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pwiz
analysis
spectrum_processing
SpectrumList_ZeroSamplesFilter.hpp
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//
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// $Id: SpectrumList_ZeroSamplesFilter.hpp 3550 2012-04-18 16:23:06Z chambm $
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//
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//
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// Original author: Brian Pratt <brian.pratt <a.t> insilicos.com>
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//
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// Copyright 2012 Spielberg Family Center for Applied Proteomics
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// University of Southern California, Los Angeles, California 90033
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//
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// Licensed under the Apache License, Version 2.0 (the "License");
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// you may not use this file except in compliance with the License.
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// You may obtain a copy of the License at
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//
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// http://www.apache.org/licenses/LICENSE-2.0
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//
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// Unless required by applicable law or agreed to in writing, software
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// distributed under the License is distributed on an "AS IS" BASIS,
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// WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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// See the License for the specific language governing permissions and
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// limitations under the License.
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//
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#ifndef _SPECTRUMLIST_ZEROSAMPLESFILTER_HPP_
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#define _SPECTRUMLIST_ZEROSAMPLESFILTER_HPP_
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#include "
pwiz/utility/misc/Export.hpp
"
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#include "
pwiz/utility/misc/IntegerSet.hpp
"
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#include "
pwiz/data/msdata/SpectrumListWrapper.hpp
"
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namespace
pwiz {
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namespace
analysis {
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/// SpectrumList implementation to return spectra with or without extra zero samples
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class
PWIZ_API_DECL
SpectrumList_ZeroSamplesFilter
:
public
msdata::SpectrumListWrapper
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{
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public
:
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enum
Mode
{
Mode_RemoveExtraZeros
, Mode_AddMissingZeros};
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SpectrumList_ZeroSamplesFilter
(
const
msdata::SpectrumListPtr
& inner,
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const
util::IntegerSet
& msLevelsToFilter,
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Mode mode,
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size_t
FlankingZeroCount);
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static
bool
accept(
const
msdata::SpectrumListPtr
& inner);
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virtual
msdata::SpectrumPtr
spectrum(
size_t
index,
bool
getBinaryData =
false
)
const
;
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private
:
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const
Mode
mode_
;
// Mode_RemoveExtraZeros or Mode_AddMissingZeros
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const
size_t
flankingZeroCount_
;
// used if adding missing zeros
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const
util::IntegerSet
msLevelsToFilter_
;
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};
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}
// namespace analysis
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}
// namespace pwiz
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#endif // _SPECTRUMLIST_ZEROSAMPLESFILTER_HPP_
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