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TransitionPQPFile.h
Go to the documentation of this file.
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// --------------------------------------------------------------------------
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// OpenMS -- Open-Source Mass Spectrometry
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// --------------------------------------------------------------------------
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// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
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// ETH Zurich, and Freie Universitaet Berlin 2002-2020.
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//
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// This software is released under a three-clause BSD license:
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// * Redistributions of source code must retain the above copyright
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// notice, this list of conditions and the following disclaimer.
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// * Redistributions in binary form must reproduce the above copyright
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// notice, this list of conditions and the following disclaimer in the
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// documentation and/or other materials provided with the distribution.
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// * Neither the name of any author or any participating institution
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// may be used to endorse or promote products derived from this software
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// without specific prior written permission.
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// For a full list of authors, refer to the file AUTHORS.
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// --------------------------------------------------------------------------
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// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
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// AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
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// IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
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// ARE DISCLAIMED. IN NO EVENT SHALL ANY OF THE AUTHORS OR THE CONTRIBUTING
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// INSTITUTIONS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
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// EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
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// PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;
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// OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
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// WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR
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// OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF
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// ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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//
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// --------------------------------------------------------------------------
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// $Maintainer: George Rosenberger $
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// $Authors: George Rosenberger, Hannes Roest $
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// --------------------------------------------------------------------------
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#pragma once
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#include <
OpenMS/ANALYSIS/OPENSWATH/TransitionTSVFile.h
>
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#include <boost/range/algorithm.hpp>
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#include <boost/range/algorithm_ext/erase.hpp>
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#include <iostream>
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namespace
OpenMS
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{
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class
OPENMS_DLLAPI
TransitionPQPFile
:
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public
TransitionTSVFile
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{
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private
:
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void
readPQPInput_(
const
char
* filename, std::vector<TSVTransition>& transition_list,
bool
legacy_traml_id =
false
);
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void
writePQPOutput_(
const
char
* filename,
OpenMS::TargetedExperiment
& targeted_exp);
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public
:
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TransitionPQPFile
();
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~
TransitionPQPFile
()
override
;
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void
convertTargetedExperimentToPQP(
const
char
* filename,
OpenMS::TargetedExperiment
& targeted_exp);
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void
convertPQPToTargetedExperiment(
const
char
* filename,
OpenMS::TargetedExperiment
& targeted_exp,
bool
legacy_traml_id =
false
);
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void
convertPQPToTargetedExperiment(
const
char
* filename,
OpenSwath::LightTargetedExperiment
& targeted_exp,
bool
legacy_traml_id =
false
);
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};
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}
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OpenMS::TransitionTSVFile
This class supports reading and writing of OpenSWATH transition lists.
Definition:
TransitionTSVFile.h:144
OpenMS::TransitionPQPFile
This class supports reading and writing of PQP files.
Definition:
TransitionPQPFile.h:219
TransitionTSVFile.h
OpenSwath::LightTargetedExperiment
Definition:
TransitionExperiment.h:207
OpenMS
Main OpenMS namespace.
Definition:
FeatureDeconvolution.h:46
OpenMS::TargetedExperiment
A description of a targeted experiment containing precursor and production ions.
Definition:
TargetedExperiment.h:64
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