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// ==========================================================================
// SeqAn - The Library for Sequence Analysis
// ==========================================================================
// Copyright (c) 2006-2026, Knut Reinert, FU Berlin
// All rights reserved.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted provided that the following conditions are met:
//
// * Redistributions of source code must retain the above copyright
// notice, this list of conditions and the following disclaimer.
// * Redistributions in binary form must reproduce the above copyright
// notice, this list of conditions and the following disclaimer in the
// documentation and/or other materials provided with the distribution.
// * Neither the name of Knut Reinert or the FU Berlin nor the names of
// its contributors may be used to endorse or promote products derived
// from this software without specific prior written permission.
//
// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
// AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
// IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
// ARE DISCLAIMED. IN NO EVENT SHALL KNUT REINERT OR THE FU BERLIN BE LIABLE
// FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
// DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
// SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
// CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
// LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY
// OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH
// DAMAGE.
//
// ==========================================================================
// Writing of alignment data structures to streams.
// ==========================================================================
#ifndef SEQAN_TESTS_ALIGN_TEST_ALIGN_STREAM_H_
#define SEQAN_TESTS_ALIGN_TEST_ALIGN_STREAM_H_
#include <sstream>
#include <seqan/align.h>
// Test function write() on Array Gaps.
SEQAN_DEFINE_TEST(test_align_stream_gaps_write)
{
seqan2::Gaps<seqan2::Dna5String> gaps;
assignSource(gaps, "CGATTTAT");
insertGaps(gaps, 8, 2);
insertGaps(gaps, 5, 1);
insertGaps(gaps, 0, 2);
std::stringstream ss;
ss << gaps;
std::stringstream expected;
expected << "--CGATT-TAT--";
SEQAN_ASSERT_EQ(expected.str(), ss.str());
}
// Test operator<<() on Array Gaps.
SEQAN_DEFINE_TEST(test_align_stream_gaps_stream)
{
seqan2::Gaps<seqan2::Dna5String> gaps;
assignSource(gaps, "CGATTTAT");
insertGaps(gaps, 8, 2);
insertGaps(gaps, 5, 1);
insertGaps(gaps, 0, 2);
std::stringstream ss;
ss << gaps;
std::stringstream expected;
expected << "--CGATT-TAT--";
SEQAN_ASSERT_EQ(expected.str(), ss.str());
}
// Test write() on Align.
SEQAN_DEFINE_TEST(test_align_stream_align_write)
{
seqan2::Align<seqan2::Dna5String> align;
resize(rows(align), 2);
assignSource(row(align, 0), "CGATTAGTG");
assignSource(row(align, 1), "ATTAGTA");
globalAlignment(align, seqan2::EditDistanceScore());
std::stringstream ss;
ss << align;
std::stringstream expected;
expected << " 0 . \n"
<< " CGATTAGTG\n"
<< " |||||| \n"
<< " --ATTAGTA\n\n\n";
SEQAN_ASSERT_EQ(expected.str(), ss.str());
}
// Test operator<<() on Align.
SEQAN_DEFINE_TEST(test_align_stream_align_stream)
{
seqan2::Align<seqan2::Dna5String> align;
resize(rows(align), 2);
assignSource(row(align, 0), "CGATTAGTG");
assignSource(row(align, 1), "ATTAGTA");
globalAlignment(align, seqan2::EditDistanceScore());
std::stringstream ss;
ss << align;
std::stringstream expected;
expected << " 0 . \n"
<< " CGATTAGTG\n"
<< " |||||| \n"
<< " --ATTAGTA\n\n\n";
SEQAN_ASSERT_EQ(expected.str(), ss.str());
}
#endif // SEQAN_TESTS_ALIGN_TEST_ALIGN_STREAM_H_
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