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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 <OpenMS/FORMAT/CompressedInputSource.h>
#include <OpenMS/FORMAT/GzipInputStream.h>
#include <OpenMS/FORMAT/Bzip2InputStream.h>
#include <OpenMS/FORMAT/HANDLERS/XMLHandler.h>
#include <xercesc/internal/MemoryManagerImpl.hpp>
#include <xercesc/util/XMLString.hpp>
#include <xercesc/util/PlatformUtils.hpp>
#include <xercesc/util/XMLUniDefs.hpp>
using namespace xercesc;
namespace OpenMS
{
CompressedInputSource::CompressedInputSource(const String & file_path, const char * header, MemoryManager * const manager) :
xercesc::InputSource(manager)
{
if (sizeof(header) / sizeof(char) > 1)
{
head_[0] = header[0];
head_[1] = header[1];
}
else
{
head_[0] = '\0';
head_[1] = '\0';
}
//
// If the path is relative, then complete it acording to the current
// working directory rules of the current platform. Else, just take
// it as is.
//
Internal::StringManager strman;
XMLCh * file = strman.convert(file_path.c_str());
if (xercesc::XMLPlatformUtils::isRelative(file, manager))
{
XMLCh * curDir = xercesc::XMLPlatformUtils::getCurrentDirectory(manager);
XMLSize_t curDirLen = XMLString::stringLen(curDir);
XMLSize_t filePathLen = XMLString::stringLen(file);
XMLCh * fullDir = (XMLCh *) manager->allocate
(
(curDirLen + filePathLen + 2) * sizeof(XMLCh)
); //new XMLCh [ curDirLen + filePathLen + 2];
XMLString::copyString(fullDir, curDir);
fullDir[curDirLen] = chForwardSlash;
XMLString::copyString(&fullDir[curDirLen + 1], file);
XMLPlatformUtils::removeDotSlash(fullDir, manager);
XMLPlatformUtils::removeDotDotSlash(fullDir, manager);
setSystemId(fullDir);
manager->deallocate(curDir); //delete [] curDir;
manager->deallocate(fullDir); //delete [] fullDir;
}
else
{
XMLCh * tmpBuf = XMLString::replicate(file, manager);
XMLPlatformUtils::removeDotSlash(tmpBuf, manager);
setSystemId(tmpBuf);
manager->deallocate(tmpBuf); //delete [] tmpBuf;
}
}
CompressedInputSource::CompressedInputSource(const XMLCh * const file, const char * header, MemoryManager * const manager) :
xercesc::InputSource(manager)
{
if (sizeof(header) / sizeof(char) > 1)
{
head_[0] = header[0];
head_[1] = header[1];
}
else
{
head_[0] = '\0';
head_[1] = '\0';
}
//
// If the path is relative, then complete it acording to the current
// working directory rules of the current platform. Else, just take
// it as is.
//
if (xercesc::XMLPlatformUtils::isRelative(file, manager))
{
XMLCh * curDir = xercesc::XMLPlatformUtils::getCurrentDirectory(manager);
XMLSize_t curDirLen = XMLString::stringLen(curDir);
XMLSize_t filePathLen = XMLString::stringLen(file);
XMLCh * fullDir = (XMLCh *) manager->allocate
(
(curDirLen + filePathLen + 2) * sizeof(XMLCh)
); //new XMLCh [ curDirLen + filePathLen + 2];
XMLString::copyString(fullDir, curDir);
fullDir[curDirLen] = chForwardSlash;
XMLString::copyString(&fullDir[curDirLen + 1], file);
XMLPlatformUtils::removeDotSlash(fullDir, manager);
XMLPlatformUtils::removeDotDotSlash(fullDir, manager);
setSystemId(fullDir);
manager->deallocate(curDir); //delete [] curDir;
manager->deallocate(fullDir); //delete [] fullDir;
}
else
{
XMLCh * tmpBuf = XMLString::replicate(file, manager);
XMLPlatformUtils::removeDotSlash(tmpBuf, manager);
setSystemId(tmpBuf);
manager->deallocate(tmpBuf); //delete [] tmpBuf;
}
}
CompressedInputSource::~CompressedInputSource()
{
}
BinInputStream * CompressedInputSource::makeStream() const
{
if (head_[0] == 'B' && head_[1] == 'Z')
{
Bzip2InputStream * retStrm = new Bzip2InputStream(Internal::StringManager().convert(getSystemId()));
if (!retStrm->getIsOpen())
{
delete retStrm;
return 0;
}
return retStrm;
}
else /* (bz[0] == g1 && bz[1] == g2), where char g1 = 0x1f and char g2 = 0x8b */
{
GzipInputStream * retStrm = new GzipInputStream(Internal::StringManager().convert(getSystemId()));
if (!retStrm->getIsOpen())
{
delete retStrm;
return 0;
}
return retStrm;
}
}
} // namespace OpenMS
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