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write more tests so we increase the test coverage
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,28 @@ | ||
| #include <iostream> | ||
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| static bool almost_equal(morphio::floatType a, double expected, double epsilon) { | ||
| #ifdef MORPHIO_USE_DOUBLE | ||
| bool res = std::abs(a - expected) < epsilon; | ||
| #else | ||
| bool res = std::abs(static_cast<double>(a) - expected) < epsilon; | ||
| #endif | ||
| if (!res) { | ||
| std::cerr << "Failed almost equal: " << a << " != " << expected | ||
| << " (expected) with epsilon of " << epsilon << '\n'; | ||
| } | ||
| return res; | ||
| } | ||
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| static bool array_almost_equal(const std::vector<morphio::floatType>& a, | ||
| const std::vector<double>& expected, | ||
| double epsilon) { | ||
| if (a.size() != expected.size()) { | ||
| return false; | ||
| } | ||
| for (size_t i = 0; i < a.size(); i++) { | ||
| if (!almost_equal(a.at(i), expected.at(i), epsilon)) { | ||
| return false; | ||
| } | ||
| } | ||
| return true; | ||
| } |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,122 @@ | ||
| #include <catch2/catch.hpp> | ||
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| #include <morphio/mito_section.h> | ||
| #include <morphio/mitochondria.h> | ||
| #include <morphio/section.h> | ||
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| #include <algorithm> | ||
| #include <iterator> | ||
| #include <vector> | ||
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| #include "test_helpers.h" | ||
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| TEST_CASE("mitochondria", "[mitochondria]") { | ||
| const auto mito = morphio::Morphology("data/h5/v1/mitochondria.h5").mitochondria(); | ||
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| REQUIRE(mito.rootSections().size() == 2); | ||
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| auto rootSection = mito.rootSections().at(0); | ||
| REQUIRE(rootSection.id() == 0); | ||
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| auto diameters = rootSection.diameters(); | ||
| REQUIRE(array_almost_equal(std::vector<morphio::floatType>(diameters.begin(), diameters.end()), | ||
| std::vector<double>{10.0, 20.0}, | ||
| 0.01)); | ||
| auto relativePathLength = rootSection.relativePathLengths(); | ||
| auto res = std::vector<morphio::floatType>(relativePathLength.begin(), | ||
| relativePathLength.end()); | ||
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| REQUIRE(almost_equal(res.at(0), 0.5, 0.001)); | ||
| REQUIRE(almost_equal(res.at(1), 0.6000000238, 0.001)); | ||
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| auto neuriteSectionIds = rootSection.neuriteSectionIds(); | ||
| REQUIRE(array_almost_equal(std::vector<morphio::floatType>(neuriteSectionIds.begin(), | ||
| neuriteSectionIds.end()), | ||
| std::vector<double>{0.0, 0.0}, | ||
| 0.01)); | ||
| REQUIRE(rootSection.children().size() == 1); | ||
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| auto child = rootSection.children().at(0); | ||
| REQUIRE(child.parent().id() == rootSection.id()); | ||
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| diameters = child.diameters(); | ||
| REQUIRE(array_almost_equal(std::vector<morphio::floatType>(diameters.begin(), diameters.end()), | ||
| std::vector<double>{20.0, 30.0, 40.0, 50.0}, | ||
| 0.01)); | ||
| relativePathLength = child.relativePathLengths(); | ||
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| REQUIRE(array_almost_equal(std::vector<morphio::floatType>(relativePathLength.begin(), | ||
| relativePathLength.end()), | ||
| std::vector<double>{0.6, 0.7, 0.8, 0.9}, | ||
| 0.01)); | ||
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| neuriteSectionIds = child.neuriteSectionIds(); | ||
| REQUIRE(array_almost_equal(std::vector<morphio::floatType>(neuriteSectionIds.begin(), | ||
| neuriteSectionIds.end()), | ||
| std::vector<double>{3.0, 4.0, 4.0, 5.0}, | ||
| 0.01)); | ||
| rootSection = mito.rootSections().at(1); | ||
| diameters = rootSection.diameters(); | ||
| REQUIRE(array_almost_equal(std::vector<morphio::floatType>(diameters.begin(), diameters.end()), | ||
| std::vector<double>{5.0, 6.0, 7.0, 8.0}, | ||
| 0.01)); | ||
| relativePathLength = rootSection.relativePathLengths(); | ||
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| REQUIRE(array_almost_equal(std::vector<morphio::floatType>(relativePathLength.begin(), | ||
| relativePathLength.end()), | ||
| std::vector<double>{0.6, 0.7, 0.8, 0.9}, | ||
| 0.01)); | ||
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| neuriteSectionIds = rootSection.neuriteSectionIds(); | ||
| REQUIRE(array_almost_equal(std::vector<morphio::floatType>(neuriteSectionIds.begin(), | ||
| neuriteSectionIds.end()), | ||
| std::vector<double>{0.0, 1.0, 1.0, 2.0}, | ||
| 0.01)); | ||
| REQUIRE(rootSection.children().empty()); | ||
| } | ||
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| TEST_CASE("mitochondria.sections", "[mitochondria]") { | ||
| const auto mito = morphio::Morphology("data/h5/v1/mitochondria.h5").mitochondria(); | ||
| auto sections = mito.sections(); | ||
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| std::vector<std::size_t> res; | ||
| std::transform(sections.begin(), | ||
| sections.end(), | ||
| std::back_inserter(res), | ||
| [](const morphio::MitoSection& s) { return s.id(); }); | ||
| REQUIRE(res == std::vector<size_t>{0, 1, 2}); | ||
| } | ||
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| TEST_CASE("mitochondria.iteration", "[mitochondria]") { | ||
| const auto mito = morphio::Morphology("data/h5/v1/mitochondria.h5").mitochondria(); | ||
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| const auto rootSection = mito.rootSections().at(0); | ||
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| std::vector<std::size_t> res; | ||
| std::transform(rootSection.depth_begin(), | ||
| rootSection.depth_end(), | ||
| std::back_inserter(res), | ||
| [](const morphio::MitoSection& s) { return s.id(); }); | ||
| REQUIRE(res == std::vector<size_t>{0, 1}); | ||
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| res.clear(); | ||
| std::transform(rootSection.breadth_begin(), | ||
| rootSection.breadth_end(), | ||
| std::back_inserter(res), | ||
| [](const morphio::MitoSection& s) { return s.id(); }); | ||
| REQUIRE(res == std::vector<size_t>{0, 1}); | ||
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| res.clear(); | ||
| std::transform(rootSection.upstream_begin(), | ||
| rootSection.upstream_end(), | ||
| std::back_inserter(res), | ||
| [](const morphio::MitoSection& s) { return s.id(); }); | ||
| REQUIRE(res == std::vector<size_t>{0}); | ||
| } | ||
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| TEST_CASE("mitochondria.hasSameShape", "[mitochondria]") { | ||
| morphio::Morphology morph0 = morphio::Morphology("data/h5/v1/mitochondria.h5"); | ||
| morphio::Morphology morph1 = morphio::Morphology("data/h5/v1/mitochondria.h5"); | ||
| REQUIRE(morph0.rootSections().at(0).hasSameShape(morph1.rootSections().at(0))); | ||
| } |