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/*
* =====================================================================================
*
* Filename: SeqUtils_gtest.cpp
*
* Description: Test pbdata/SeqUtils.hpp, SeqUtils_Impl.hpp
*
* Version: 1.0
* Created: 10/29/2012 05:21:58 PM
* Updated: 08/18/2014 05:49:51 PM
* Revision: none
* Compiler: gcc
*
* Author: Yuan Li (yli), yli@pacificbiosciences.com
* Company: Pacific Biosciences
*
* =====================================================================================
*/
#include "gtest/gtest.h"
#include "SeqUtils.hpp"
TEST(SeqUtils, OnlyACTG){
DNASequence seq;
Nucleotide seqnt[] = "ATGC";
seq.seq = seqnt;
seq.length = 4;
EXPECT_EQ(OnlyACTG(seq), 1);
Nucleotide seqnt1[] = "ATXYZ";
seq.seq = seqnt1;
seq.length = 5;
EXPECT_EQ(OnlyACTG(seq), 0);
}
TEST(SeqUtils, CountMasked){
DNASequence seq;
Nucleotide seqnt[] = "ATGCNNNNNNATGC";
seq.seq = seqnt;
seq.length = 14;
EXPECT_EQ(CountMasked(seq), 6);
}
TEST(SeqUtils, CountNotMasked){
DNASequence seq;
Nucleotide seqnt[] = "ATGCNNNNNNATGC";
seq.seq = seqnt;
seq.length = 14;
EXPECT_EQ(CountNotMasked(seq), 8);
}
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