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//
// testbiominfocommand.cpp
// Mothur
//
// Created by Sarah Westcott on 8/18/15.
// Copyright (c) 2015 Schloss Lab. All rights reserved.
//
#include "testbiominfocommand.h"
/**************************************************************************************************/
TestBiomInfoCommand::TestBiomInfoCommand() {
m = MothurOut::getInstance();
}
/**************************************************************************************************/
TestBiomInfoCommand::~TestBiomInfoCommand() { }
/**************************************************************************************************/
TEST(Test_Command_BiomInfo, getDims) {
TestBiomInfoCommand testTrim;
string input = "shape: [28,3]";
int numRows = 0; int numCols = 0;
testTrim.getDims(input, numRows, numCols);
EXPECT_EQ(28, numRows);
EXPECT_EQ(3, numCols);
}
TEST(Test_Command_BiomInfo, getName) {
TestBiomInfoCommand testTrim;
string input = "id:B";
EXPECT_EQ("B", testTrim.getName(input));
}
TEST(Test_Command_BiomInfo, getTaxonomy) {
TestBiomInfoCommand testTrim;
string tax = "taxonomy:k__Bacteria,p__Firmicutes,c__Bacilli,o__Turicibacterales,f__Turicibacteraceae,g__Turicibacter,s__";
string boot = "bootstrap:100,100,100,100,100,100,100";
EXPECT_EQ("k__Bacteria(100);p__Firmicutes(100);c__Bacilli(100);o__Turicibacterales(100);f__Turicibacteraceae(100);g__Turicibacter(100);s__(100);", testTrim.getTaxonomy(tax, boot));
}
TEST(Test_Command_BiomInfo, readRows) {
TestBiomInfoCommand testTrim;
string input = "columns:[{id:A, metadata:null},{id:B, metadata:null},{id:C, metadata:null}]";
int numRows = 0;
bool hasTaxonomy = true;
EXPECT_EQ("A", testTrim.readRows(input, numRows, hasTaxonomy)[0][0]);
EXPECT_EQ(3, numRows);
EXPECT_EQ(false, hasTaxonomy);
}
TEST(Test_Command_BiomInfo, readData) {
TestBiomInfoCommand testTrim;
string input = "data: [[0,2,5], [1,2,5], [2,1,2], [3,1,1], [4,1,1], [5,0,18], [5,1,12], [6,0,15], [6,1,4], [7,0,1], [7,1,1], [8,1,1], [9,0,2], [9,1,6], [9,2,4], [10,1,2], [11,0,5], [11,1,1], [11,2,4], [12,0,1], [13,0,1], [13,1,2], [14,1,2], [15,1,5], [16,0,8], [16,1,1], [17,1,2], [18,0,13], [19,0,2], [19,1,1], [20,0,15], [20,1,27], [20,2,11], [21,1,10], [22,2,18], [23,2,5], [24,0,1], [24,2,20], [25,1,2], [25,2,2], [26,0,1], [26,1,1], [27,0,1]]""";
string matrixFormat = "sparse";
string matrixElementType = "int";
vector<string> groupNames; groupNames.push_back("A"); groupNames.push_back("B"); groupNames.push_back("C");
int numOtus = 28;
EXPECT_EQ(12, testTrim.readData(matrixFormat, input, matrixElementType, groupNames, numOtus)->getOTUTotal(9));
}
/**************************************************************************************************/
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