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// --------------------------------------------------------------------------
// OpenMS -- Open-Source Mass Spectrometry
// --------------------------------------------------------------------------
// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
// ETH Zurich, and Freie Universitaet Berlin 2002-2013.
//
// This software is released under a three-clause BSD license:
// * 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 any author or any participating institution
// may be used to endorse or promote products derived from this software
// without specific prior written permission.
// For a full list of authors, refer to the file AUTHORS.
// --------------------------------------------------------------------------
// 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 ANY OF THE AUTHORS OR THE CONTRIBUTING
// INSTITUTIONS 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.
//
// --------------------------------------------------------------------------
// $Maintainer: David Wojnar $
// $Authors: David Wojnar $
// --------------------------------------------------------------------------
#include <iostream>
#include <OpenMS/FORMAT/Bzip2Ifstream.h>
#include <OpenMS/CONCEPT/Exception.h>
#include <cstdlib>
using namespace std;
namespace OpenMS
{
Bzip2Ifstream::Bzip2Ifstream(const char * filename) :
n_buffer_(0), stream_at_end_(false)
{
file_ = fopen(filename, "rb"); //read binary: always open in binary mode because windows and mac open in text mode
//aborting, ahhh!
if (!file_)
{
throw Exception::FileNotFound(__FILE__, __LINE__, __PRETTY_FUNCTION__, filename);
}
bzip2file_ = BZ2_bzReadOpen(&bzerror_, file_, 0, 0, NULL, 0);
if (bzerror_ != BZ_OK)
{
close();
throw Exception::ConversionError(__FILE__, __LINE__, __PRETTY_FUNCTION__, "bzip2 compression failed: ");
}
}
Bzip2Ifstream::Bzip2Ifstream() :
file_(NULL), bzip2file_(NULL), n_buffer_(0), bzerror_(0), stream_at_end_(true)
{
}
Bzip2Ifstream::~Bzip2Ifstream()
{
close();
}
size_t Bzip2Ifstream::read(char * s, size_t n)
{
if (bzip2file_ != NULL)
{
bzerror_ = BZ_OK;
n_buffer_ = BZ2_bzRead(&bzerror_, bzip2file_, s, (unsigned int)n /* size of buf */);
if (bzerror_ == BZ_OK)
{
return n_buffer_;
}
else if (bzerror_ != BZ_STREAM_END)
{
close();
throw Exception::ParseError(__FILE__, __LINE__, __PRETTY_FUNCTION__, " ", "bzip2 compression failed: ");
}
else
{
close();
return n_buffer_;
}
}
else
{
throw Exception::IllegalArgument(__FILE__, __LINE__, __PRETTY_FUNCTION__, "no file for decompression initialized");
}
}
void Bzip2Ifstream::open(const char * filename)
{
close();
file_ = fopen(filename, "rb"); //read binary: always open in binary mode because windows and mac open in text mode
//aborting, ahhh!
if (!file_)
{
throw Exception::FileNotFound(__FILE__, __LINE__, __PRETTY_FUNCTION__, filename);
}
bzip2file_ = BZ2_bzReadOpen(&bzerror_, file_, 0, 0, NULL, 0);
if (bzerror_ != BZ_OK)
{
close();
throw Exception::ConversionError(__FILE__, __LINE__, __PRETTY_FUNCTION__, "bzip2 compression failed: ");
}
stream_at_end_ = false;
}
void Bzip2Ifstream::close()
{
if (bzip2file_ != NULL)
{
BZ2_bzReadClose(&bzerror_, bzip2file_);
}
if (file_ != NULL)
{
fclose(file_);
}
file_ = NULL;
bzip2file_ = NULL;
stream_at_end_ = true;
}
} //namespace OpenMS
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