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//
// testsharedrabundfloatvectors.cpp
// Mothur
//
// Created by Sarah Westcott on 8/14/18.
// Copyright © 2018 Schloss Lab. All rights reserved.
//
#include "testsharedrabundfloatvectors.hpp"
#include "dataset.h"
/**************************************************************************************************/
TestSharedRabundFloatVectors::TestSharedRabundFloatVectors() : SharedRAbundFloatVectors() { //setup
m = MothurOut::getInstance();
TestDataSet data; relabundFile = data.getRelabundFile();
}
/**************************************************************************************************/
TestSharedRabundFloatVectors::~TestSharedRabundFloatVectors() {}//teardown
/**************************************************************************************************/
TEST(Test_Container_SharedRabundFloatVectors, Constructors) {
TestSharedRabundFloatVectors test;
SharedRAbundFloatVectors temp;
EXPECT_EQ(temp.getNumBins(), 0);
ifstream in;
Utils util; util.openInputFile(test.relabundFile, in);
vector<string> userGroups; string nextLabel, labelTag;
SharedRAbundFloatVectors fileRead(in, userGroups, nextLabel, labelTag);
EXPECT_EQ(nextLabel, "");
EXPECT_EQ(labelTag, "Otu");
EXPECT_EQ(userGroups[0], "F003D000");
SharedRAbundFloatVectors copy(fileRead);
EXPECT_EQ(copy.getLabel(), "0.03");
EXPECT_EQ(labelTag, "Otu");
EXPECT_EQ(userGroups[0], "F003D000");
}
TEST(Test_Container_SharedRabundFloatVectors, GetsSets) {
TestSharedRabundFloatVectors test;
ifstream in;
Utils util; util.openInputFile(test.relabundFile, in);
vector<string> userGroups; string nextLabel, labelTag;
SharedRAbundFloatVectors fileRead(in, userGroups, nextLabel, labelTag);
EXPECT_EQ(nextLabel, "");
EXPECT_EQ(labelTag, "Otu");
EXPECT_EQ(userGroups[0], "F003D000");
//setLabels
fileRead.setLabels("0.99");
EXPECT_EQ(fileRead.getLabel(), "0.99");
//getOTUTotal
ASSERT_NEAR(fileRead.getOTUTotal(4), 0.615171, 0.001);
//getOTU
vector<float> otu5 = fileRead.getOTU(4);
ASSERT_NEAR(otu5[0], 0.0, 0.001);
ASSERT_NEAR(otu5[2], 0.055556, 0.001);
//get
ASSERT_NEAR(fileRead.get(4, "F003D000"), 0.0, 0.001);
ASSERT_NEAR(fileRead.get(4, "F003D002"), 0.111111, 0.001);
ASSERT_NEAR(fileRead.get(0, "F003D142"), 0.222222, 0.001);
//set
fileRead.set(4, 0.25, "F003D000");
ASSERT_NEAR(fileRead.get(4, "F003D000"), 0.25, 0.001);
fileRead.set(4, 0.1234, "F003D002");
ASSERT_NEAR(fileRead.get(4, "F003D002"), 0.1234, 0.001);
fileRead.set(0, 0.456, "F003D142");
ASSERT_NEAR(fileRead.get(0, "F003D142"), 0.456, 0.001);
//getOTUNames
vector<string> otuNames = fileRead.getOTUNames();
EXPECT_EQ(otuNames[10], "Otu11");
//setOTUNames
otuNames[5] = "Otu99";
fileRead.setOTUNames(otuNames);
EXPECT_EQ(fileRead.getOTUNames()[5], "Otu99");
EXPECT_EQ(fileRead.getOTUName(5), "Otu99");
fileRead.setOTUName(5, "Otu6");
EXPECT_EQ(fileRead.getOTUName(5), "Otu6");
//getNumBins
EXPECT_EQ(fileRead.getNumBins(), 58);
//getNumSeqsSmallestGroup
ASSERT_NEAR(fileRead.getNumSeqsSmallestGroup(), 1.0, 0.001);
//getNamesGroups
EXPECT_EQ(fileRead.getNamesGroups()[1], "F003D002");
//getNumGroups
EXPECT_EQ(fileRead.getNumGroups(), 10);
//getNumSeqs
ASSERT_NEAR(fileRead.getNumSeqs("F003D002"), 1.1234, 0.001); //1.0 + 0.1234 (set from above)
}
TEST(Test_Container_SharedRabundFloatVectors, PushBack) {
TestSharedRabundFloatVectors test;
ifstream in;
Utils util; util.openInputFile(test.relabundFile, in);
vector<string> userGroups; string nextLabel, labelTag;
SharedRAbundFloatVectors fileRead(in, userGroups, nextLabel, labelTag);
//getNumGroups
EXPECT_EQ(fileRead.getNumGroups(), 10);
vector<float> abunds(58, 0.5);
SharedRAbundFloatVector* temp = new SharedRAbundFloatVector(abunds);
temp->setGroup("myabunds");
fileRead.push_back(temp);
//getNumGroups
EXPECT_EQ(fileRead.getNumGroups(), 11);
}
TEST(Test_Container_SharedRabundFloatVectors, eliminateZeroOTUS) {
TestSharedRabundFloatVectors test;
ifstream in;
Utils util; util.openInputFile(test.relabundFile, in);
vector<string> userGroups; string nextLabel, labelTag;
SharedRAbundFloatVectors fileRead(in, userGroups, nextLabel, labelTag);
EXPECT_EQ(fileRead.getNumBins(), 58);
fileRead.set(16, 0, "F003D142");
EXPECT_EQ(fileRead.get(16, "F003D142"), 0); //zero out bin
fileRead.eliminateZeroOTUS(); //remove zeroed out bin
EXPECT_EQ(fileRead.getNumBins(), 57);
}
TEST(Test_Container_SharedRabundFloatVectors, Removes) {
TestSharedRabundFloatVectors test;
ifstream in;
Utils util; util.openInputFile(test.relabundFile, in);
vector<string> userGroups; string nextLabel, labelTag;
SharedRAbundFloatVectors fileRead(in, userGroups, nextLabel, labelTag);
EXPECT_EQ(fileRead.getNumBins(), 58);
ASSERT_NEAR(fileRead.removeOTU(16), 0.074074, 0.001);
EXPECT_EQ(fileRead.getNumBins(), 57);
vector<string> groups;
groups.push_back("F003D142");
groups.push_back("F003D002");
groups.push_back("F003D004");
groups.push_back("F003D006");
fileRead.removeGroups(groups);
EXPECT_EQ(fileRead.getNumBins(), 41);
ASSERT_NEAR(fileRead.getNumSeqsSmallestGroup(), 0.999999, 0.001);
fileRead.removeGroups(20); //remove groups with abundance less than 20
EXPECT_EQ(fileRead.getNumGroups(), 0);
}
TEST(Test_Container_SharedRabundFloatVectors, SizeClear) {
TestSharedRabundFloatVectors test;
ifstream in;
Utils util; util.openInputFile(test.relabundFile, in);
vector<string> userGroups; string nextLabel, labelTag;
SharedRAbundFloatVectors fileRead(in, userGroups, nextLabel, labelTag);
EXPECT_EQ(fileRead.size(), 10);
fileRead.clear();
EXPECT_EQ(fileRead.getNumBins(), 0);
}
TEST(Test_Container_SharedRabundFloatVectors, GetRabundVector) {
TestSharedRabundFloatVectors test;
ifstream in;
Utils util; util.openInputFile(test.relabundFile, in);
vector<string> userGroups; string nextLabel, labelTag;
SharedRAbundFloatVectors fileRead(in, userGroups, nextLabel, labelTag);
RAbundVector temp = fileRead.getRAbundVector();
EXPECT_EQ(temp.get(0), 1);
}
TEST(Test_Container_SharedRabundFloatVectors, GetSabundVector) {
TestSharedRabundFloatVectors test;
ifstream in;
Utils util; util.openInputFile(test.relabundFile, in);
vector<string> userGroups; string nextLabel, labelTag;
SharedRAbundFloatVectors fileRead(in, userGroups, nextLabel, labelTag);
SAbundVector temp = fileRead.getSAbundVector();
EXPECT_EQ(temp.get(0), 0); //number of OTUs with abundance of 5
EXPECT_EQ(temp.get(1), 1); //number of OTUs with abundance of 1
EXPECT_EQ(temp.getMaxRank(), 1);
}
TEST(Test_Container_SharedRabundFloatVectors, GetSharedRAbundVectors) {
TestSharedRabundFloatVectors test;
ifstream in;
Utils util; util.openInputFile(test.relabundFile, in);
vector<string> userGroups; string nextLabel, labelTag;
SharedRAbundFloatVectors fileRead(in, userGroups, nextLabel, labelTag);
vector<SharedRAbundVector*> temp = fileRead.getSharedRAbundVectors();
EXPECT_EQ(temp[0]->get(5), 0); //first groups abundance of OTU5
EXPECT_EQ(temp[1]->get(5), 0); //first groups abundance of OTU5
EXPECT_EQ(temp[0]->get(0), 0); //first groups abundance of OTU1
}
TEST(Test_Container_SharedRabundFloatVectors, GetSharedRAbundFloatVectors) {
TestSharedRabundFloatVectors test;
ifstream in;
Utils util; util.openInputFile(test.relabundFile, in);
vector<string> userGroups; string nextLabel, labelTag;
SharedRAbundFloatVectors fileRead(in, userGroups, nextLabel, labelTag);
vector<SharedRAbundFloatVector*> temp = fileRead.getSharedRAbundFloatVectors();
EXPECT_EQ(temp[0]->get(5), 0.0); //first groups abundance of OTU5 as a float.
ASSERT_NEAR(temp[1]->get(5), 0.111111, 0.001); //first groups abundance of OTU5 as a float.
ASSERT_NEAR(temp[0]->get(0), 0.05, 0.001); //first groups abundance of OTU1 as a float.
}
/**************************************************************************************************/
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