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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: Andreas Bertsch $
// $Authors: Marc Sturm $
// --------------------------------------------------------------------------
#include <OpenMS/FORMAT/TextFile.h>
#include <OpenMS/CONCEPT/Exception.h>
#include <fstream>
#include <iostream>
using namespace std;
namespace OpenMS
{
TextFile::TextFile() :
StringList()
{
}
TextFile::~TextFile()
{
}
TextFile::TextFile(const String & filename, bool trim_lines, Int first_n) :
StringList()
{
load(filename, trim_lines, first_n);
}
void TextFile::load(const String & filename, bool trim_lines, Int first_n)
{
ifstream is(filename.c_str(), ios_base::in | ios_base::binary);
if (!is)
{
throw Exception::FileNotFound(__FILE__, __LINE__, __PRETTY_FUNCTION__, filename);
}
clear();
String str;
bool had_enough = false;
while (getline(is, str, '\n') && !had_enough)
{
// platform specific line endings:
// Windows LE: \r\n
// we now have a line with \r at the end: get rid of it
if (str.size() >= 1 && *str.rbegin() == '\r')
str = str.substr(0, str.size() - 1);
// Mac (OS<=9): \r
// we just read the whole file into a string: split it
StringList lines;
if (str.hasSubstring("\r"))
lines = StringList::create(str, '\r');
else
lines.push_back(str);
// Linux&MacOSX: \n
// nothing to do
for (Size i = 0; i < lines.size(); ++i)
{
str = lines[i];
if (trim_lines)
{
push_back(str.trim());
}
else
{
push_back(str);
}
if (first_n > -1 && (Int)(size()) == first_n)
{
had_enough = true;
break;
}
}
}
}
void TextFile::store(const String & filename)
{
ofstream os;
os.open(filename.c_str(), ofstream::out);
if (!os)
{
throw Exception::UnableToCreateFile(__FILE__, __LINE__, __PRETTY_FUNCTION__, filename);
}
for (Iterator it = begin(); it != end(); ++it)
{
if (it->hasSuffix("\n"))
{
if (it->hasSuffix("\r\n"))
{
os << it->chop(2) << "\n";
}
else
{
os << it->chop(1) << "\n";
}
}
else
{
os << *it << "\n";
}
}
os.close();
}
} // namespace OpenMS
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