());
REQUIRE(scalar_mrc.parent() == getWritable(&o.iterations[1].meshes));
REQUIRE(
o.iterations[1].meshes["M2"].parent() ==
getWritable(&o.iterations[1].meshes));
REQUIRE(
o.iterations[1].meshes["M2"][MeshRecordComponent::SCALAR].parent() ==
getWritable(&o.iterations[1].meshes));
ParticleSpecies ps = o.iterations[1].particles["P"];
REQUIRE(ps.IOHandler());
REQUIRE(o.iterations[1].particles["P"].IOHandler());
REQUIRE(ps.parent() == getWritable(&o.iterations[1].particles));
REQUIRE(
o.iterations[1].particles["P"].parent() ==
getWritable(&o.iterations[1].particles));
REQUIRE(o.iterations[1].particles["P"].particlePatches.IOHandler());
REQUIRE(
o.iterations[1].particles["P"].particlePatches.parent() ==
getWritable(&o.iterations[1].particles["P"]));
auto dset = Dataset(Datatype::DOUBLE, {1});
o.iterations[1]
.particles["P"]["position"][RecordComponent::SCALAR]
.resetDataset(dset);
o.iterations[1]
.particles["P"]["positionOffset"][RecordComponent::SCALAR]
.resetDataset(dset);
Record r = o.iterations[1].particles["P"]["PR"];
REQUIRE(r.IOHandler());
REQUIRE(o.iterations[1].particles["P"]["PR"].IOHandler());
REQUIRE(r.parent() == getWritable(&o.iterations[1].particles["P"]));
REQUIRE(
o.iterations[1].particles["P"]["PR"].parent() ==
getWritable(&o.iterations[1].particles["P"]));
RecordComponent rc = o.iterations[1].particles["P"]["PR"]["PRC"];
REQUIRE(rc.IOHandler());
REQUIRE(o.iterations[1].particles["P"]["PR"]["PRC"].IOHandler());
REQUIRE(rc.parent() == getWritable(&o.iterations[1].particles["P"]["PR"]));
REQUIRE(
o.iterations[1].particles["P"]["PR"]["PRC"].parent() ==
getWritable(&o.iterations[1].particles["P"]["PR"]));
rc = o.iterations[1].particles["P"]["PR"]["PRC"].makeConstant(1.0);
REQUIRE(rc.IOHandler());
REQUIRE(o.iterations[1].particles["P"]["PR"]["PRC"].IOHandler());
REQUIRE(rc.parent() == getWritable(&o.iterations[1].particles["P"]["PR"]));
REQUIRE(
o.iterations[1].particles["P"]["PR"]["PRC"].parent() ==
getWritable(&o.iterations[1].particles["P"]["PR"]));
RecordComponent scalar_rc =
o.iterations[1].particles["P"]["PR2"][RecordComponent::SCALAR];
REQUIRE(scalar_rc.IOHandler());
REQUIRE(o.iterations[1]
.particles["P"]["PR2"][RecordComponent::SCALAR]
.IOHandler());
REQUIRE(scalar_rc.parent() == getWritable(&o.iterations[1].particles["P"]));
REQUIRE(
o.iterations[1]
.particles["P"]["PR2"][RecordComponent::SCALAR]
.parent() == getWritable(&o.iterations[1].particles["P"]));
scalar_rc = o.iterations[1]
.particles["P"]["PR2"][RecordComponent::SCALAR]
.makeConstant(1.0);
REQUIRE(scalar_rc.IOHandler());
REQUIRE(o.iterations[1]
.particles["P"]["PR2"][RecordComponent::SCALAR]
.IOHandler());
REQUIRE(scalar_rc.parent() == getWritable(&o.iterations[1].particles["P"]));
REQUIRE(
o.iterations[1]
.particles["P"]["PR2"][RecordComponent::SCALAR]
.parent() == getWritable(&o.iterations[1].particles["P"]));
REQUIRE(
0 ==
o.iterations[1].particles["P"].particlePatches.count("numParticles"));
REQUIRE(
0 ==
o.iterations[1].particles["P"].particlePatches.count(
"numParticlesOffset"));
ParticlePatches pp = o.iterations[1].particles["P"].particlePatches;
REQUIRE(pp.IOHandler());
REQUIRE(o.iterations[1].particles["P"].particlePatches.IOHandler());
REQUIRE(pp.parent() == getWritable(&o.iterations[1].particles["P"]));
REQUIRE(
o.iterations[1].particles["P"].particlePatches.parent() ==
getWritable(&o.iterations[1].particles["P"]));
PatchRecord pr =
o.iterations[1].particles["P"].particlePatches["numParticles"];
REQUIRE(pr.IOHandler());
REQUIRE(o.iterations[1]
.particles["P"]
.particlePatches["numParticles"]
.IOHandler());
REQUIRE(
pr.parent() ==
getWritable(&o.iterations[1].particles["P"].particlePatches));
REQUIRE(
o.iterations[1]
.particles["P"]
.particlePatches["numParticles"]
.parent() ==
getWritable(&o.iterations[1].particles["P"].particlePatches));
pr = o.iterations[1].particles["P"].particlePatches["extent"];
REQUIRE(pr.IOHandler());
REQUIRE(
o.iterations[1].particles["P"].particlePatches["extent"].IOHandler());
REQUIRE(
pr.parent() ==
getWritable(&o.iterations[1].particles["P"].particlePatches));
REQUIRE(
o.iterations[1].particles["P"].particlePatches["extent"].parent() ==
getWritable(&o.iterations[1].particles["P"].particlePatches));
PatchRecordComponent scalar_prc =
o.iterations[1].particles["P"].particlePatches["numParticles"]
[RecordComponent::SCALAR];
REQUIRE(scalar_prc.IOHandler());
REQUIRE(o.iterations[1]
.particles["P"]
.particlePatches["numParticles"][RecordComponent::SCALAR]
.IOHandler());
REQUIRE(
scalar_prc.parent() ==
getWritable(&o.iterations[1].particles["P"].particlePatches));
REQUIRE(
o.iterations[1]
.particles["P"]
.particlePatches["numParticles"][RecordComponent::SCALAR]
.parent() ==
getWritable(&o.iterations[1].particles["P"].particlePatches));
PatchRecordComponent prc =
o.iterations[1].particles["P"].particlePatches["extent"]["x"];
REQUIRE(prc.IOHandler());
REQUIRE(o.iterations[1]
.particles["P"]
.particlePatches["extent"]["x"]
.IOHandler());
REQUIRE(
prc.parent() ==
getWritable(&o.iterations[1].particles["P"].particlePatches["extent"]));
REQUIRE(
o.iterations[1]
.particles["P"]
.particlePatches["extent"]["x"]
.parent() ==
getWritable(&o.iterations[1].particles["P"].particlePatches["extent"]));
prc.resetDataset(dset);
#else
std::cerr << "Invasive tests not enabled. Hierarchy is not visible.\n";
#endif
}
TEST_CASE("wrapper_test", "[core]")
{
Series o = Series("./new_openpmd_output_%T.json", Access::CREATE);
o.setOpenPMDextension(42);
o.setIterationEncoding(IterationEncoding::fileBased);
Series copy = o;
REQUIRE(copy.openPMDextension() == 42);
REQUIRE(copy.iterationEncoding() == IterationEncoding::fileBased);
REQUIRE(copy.name() == "new_openpmd_output_%T");
copy.setOpenPMD("1.1.0");
copy.setIterationEncoding(IterationEncoding::groupBased);
copy.setName("other_name");
REQUIRE(o.openPMD() == "1.1.0");
REQUIRE(o.iterationEncoding() == IterationEncoding::groupBased);
REQUIRE(o.name() == "other_name");
o.iterations[1].meshes["E"]["x"].resetDataset(
Dataset(Datatype::USHORT, {42}));
MeshRecordComponent mrc = o.iterations[1].meshes["E"]["x"];
REQUIRE(mrc.getDatatype() == Datatype::USHORT);
REQUIRE(mrc.getExtent() == Extent{42});
mrc.resetDataset(Dataset(Datatype::LONG_DOUBLE, {7}));
REQUIRE(
o.iterations[1].meshes["E"]["x"].getDatatype() ==
Datatype::LONG_DOUBLE);
REQUIRE(o.iterations[1].meshes["E"]["x"].getExtent() == Extent{7});
Container<Iteration, uint64_t> its = o.iterations;
its[1].meshes["E"]["y"].resetDataset(Dataset(Datatype::CHAR, {2}));
REQUIRE(o.iterations[1].meshes["E"].count("y") == 1);
REQUIRE(o.iterations[1].meshes["E"]["y"].getDatatype() == Datatype::CHAR);
REQUIRE(o.iterations[1].meshes["E"]["y"].getExtent() == Extent{2});
o.iterations[1].meshes["E"]["z"].resetDataset(
Dataset(Datatype::FLOAT, {1234}));
REQUIRE(its[1].meshes["E"].count("z") == 1);
REQUIRE(its[1].meshes["E"]["z"].getDatatype() == Datatype::FLOAT);
REQUIRE(its[1].meshes["E"]["z"].getExtent() == Extent{1234});
o.iterations[2];
REQUIRE(its.count(2) == 1);
its[3];
REQUIRE(o.iterations.count(3) == 1);
double value = 42.;
o.iterations[4].meshes["E"]["y"].resetDataset(
Dataset(Datatype::DOUBLE, {1}));
o.iterations[4].meshes["E"]["y"].makeConstant(value);
MeshRecordComponent mrc2 = o.iterations[4].meshes["E"]["y"];
REQUIRE(mrc2.constant());
double loadData;
mrc2.loadChunkRaw(&loadData, {0}, {1});
o.flush();
REQUIRE(loadData == value);
// TODO: do we want to be able to make data constant after already writing
// it once? value = 43.; mrc2.makeConstant(value);
REQUIRE_THROWS_WITH(
mrc2.makeConstant(value),
Catch::Equals("A recordComponent can not (yet) be made constant after "
"it has been written."));
std::array<double, 1> moreData = {{112233.}};
o.iterations[4].meshes["E"]["y"].loadChunkRaw(moreData.data(), {0}, {1});
o.flush();
REQUIRE(moreData[0] == value);
auto all_data = o.iterations[4].meshes["E"]["y"].loadChunk<double>();
o.flush();
REQUIRE(all_data.get()[0] == value);
#if openPMD_USE_INVASIVE_TESTS
REQUIRE(o.iterations[4].meshes["E"]["y"].get().m_chunks.empty());
REQUIRE(mrc2.get().m_chunks.empty());
#endif
MeshRecordComponent mrc3 = o.iterations[5].meshes["E"]["y"];
o.iterations[5].meshes["E"]["y"].resetDataset(
Dataset(Datatype::DOUBLE, {1}));
int wrongData = 42;
REQUIRE_THROWS_WITH(
o.iterations[5].meshes["E"]["y"].storeChunkRaw(&wrongData, {0}, {1}),
Catch::Equals("Datatypes of chunk data (INT) and record component "
"(DOUBLE) do not match."));
std::shared_ptr<double> storeData = std::make_shared<double>(44);
o.iterations[5].meshes["E"]["y"].storeChunk(storeData, {0}, {1});
#if openPMD_USE_INVASIVE_TESTS
REQUIRE(o.iterations[5].meshes["E"]["y"].get().m_chunks.size() == 1);
REQUIRE(mrc3.get().m_chunks.size() == 1);
#endif
o.flush();
#if openPMD_USE_INVASIVE_TESTS
REQUIRE(o.iterations[5].meshes["E"]["y"].get().m_chunks.empty());
REQUIRE(mrc3.get().m_chunks.empty());
#endif
o.iterations[6]
.particles["electrons"]
.particlePatches["numParticles"][RecordComponent::SCALAR]
.resetDataset(Dataset(determineDatatype<uint64_t>(), {4}));
auto dset = Dataset(Datatype::DOUBLE, {1});
o.iterations[6]
.particles["electrons"]["position"][RecordComponent::SCALAR]
.resetDataset(dset);
o.iterations[6]
.particles["electrons"]["positionOffset"][RecordComponent::SCALAR]
.resetDataset(dset);
ParticlePatches pp = o.iterations[6].particles["electrons"].particlePatches;
REQUIRE(
pp["numParticles"][RecordComponent::SCALAR].getDatatype() ==
determineDatatype<uint64_t>());
REQUIRE(
pp["numParticles"][RecordComponent::SCALAR].getExtent() == Extent{4});
pp["prop"]["x"].resetDataset(Dataset(Datatype::DOUBLE, {7}));
REQUIRE(
o.iterations[6]
.particles["electrons"]
.particlePatches["prop"]["x"]
.getDatatype() == Datatype::DOUBLE);
REQUIRE(
o.iterations[6]
.particles["electrons"]
.particlePatches["prop"]["x"]
.getExtent() == Extent{7});
size_t idx = 0;
uint64_t val = 10;
#if openPMD_USE_INVASIVE_TESTS
REQUIRE(o.iterations[6]
.particles["electrons"]
.particlePatches["numParticles"][RecordComponent::SCALAR]
.get()
.m_chunks.empty());
REQUIRE(pp["numParticles"][RecordComponent::SCALAR].get().m_chunks.empty());
#endif
pp["numParticles"][RecordComponent::SCALAR].store(idx, val);
#if openPMD_USE_INVASIVE_TESTS
REQUIRE(
o.iterations[6]
.particles["electrons"]
.particlePatches["numParticles"][RecordComponent::SCALAR]
.get()
.m_chunks.size() == 1);
REQUIRE(
pp["numParticles"][RecordComponent::SCALAR].get().m_chunks.size() == 1);
#endif
std::stringstream u64str;
u64str << determineDatatype<uint64_t>();
REQUIRE_THROWS_WITH(
o.iterations[6]
.particles["electrons"]
.particlePatches["numParticles"][RecordComponent::SCALAR]
.store(idx + 1, 42.),
Catch::Equals(
"Datatypes of patch data (DOUBLE) and dataset (" + u64str.str() +
") do not match."));
o.iterations[6]
.particles["electrons"]
.particlePatches["numParticles"][RecordComponent::SCALAR]
.store(idx + 1, val + 1);
#if openPMD_USE_INVASIVE_TESTS
REQUIRE(
o.iterations[6]
.particles["electrons"]
.particlePatches["numParticles"][RecordComponent::SCALAR]
.get()
.m_chunks.size() == 2);
REQUIRE(
pp["numParticles"][RecordComponent::SCALAR].get().m_chunks.size() == 2);
#endif
o.flush();
#if openPMD_USE_INVASIVE_TESTS
REQUIRE(o.iterations[6]
.particles["electrons"]
.particlePatches["numParticles"][RecordComponent::SCALAR]
.get()
.m_chunks.empty());
REQUIRE(pp["numParticles"][RecordComponent::SCALAR].get().m_chunks.empty());
#endif
}
TEST_CASE("baserecord_test", "[core]")
{
Series o("../samples/testBaseRecord.json", Access::CREATE);