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/*
* =====================================================================================
*
* Filename: QualityValueVector_gtest.cpp
*
* Description: Test pbdata/qvs/QualityValueVector.hpp
*
* Version: 1.0
* Created: 03/28/2015 05:21:58 PM
* Revision: none
* Compiler: gcc
*
* Author: Yuan Li (yli), yli@pacificbiosciences.com
* Company: Pacific Biosciences
*
* =====================================================================================
*/
#include <gtest/gtest.h>
#include <pbdata/qvs/QualityValue.hpp>
#include <pbdata/qvs/QualityValueVector.hpp>
const std::string qvstr = "!#$%0123:;ABab{|}~";
std::vector<uint8_t> data = {0, 2, 3, 4, 15, 16, 17, 18, 25, 26, 32, 33, 64, 65, 90, 91, 92, 93};
std::vector<uint8_t> data2 = {1, 1, 17, 18, 25, 26, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1};
TEST(QualityValueVectorTest, Copy)
{
EXPECT_EQ(qvstr.size(), data.size());
QualityValueVector<QualityValue> qual;
EXPECT_TRUE(qual.Empty());
// Copy qvs from a string
qual.Copy(qvstr);
EXPECT_FALSE(qual.Empty());
for (size_t i = 0; i < qvstr.size(); i++) {
EXPECT_EQ(static_cast<uint8_t>(qual.data[i]), data[i]);
}
}
TEST(QualityValueVectorTest, ToString)
{
QualityValueVector<QualityValue> qual;
qual.Copy(qvstr);
// Test ToString()
EXPECT_EQ(qual.ToString(), qvstr);
EXPECT_EQ(static_cast<size_t>(qual.Length()), qvstr.size());
}
TEST(QualityValueVetorTest, Fill)
{
QualityValueVector<QualityValue> qual;
qual.Copy(qvstr);
// First fill with all 1s
QualityValueVector<QualityValue> qual2;
EXPECT_TRUE(qual2.Empty());
qual2.Allocate(qvstr.size());
qual2.Fill(1);
EXPECT_FALSE(qual2.Empty());
EXPECT_EQ(qual2.Length(), qvstr.size());
for (size_t i = 0; i < qual2.Length(); i++) {
EXPECT_EQ(qual2.data[i], 1);
}
// Create qual3
QualityValueVector<QualityValue> qual3;
qual3.Copy(qvstr.substr(5, 5)); //qual3.data[0..5] = {16,17,18,25,26}
EXPECT_EQ(qual3.Length(), 5u);
// Then fill qual2.data[2, ..., 6) with data from qual3.data[1, ...,5)
qual2.Fill(2, 4, qual3, 1);
for (size_t i = 0; i < qual2.Length(); i++) {
EXPECT_EQ(qual2.data[i], data2[i]);
}
}
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