Copyright for libpwiz source package in Lunar

Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
Upstream-Name: libpwiz
Source: http://proteowizard.sourceforge.net/downloads.shtml


License: Apache-2.0
 Apache License Version 2.0
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 Licensed under the Apache License, Version 2.0 (the "License");
 you may not use this file except in compliance with the License.
 You may obtain a copy of the License at
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 http://www.apache.org/licenses/LICENSE-2.0
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 distributed under the License is distributed on an "AS IS" BASIS,
 WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 See the License for the specific language governing permissions and
 limitations under the License.


License: BSL-1.0
 Boost Software License - Version 1.0
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 Permission is hereby granted, free of charge, to any person or organization
 obtaining a copy of the software and accompanying documentation covered by
 this license (the "Software") to use, reproduce, display, distribute,
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 Software, and to permit third-parties to whom the Software is furnished to
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 The copyright notices in the Software and this entire statement, including
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 SHALL THE COPYRIGHT HOLDERS OR ANYONE DISTRIBUTING THE SOFTWARE BE LIABLE
 FOR ANY DAMAGES OR OTHER LIABILITY, WHETHER IN CONTRACT, TORT OR OTHERWISE,
 ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
 DEALINGS IN THE SOFTWARE.


License: Zlib
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 This software is provided 'as-is', without any express or implied
 warranty.  In no event will the authors be held liable for any damages
 arising from the use of this software.
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 Permission is granted to anyone to use this software for any purpose,
 including commercial applications, and to alter it and redistribute it
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 1. The origin of this software must not be misrepresented; you must
    not claim that you wrote the original software. If you use this
    software in a product, an acknowledgment in the product
    documentation would be appreciated but is not required.
 2. Altered source versions must be plainly marked as such, and must
    not be misrepresented as being the original software.
 3. This notice may not be removed or altered from any source
    distribution.


License: BSD-2-clause
 BSD 2-clause "Simplified" License
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 Redistribution and use in source and binary forms, with or without modification,
 are permitted provided that the following conditions are met:
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 1. Redistributions of source code must retain the above copyright notice, this
 list of conditions and the following disclaimer. 
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 2. 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.
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 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
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 WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
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 (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
 SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.



Files: libraries/boost_aux/boost/nowide/args.hpp
 libraries/boost_aux/boost/nowide/cenv.hpp
 libraries/boost_aux/boost/nowide/config.hpp
 libraries/boost_aux/boost/nowide/convert.hpp
 libraries/boost_aux/boost/nowide/cstdio.hpp
 libraries/boost_aux/boost/nowide/cstdlib.hpp
 libraries/boost_aux/boost/nowide/filebuf.hpp
 libraries/boost_aux/boost/nowide/fstream.hpp
 libraries/boost_aux/boost/nowide/iostream.hpp
 libraries/boost_aux/boost/nowide/stackstring.hpp
 libraries/boost_aux/boost/nowide/system.hpp
 libraries/boost_aux/boost/nowide/windows.hpp
 libraries/boost_aux/libs/nowide/src/iostream.cpp
Copyright: 2012, Artyom Beilis (Tonkikh)
License: BSL-1.0

Files: libraries/boost_aux/tools/bcp/add_dependent_lib.cpp
 libraries/boost_aux/tools/bcp/add_path.cpp
 libraries/boost_aux/tools/bcp/bcp.hpp
 libraries/boost_aux/tools/bcp/bcp_imp.cpp
 libraries/boost_aux/tools/bcp/bcp_imp.hpp
 libraries/boost_aux/tools/bcp/copy_path.cpp
 libraries/boost_aux/tools/bcp/file_types.cpp
 libraries/boost_aux/tools/bcp/fileview.cpp
 libraries/boost_aux/tools/bcp/fileview.hpp
 libraries/boost_aux/tools/bcp/licence_info.hpp
 libraries/boost_aux/tools/bcp/main.cpp
 libraries/boost_aux/tools/bcp/output_licence_info.cpp
 libraries/boost_aux/tools/bcp/path_operations.cpp
Copyright: 2003, Dr John Maddock
  2009, Dr John Maddock
License: BSL-1.0

Files: libraries/boost_aux/boost/utility/detail/member_dereference.hpp
 libraries/boost_aux/boost/utility/detail/restricted.hpp
 libraries/boost_aux/boost/utility/detail/singleton_manager.hpp
 libraries/boost_aux/boost/utility/mutexed_singleton.hpp
 libraries/boost_aux/boost/utility/singleton.hpp
 libraries/boost_aux/boost/utility/thread_specific_singleton.hpp
Copyright: 2007, Tobias Schwinger
License: BSL-1.0

Files: libraries/boost_aux/boost/enum.hpp
 libraries/boost_aux/boost/enum/base.hpp
 libraries/boost_aux/boost/enum/bitfield.hpp
 libraries/boost_aux/boost/enum/iterator.hpp
 libraries/boost_aux/boost/enum/macros.hpp
Copyright: 2005, Frank Laub
License: BSL-1.0

Files: libraries/boost_aux/libs/thread/src/win32/tss_pe-before_1_44.cpp
 libraries/boost_aux/libs/thread/src/win32/tss_pe.cpp
Copyright: 2007, Anthony Williams
  2007, David Deakins
  2007, Roland Schwarz
  Aaron W. LaFramboise, Roland Schwarz, Michael Glassford 2004.
License: BSL-1.0

Files: libraries/boost_aux/boost/iostreams/arbitrary_positional_facade.hpp
 libraries/boost_aux/boost/iostreams/filter/base64.hpp
Copyright: 2006, 2007, Takeshi Mouri
License: BSL-1.0

Files: libraries/libsvm-3.0/svm.cpp
 libraries/libsvm-3.0/svm.h
Copyright: 2000-2010, Chih-Chung Chang 
 2000-2010, Chih-Jen Lin
License: BSD-2-clause

Files: libraries/CSpline/CSpline.cpp
 libraries/CSpline/CSpline.h
Copyright: 2014, James Bremner
License: BSD-2-clause

Files: libraries/libsvm-3.0/svm-model2code.cpp
Copyright: 2010, Vanderbilt University - Nashville, TN 37232
License: Apache-2.0

Files: libraries/boost_aux/tools/bcp/scan_cvs_path.cpp
Copyright: 2003, -7 John Maddock
  2007, Bjorn Roald
License: BSL-1.0

Files: libraries/boost_aux/boost/foreach_field.hpp
Copyright: 2009, Chris Purcell.
License: BSL-1.0

Files: libraries/boost_aux/tools/bcp/scan_licence.cpp
Copyright: 2003, Dr John Maddock
License: BSL-1.0

Files: libraries/boost_aux/boost/interprocess/detail/win32_api.hpp
Copyright: Ion Gaztanaga 2005-2012. Distributed under the Boost
License: BSL-1.0

Files: libraries/boost_aux/tools/bcp/licence_info.cpp
Copyright: 2003 Dr John Maddock
License: BSL-1.0

Files: pwiz/Version.hpp
 pwiz/analysis/chromatogram_processing/ChromatogramListFactory.cpp
 pwiz/analysis/chromatogram_processing/ChromatogramListFactory.hpp
 pwiz/analysis/chromatogram_processing/ChromatogramListFactoryTest.cpp
 pwiz/analysis/chromatogram_processing/ChromatogramListWrapper.hpp
 pwiz/analysis/chromatogram_processing/ChromatogramListWrapperTest.cpp
 pwiz/analysis/chromatogram_processing/ChromatogramList_Filter.cpp
 pwiz/analysis/chromatogram_processing/ChromatogramList_Filter.hpp
 pwiz/analysis/chromatogram_processing/ChromatogramList_FilterTest.cpp
 pwiz/analysis/chromatogram_processing/ChromatogramList_XICGenerator.cpp
 pwiz/analysis/chromatogram_processing/ChromatogramList_XICGenerator.hpp
 pwiz/analysis/chromatogram_processing/ChromatogramList_SavitzkyGolaySmoother.cpp
 pwiz/analysis/chromatogram_processing/ChromatogramList_SavitzkyGolaySmoother.hpp
 pwiz/analysis/chromatogram_processing/SavitzkyGolaySmoother.hpp
 pwiz/analysis/chromatogram_processing/SavitzkyGolaySmootherTest.cpp
 pwiz/analysis/common/CwtPeakDetectorTest.cpp
 pwiz/analysis/common/ExtraZeroSamplesFilter.cpp
 pwiz/analysis/common/ExtraZeroSamplesFilter.hpp
 pwiz/analysis/common/ExtraZeroSamplesFilterTest.cpp
 pwiz/analysis/common/LocalMaximumPeakDetectorTest.cpp
 pwiz/analysis/common/SavitzkyGolaySmootherTest.cpp
 pwiz/analysis/common/WhittakerSmootherTest.cpp
 pwiz/analysis/common/ZeroSampleFillerTest.cpp
 pwiz/analysis/frequency/MagnitudeLorentzianTestData.cpp
 pwiz/analysis/frequency/MagnitudeLorentzianTestData.hpp
 pwiz/analysis/passive/MSDataAnalyzer.cpp
 pwiz/analysis/passive/MSDataAnalyzer.hpp
 pwiz/analysis/passive/MSDataAnalyzerTest.cpp
 pwiz/analysis/passive/MSDataCache.cpp
 pwiz/analysis/passive/MSDataCache.hpp
 pwiz/analysis/passive/MSDataCacheTest.cpp
 pwiz/analysis/passive/MetadataReporter.cpp
 pwiz/analysis/passive/MetadataReporter.hpp
 pwiz/analysis/passive/PepXMLCat.cpp
 pwiz/analysis/passive/PepXMLCat.hpp
 pwiz/analysis/passive/RegionAnalyzer.cpp
 pwiz/analysis/passive/RegionAnalyzer.hpp
 pwiz/analysis/passive/RegionSIC.cpp
 pwiz/analysis/passive/RegionSIC.hpp
 pwiz/analysis/passive/RegionSlice.cpp
 pwiz/analysis/passive/RegionSlice.hpp
 pwiz/analysis/passive/RegionTIC.cpp
 pwiz/analysis/passive/RegionTIC.hpp
 pwiz/analysis/passive/SpectrumBinaryData.cpp
 pwiz/analysis/passive/SpectrumBinaryData.hpp
 pwiz/analysis/passive/SpectrumTable.cpp
 pwiz/analysis/passive/SpectrumTable.hpp
 pwiz/analysis/peakdetect/FeatureDetector.hpp
 pwiz/analysis/peakdetect/FeatureDetectorSimple.cpp
 pwiz/analysis/peakdetect/FeatureDetectorSimple.hpp
 pwiz/analysis/peakdetect/FeatureDetectorSimpleTest.cpp
 pwiz/analysis/peakdetect/PeakFamilyDetector.cpp
 pwiz/analysis/peakdetect/PeakFamilyDetector.hpp
 pwiz/analysis/peakdetect/PeakFamilyDetectorFT.cpp
 pwiz/analysis/peakdetect/PeakFamilyDetectorFT.hpp
 pwiz/analysis/peakdetect/PeakFamilyDetectorFTTest.cpp
 pwiz/analysis/peakdetect/PeakFamilyDetectorFTTestData.cpp
 pwiz/analysis/peakdetect/msextract.cpp
 pwiz/analysis/peptideid/PeptideID.hpp
 pwiz/analysis/peptideid/PeptideIDMap.cpp
 pwiz/analysis/peptideid/PeptideIDMap.hpp
 pwiz/analysis/peptideid/PeptideIDMapTest.cpp
 pwiz/analysis/peptideid/PeptideID_flat.cpp
 pwiz/analysis/peptideid/PeptideID_flat.hpp
 pwiz/analysis/peptideid/PeptideID_flatTest.cpp
 pwiz/analysis/peptideid/PeptideID_pepXML.cpp
 pwiz/analysis/peptideid/PeptideID_pepXML.hpp
 pwiz/analysis/peptideid/PeptideID_pepXMLTest.cpp
 pwiz/analysis/spectrum_processing/PrecursorRecalculator.hpp
 pwiz/analysis/spectrum_processing/PrecursorRecalculatorDefault.cpp
 pwiz/analysis/spectrum_processing/PrecursorRecalculatorDefault.hpp
 pwiz/analysis/spectrum_processing/PrecursorRecalculatorDefaultTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumListFactory.cpp
 pwiz/analysis/spectrum_processing/SpectrumListFactory.hpp
 pwiz/analysis/spectrum_processing/SpectrumListFactoryTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_Filter.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_Filter.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_FilterTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_PrecursorRecalculator.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_PrecursorRecalculator.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_PrecursorRecalculatorTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_SorterTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_ZeroSamplesFilter.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_ZeroSamplesFilter.hpp
 pwiz/data/common/CVTranslator.cpp
 pwiz/data/common/CVTranslator.hpp
 pwiz/data/common/CVTranslatorTest.cpp
 pwiz/data/common/ParamTypes.cpp
 pwiz/data/common/ParamTypes.hpp
 pwiz/data/common/ParamTypesTest.cpp
 pwiz/data/common/cv.cpp
 pwiz/data/common/cv.inl
 pwiz/data/common/cvtest.cpp
 pwiz/data/common/diff_std.cpp
 pwiz/data/common/diff_std.hpp
 pwiz/data/common/diff_std_test.cpp
 pwiz/data/common/obo.cpp
 pwiz/data/common/obo.hpp
 pwiz/data/common/obotest.cpp
 pwiz/data/identdata/DefaultReaderList.cpp
 pwiz/data/identdata/DefaultReaderList.hpp
 pwiz/data/identdata/DelimReader.cpp
 pwiz/data/identdata/DelimReader.hpp
 pwiz/data/identdata/DelimWriter.cpp
 pwiz/data/identdata/DelimWriter.hpp
 pwiz/data/identdata/Diff.cpp
 pwiz/data/identdata/Diff.hpp
 pwiz/data/identdata/DiffTest.cpp
 pwiz/data/identdata/ExtendedReadTest.cpp
 pwiz/data/identdata/IO.cpp
 pwiz/data/identdata/IO.hpp
 pwiz/data/identdata/IOTest.cpp
 pwiz/data/identdata/IdentData.cpp
 pwiz/data/identdata/IdentData.hpp
 pwiz/data/identdata/IdentDataFile.cpp
 pwiz/data/identdata/IdentDataFile.hpp
 pwiz/data/identdata/IdentDataTest.cpp
 pwiz/data/identdata/KwCVMap.cpp
 pwiz/data/identdata/KwCVMap.hpp
 pwiz/data/identdata/KwCVMapTest.cpp
 pwiz/data/identdata/MascotReader.hpp
 pwiz/data/identdata/MzidPredicates.hpp
 pwiz/data/identdata/Pep2MzIdent.cpp
 pwiz/data/identdata/Pep2MzIdent.hpp
 pwiz/data/identdata/Pep2MzIdentTest.cpp
 pwiz/data/identdata/Reader.cpp
 pwiz/data/identdata/Reader.hpp
 pwiz/data/identdata/ReaderTest.cpp
 pwiz/data/identdata/References.cpp
 pwiz/data/identdata/References.hpp
 pwiz/data/identdata/ReferencesTest.cpp
 pwiz/data/identdata/Serializer_Text.cpp
 pwiz/data/identdata/Serializer_Text.hpp
 pwiz/data/identdata/Serializer_Text_Test.cpp
 pwiz/data/identdata/Serializer_mzid.cpp
 pwiz/data/identdata/Serializer_mzid.hpp
 pwiz/data/identdata/Serializer_mzid_Test.cpp
 pwiz/data/identdata/Serializer_protXML.cpp
 pwiz/data/identdata/Serializer_protXML.hpp
 pwiz/data/identdata/Serializer_protXML_Test.cpp
 pwiz/data/identdata/TextWriter.hpp
 pwiz/data/identdata/examples.cpp
 pwiz/data/identdata/examples.hpp
 pwiz/data/misc/FrequencyDataTestData.cpp
 pwiz/data/misc/FrequencyDataTestData.hpp
 pwiz/data/misc/MinimumPepXML.cpp
 pwiz/data/misc/MinimumPepXML.hpp
 pwiz/data/misc/MinimumPepXMLTest.cpp
 pwiz/data/misc/PeakData.cpp
 pwiz/data/misc/PeakData.hpp
 pwiz/data/misc/PeakDataTest.cpp
 pwiz/data/msdata/BinaryDataEncoder.cpp
 pwiz/data/msdata/BinaryDataEncoder.hpp
 pwiz/data/msdata/BinaryDataEncoderTest.cpp
 pwiz/data/msdata/ChromatogramListBase.hpp
 pwiz/data/msdata/ChromatogramListBaseTest.cpp
 pwiz/data/msdata/ChromatogramList_mzML.cpp
 pwiz/data/msdata/ChromatogramList_mzML.hpp
 pwiz/data/msdata/ChromatogramList_mzML_Test.cpp
 pwiz/data/msdata/DefaultReaderList.cpp
 pwiz/data/msdata/DefaultReaderList.hpp
 pwiz/data/msdata/Diff.cpp
 pwiz/data/msdata/Diff.hpp
 pwiz/data/msdata/DiffTest.cpp
 pwiz/data/msdata/IO.cpp
 pwiz/data/msdata/IO.hpp
 pwiz/data/msdata/IOTest.cpp
 pwiz/data/msdata/LegacyAdapter.cpp
 pwiz/data/msdata/LegacyAdapter.hpp
 pwiz/data/msdata/LegacyAdapterTest.cpp
 pwiz/data/msdata/MSData.cpp
 pwiz/data/msdata/MSData.hpp
 pwiz/data/msdata/MSDataFile.cpp
 pwiz/data/msdata/MSDataFile.hpp
 pwiz/data/msdata/MSDataFileTest.cpp
 pwiz/data/msdata/MSDataTest.cpp
 pwiz/data/msdata/MSnReaderTest.cpp
 pwiz/data/msdata/Reader.cpp
 pwiz/data/msdata/Reader.hpp
 pwiz/data/msdata/ReaderTest.cpp
 pwiz/data/msdata/References.cpp
 pwiz/data/msdata/References.hpp
 pwiz/data/msdata/ReferencesTest.cpp
 pwiz/data/msdata/SHA1OutputObserver.hpp
 pwiz/data/msdata/Serializer_mzML.cpp
 pwiz/data/msdata/Serializer_mzML.hpp
 pwiz/data/msdata/Serializer_mzML_Test.cpp
 pwiz/data/msdata/Serializer_mzXML.cpp
 pwiz/data/msdata/Serializer_mzXML.hpp
 pwiz/data/msdata/Serializer_mzXML_Test.cpp
 pwiz/data/msdata/SpectrumInfo.cpp
 pwiz/data/msdata/SpectrumInfo.hpp
 pwiz/data/msdata/SpectrumInfoTest.cpp
 pwiz/data/msdata/SpectrumIterator.cpp
 pwiz/data/msdata/SpectrumIterator.hpp
 pwiz/data/msdata/SpectrumIteratorTest.cpp
 pwiz/data/msdata/SpectrumListBase.hpp
 pwiz/data/msdata/SpectrumListBaseTest.cpp
 pwiz/data/msdata/SpectrumListWrapper.hpp
 pwiz/data/msdata/SpectrumListWrapperTest.cpp
 pwiz/data/msdata/SpectrumList_MGF_Test.cpp
 pwiz/data/msdata/SpectrumList_MSn_Test.cpp
 pwiz/data/msdata/SpectrumList_mzML.cpp
 pwiz/data/msdata/SpectrumList_mzML.hpp
 pwiz/data/msdata/SpectrumList_mzML_Test.cpp
 pwiz/data/msdata/SpectrumList_mzXML.cpp
 pwiz/data/msdata/SpectrumList_mzXML.hpp
 pwiz/data/msdata/SpectrumList_mzXML_Test.cpp
 pwiz/data/msdata/TextWriter.hpp
 pwiz/data/msdata/examples.cpp
 pwiz/data/msdata/examples.hpp
 pwiz/data/proteome/DefaultReaderList.cpp
 pwiz/data/proteome/DefaultReaderList.hpp
 pwiz/data/proteome/Diff.cpp
 pwiz/data/proteome/Diff.hpp
 pwiz/data/proteome/DiffTest.cpp
 pwiz/data/proteome/ProteinListWrapper.hpp
 pwiz/data/proteome/ProteinListWrapperTest.cpp
 pwiz/data/proteome/ProteomeDataFile.cpp
 pwiz/data/proteome/ProteomeDataFile.hpp
 pwiz/data/proteome/ProteomeDataFileTest.cpp
 pwiz/data/proteome/Reader_FASTA.cpp
 pwiz/data/proteome/Reader_FASTA.hpp
 pwiz/data/vendor_readers/ExtendedReaderList.cpp
 pwiz/data/vendor_readers/ExtendedReaderList.hpp
 pwiz/data/vendor_readers/Thermo/ChromatogramList_Thermo.cpp
 pwiz/data/vendor_readers/Thermo/ChromatogramList_Thermo.hpp
 pwiz/data/vendor_readers/Thermo/Reader_Thermo.cpp
 pwiz/data/vendor_readers/Thermo/Reader_Thermo.hpp
 pwiz/data/vendor_readers/Thermo/Reader_Thermo_Detail.cpp
 pwiz/data/vendor_readers/Thermo/Reader_Thermo_Detail.hpp
 pwiz/data/vendor_readers/Thermo/Reader_Thermo_Test.cpp
 pwiz/data/vendor_readers/Thermo/SpectrumList_Thermo.cpp
 pwiz/data/vendor_readers/Thermo/SpectrumList_Thermo.hpp
 pwiz/utility/chemistry/IsotopeEnvelopeEstimator.cpp
 pwiz/utility/chemistry/IsotopeEnvelopeEstimator.hpp
 pwiz/utility/chemistry/IsotopeEnvelopeEstimatorTest.cpp
 pwiz/utility/minimxml/SAXParserTest.cpp
 pwiz/utility/minimxml/XMLWriter.cpp
 pwiz/utility/minimxml/XMLWriter.hpp
 pwiz/utility/minimxml/XMLWriterTest.cpp
 pwiz/utility/misc/Base64Test.cpp
 pwiz/utility/misc/IntegerSet.cpp
 pwiz/utility/misc/IntegerSet.hpp
 pwiz/utility/misc/IntegerSetTest.cpp
 pwiz/utility/misc/IterationListener.cpp
 pwiz/utility/misc/IterationListener.hpp
 pwiz/utility/misc/IterationListenerTest.cpp
 pwiz/utility/misc/MSIHandler.cpp
 pwiz/utility/misc/MSIHandler.hpp
 pwiz/utility/misc/SHA1Calculator.cpp
 pwiz/utility/misc/SHA1Calculator.hpp
 pwiz/utility/misc/SHA1CalculatorTest.cpp
 pwiz/utility/misc/SHA1_ostream.hpp
 pwiz/utility/misc/SHA1_ostream_test.cpp
 pwiz/utility/misc/TabReader.cpp
 pwiz/utility/misc/TabReader.hpp
 pwiz/utility/misc/Timer.hpp
 pwiz/utility/misc/endian.hpp
 pwiz/utility/misc/endian_test.cpp
Copyright: 2007, Spielberg Family Center for Applied Proteomics
  2008, Spielberg Family Center for Applied Proteomics
  2009, Spielberg Family Center for Applied Proteomics
  2010, Spielberg Family Center for Applied Proteomics
  2012, Spielberg Family Center for Applied Proteomics
License: Apache-2.0

Files: pwiz/utility/math/MatchedFilter.hpp
 pwiz/utility/math/MatchedFilterTest.cpp
 pwiz/utility/math/LinearSolver.hpp
 pwiz/utility/math/round.hpp
Copyright: 2007, Spielberg Family Center for Applied Proteomics
 Darren Kessner 
License: Apache-2.0

Files: pwiz/analysis/common/CwtPeakDetector.cpp
 pwiz/analysis/common/CwtPeakDetector.hpp
 pwiz/analysis/common/LocalMaximumPeakDetector.cpp
 pwiz/analysis/common/LocalMaximumPeakDetector.hpp
 pwiz/analysis/common/PeakDetector.hpp
 pwiz/analysis/common/SavitzkyGolaySmoother.cpp
 pwiz/analysis/common/SavitzkyGolaySmoother.hpp
 pwiz/analysis/common/Smoother.hpp
 pwiz/analysis/common/WhittakerSmoother.cpp
 pwiz/analysis/common/WhittakerSmoother.hpp
 pwiz/analysis/common/ZeroSampleFiller.cpp
 pwiz/analysis/common/ZeroSampleFiller.hpp
 pwiz/analysis/chromatogram_processing/ChromatogramList_LockmassRefiner.cpp
 pwiz/analysis/chromatogram_processing/ChromatogramList_LockmassRefiner.hpp
 pwiz/analysis/chromatogram_processing/ChromatogramList_LockmassRefinerTest.cpp
 pwiz/analysis/passive/RunSummary.cpp
 pwiz/analysis/passive/RunSummary.hpp
 pwiz/analysis/proteome_processing/ProteinListFactory.cpp
 pwiz/analysis/proteome_processing/ProteinListFactory.hpp
 pwiz/analysis/proteome_processing/ProteinListFactoryTest.cpp
 pwiz/analysis/proteome_processing/ProteinList_DecoyGenerator.cpp
 pwiz/analysis/proteome_processing/ProteinList_DecoyGenerator.hpp
 pwiz/analysis/proteome_processing/ProteinList_DecoyGeneratorTest.cpp
 pwiz/analysis/proteome_processing/ProteinList_Filter.cpp
 pwiz/analysis/proteome_processing/ProteinList_Filter.hpp
 pwiz/analysis/proteome_processing/ProteinList_FilterTest.cpp
 pwiz/analysis/spectrum_processing/MS2DeisotoperTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_3D.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_3D.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_3D_Test.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_ChargeFromIsotope.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_ChargeFromIsotope.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_ChargeFromIsotopeTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_ChargeStateCalculator.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_ChargeStateCalculator.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_ChargeStateCalculatorTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_IonMobility.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_IonMobility.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_IonMobility_Test.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_LockmassRefiner.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_LockmassRefiner.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_LockmassRefinerTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_MetadataFixer.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_MetadataFixer.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_MetadataFixerTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_PeakFilter.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_PeakFilter.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_PeakFilterTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_PeakPicker.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_PeakPicker.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_ScanSummerTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_Smoother.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_Smoother.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_TitleMaker.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_TitleMaker.hpp
 pwiz/analysis/spectrum_processing/ThresholdFilter.cpp
 pwiz/analysis/spectrum_processing/ThresholdFilter.hpp
 pwiz/data/common/BinaryIndexStream.cpp
 pwiz/data/common/BinaryIndexStream.hpp
 pwiz/data/common/BinaryIndexStreamTest.cpp
 pwiz/data/common/Index.hpp
 pwiz/data/common/MemoryIndex.cpp
 pwiz/data/common/MemoryIndex.hpp
 pwiz/data/common/MemoryIndexTest.cpp
 pwiz/data/common/Unimod.cpp
 pwiz/data/common/Unimod.hpp
 pwiz/data/common/UnimodTest.cpp
 pwiz/data/identdata/Serializer_pepXML.cpp
 pwiz/data/identdata/Serializer_pepXML.hpp
 pwiz/data/identdata/Serializer_pepXML_Test.cpp
 pwiz/data/identdata/Version.hpp
 pwiz/data/msdata/Index_mzML.cpp
 pwiz/data/msdata/Index_mzML.hpp
 pwiz/data/msdata/MSDataMerger.cpp
 pwiz/data/msdata/MSDataMerger.hpp
 pwiz/data/msdata/MSDataMergerTest.cpp
 pwiz/data/msdata/MemoryMRUCache.hpp
 pwiz/data/msdata/Serializer_MGF.cpp
 pwiz/data/msdata/Serializer_MGF.hpp
 pwiz/data/msdata/Serializer_MGF_Test.cpp
 pwiz/data/msdata/Serializer_MSn.cpp
 pwiz/data/msdata/Serializer_MSn.hpp
 pwiz/data/msdata/Serializer_MSn_Test.cpp
 pwiz/data/msdata/SpectrumListCache.cpp
 pwiz/data/msdata/SpectrumListCache.hpp
 pwiz/data/msdata/SpectrumListCacheTest.cpp
 pwiz/data/msdata/SpectrumWorkerThreads.cpp
 pwiz/data/msdata/SpectrumWorkerThreads.hpp
 pwiz/data/proteome/ProteinListCache.cpp
 pwiz/data/proteome/ProteinListCache.hpp
 pwiz/data/proteome/ProteinListCacheTest.cpp
 pwiz/data/proteome/ProteomeData.cpp
 pwiz/data/proteome/ProteomeData.hpp
 pwiz/data/proteome/ProteomeDataTest.cpp
 pwiz/data/proteome/Reader.cpp
 pwiz/data/proteome/Reader.hpp
 pwiz/data/proteome/ReaderTest.cpp
 pwiz/data/proteome/Serializer_FASTA.cpp
 pwiz/data/proteome/Serializer_FASTA.hpp
 pwiz/data/proteome/Serializer_FASTA_Test.cpp
 pwiz/data/proteome/TextWriter.hpp
 pwiz/data/proteome/examples.cpp
 pwiz/data/proteome/examples.hpp
 pwiz/data/tradata/DefaultReaderList.cpp
 pwiz/data/tradata/DefaultReaderList.hpp
 pwiz/data/tradata/Diff.cpp
 pwiz/data/tradata/Diff.hpp
 pwiz/data/tradata/DiffTest.cpp
 pwiz/data/tradata/IO.cpp
 pwiz/data/tradata/IO.hpp
 pwiz/data/tradata/IOTest.cpp
 pwiz/data/tradata/Reader.cpp
 pwiz/data/tradata/Reader.hpp
 pwiz/data/tradata/ReaderTest.cpp
 pwiz/data/tradata/References.cpp
 pwiz/data/tradata/References.hpp
 pwiz/data/tradata/ReferencesTest.cpp
 pwiz/data/tradata/Serializer_traML.cpp
 pwiz/data/tradata/Serializer_traML.hpp
 pwiz/data/tradata/Serializer_traML_Test.cpp
 pwiz/data/tradata/TextWriter.hpp
 pwiz/data/tradata/TraData.cpp
 pwiz/data/tradata/TraData.hpp
 pwiz/data/tradata/TraDataFile.cpp
 pwiz/data/tradata/TraDataFile.hpp
 pwiz/data/tradata/TraDataFileTest.cpp
 pwiz/data/tradata/TraDataTest.cpp
 pwiz/data/tradata/Version.hpp
 pwiz/data/tradata/examples.cpp
 pwiz/data/tradata/examples.hpp
 pwiz/data/vendor_readers/ABI/ChromatogramList_ABI.cpp
 pwiz/data/vendor_readers/ABI/ChromatogramList_ABI.hpp
 pwiz/data/vendor_readers/ABI/Reader_ABI.cpp
 pwiz/data/vendor_readers/ABI/Reader_ABI.hpp
 pwiz/data/vendor_readers/ABI/Reader_ABI_Detail.cpp
 pwiz/data/vendor_readers/ABI/Reader_ABI_Detail.hpp
 pwiz/data/vendor_readers/ABI/Reader_ABI_Test.cpp
 pwiz/data/vendor_readers/ABI/SpectrumList_ABI.cpp
 pwiz/data/vendor_readers/ABI/SpectrumList_ABI.hpp
 pwiz/data/vendor_readers/ABI/T2D/Reader_ABI_T2D.cpp
 pwiz/data/vendor_readers/ABI/T2D/Reader_ABI_T2D.hpp
 pwiz/data/vendor_readers/ABI/T2D/Reader_ABI_T2D_Test.cpp
 pwiz/data/vendor_readers/ABI/T2D/SpectrumList_ABI_T2D.cpp
 pwiz/data/vendor_readers/ABI/T2D/SpectrumList_ABI_T2D.hpp
 pwiz/data/vendor_readers/Agilent/ChromatogramList_Agilent.cpp
 pwiz/data/vendor_readers/Agilent/ChromatogramList_Agilent.hpp
 pwiz/data/vendor_readers/Agilent/Reader_Agilent.cpp
 pwiz/data/vendor_readers/Agilent/Reader_Agilent.hpp
 pwiz/data/vendor_readers/Agilent/Reader_Agilent_Test.cpp
 pwiz/data/vendor_readers/Agilent/SpectrumList_Agilent.cpp
 pwiz/data/vendor_readers/Agilent/SpectrumList_Agilent.hpp
 pwiz/data/vendor_readers/Bruker/ChromatogramList_Bruker.cpp
 pwiz/data/vendor_readers/Bruker/ChromatogramList_Bruker.hpp
 pwiz/data/vendor_readers/Bruker/Reader_Bruker.cpp
 pwiz/data/vendor_readers/Bruker/Reader_Bruker.hpp
 pwiz/data/vendor_readers/Bruker/Reader_Bruker_Detail.cpp
 pwiz/data/vendor_readers/Bruker/Reader_Bruker_Detail.hpp
 pwiz/data/vendor_readers/Bruker/Reader_Bruker_Test.cpp
 pwiz/data/vendor_readers/Bruker/SpectrumList_Bruker.cpp
 pwiz/data/vendor_readers/Bruker/SpectrumList_Bruker.hpp
 pwiz/data/vendor_readers/Shimadzu/ChromatogramList_Shimadzu.cpp
 pwiz/data/vendor_readers/Shimadzu/ChromatogramList_Shimadzu.hpp
 pwiz/data/vendor_readers/Shimadzu/SpectrumList_Shimadzu.cpp
 pwiz/data/vendor_readers/Shimadzu/SpectrumList_Shimadzu.hpp
 pwiz/data/vendor_readers/Shimadzu/Reader_Shimadzu.cpp
 pwiz/data/vendor_readers/Shimadzu/Reader_Shimadzu.hpp
 pwiz/data/vendor_readers/UIMF/Reader_UIMF.cpp
 pwiz/data/vendor_readers/UIMF/Reader_UIMF.hpp
 pwiz/data/vendor_readers/UIMF/SpectrumList_UIMF.cpp
 pwiz/data/vendor_readers/UIMF/SpectrumList_UIMF.hpp
 pwiz/data/vendor_readers/UNIFI/Reader_UNIFI.cpp
 pwiz/data/vendor_readers/UNIFI/Reader_UNIFI.hpp
 pwiz/data/vendor_readers/UNIFI/Reader_UNIFI_Detail.cpp
 pwiz/data/vendor_readers/UNIFI/Reader_UNIFI_Detail.hpp
 pwiz/data/vendor_readers/UNIFI/SpectrumList_UNIFI.cpp
 pwiz/data/vendor_readers/UNIFI/SpectrumList_UNIFI.hpp
 pwiz/data/vendor_readers/Waters/ChromatogramList_Waters.cpp
 pwiz/data/vendor_readers/Waters/ChromatogramList_Waters.hpp
 pwiz/data/vendor_readers/Waters/Reader_Waters.cpp
 pwiz/data/vendor_readers/Waters/Reader_Waters.hpp
 pwiz/data/vendor_readers/Waters/Reader_Waters_Detail.cpp
 pwiz/data/vendor_readers/Waters/Reader_Waters_Detail.hpp
 pwiz/data/vendor_readers/Waters/Reader_Waters_Test.cpp
 pwiz/data/vendor_readers/Waters/SpectrumList_Waters.cpp
 pwiz/data/vendor_readers/Waters/SpectrumList_Waters.hpp
 pwiz/utility/misc/ClickwrapPrompter.cpp
 pwiz/utility/misc/ClickwrapPrompter.hpp
 pwiz/utility/misc/ClickwrapPrompterTest.cpp
 pwiz/utility/misc/DateTime.hpp
 pwiz/utility/misc/DateTimeTest.cpp
 pwiz/utility/misc/Environment.hpp
 pwiz/utility/misc/ExceptionTest.cpp
 pwiz/utility/misc/Once.hpp
 pwiz/utility/misc/Singleton.hpp
 pwiz/utility/misc/Std.hpp
 pwiz/utility/misc/TabReaderTest.cpp
 pwiz/utility/misc/VendorReaderTestHarness.cpp
 pwiz/utility/misc/VendorReaderTestHarness.hpp
 pwiz/utility/misc/cpp_cli_utilities.hpp
 pwiz/utility/misc/mru_list_test.cpp
 pwiz/utility/misc/shared_map.hpp
Copyright: 2008, Vanderbilt University - Nashville, TN 37232
  2009, Vanderbilt University - Nashville, TN 37232
  2010, Vanderbilt University - Nashville, TN 37232
  2011, Vanderbilt University - Nashville, TN 37232
  2012, Vanderbilt University - Nashville, TN 37232
  2014, Vanderbilt University - Nashville, TN 37232
  2015, Vanderbilt University - Nashville, TN 37232
  2016, Vanderbilt University - Nashville, TN 37232
License: Apache-2.0

Files: pwiz/analysis/demux/DemuxSolver.cpp
 pwiz/analysis/demux/DemuxSolver.hpp
 pwiz/analysis/demux/FSDemux.cpp
 pwiz/analysis/demux/IDemultiplexer.hpp
 pwiz/analysis/demux/IPrecursorMaskCodec.hpp
 pwiz/analysis/demux/MSXDemultiplexer.cpp
 pwiz/analysis/demux/MSXDemultiplexer.hpp
 pwiz/analysis/demux/OverlapDemultiplexer.cpp
 pwiz/analysis/demux/OverlapDemultiplexer.hpp
 pwiz/analysis/demux/PrecursorMaskCodec.cpp
 pwiz/analysis/demux/PrecursorMaskCodec.hpp
 pwiz/analysis/demux/SpectrumPeakExtractor.cpp
 pwiz/analysis/demux/SpectrumPeakExtractor.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_Demux.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_Demux.hpp
Copyright: Jarret Egertson 
License: Apache-2.0

Files: pwiz/analysis/demux/CubicHermiteSpline.cpp
 pwiz/analysis/demux/CubicHermiteSpline.hpp
 pwiz/analysis/demux/CubicHermiteSplineTest.cpp
 pwiz/analysis/demux/DemuxDebugReadWriteTest.cpp
 pwiz/analysis/demux/DemuxDebugReader.cpp
 pwiz/analysis/demux/DemuxDebugReader.hpp
 pwiz/analysis/demux/DemuxDebugWriter.cpp
 pwiz/analysis/demux/DemuxDebugWriter.hpp
 pwiz/analysis/demux/DemuxHelpers.cpp
 pwiz/analysis/demux/DemuxHelpers.hpp
 pwiz/analysis/demux/DemuxHelpersTest.cpp
 pwiz/analysis/demux/DemuxSolverTest.cpp
 pwiz/analysis/demux/EnumConstantNotPresentException.hpp
 pwiz/analysis/demux/IInterpolation.hpp
 pwiz/analysis/demux/MatrixIO.cpp
 pwiz/analysis/demux/MatrixIO.hpp
 pwiz/analysis/demux/MatrixIOTest.cpp
 pwiz/analysis/demux/SpectrumPeakExtractorTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_DemuxTest.cpp
Copyright: Austin Keller 
License: Apache-2.0

Files: 
 pwiz/analysis/demux/DemuxTypes.hpp
Copyright: Austin Keller 
 Jarret Egertson 
License: Apache-2.0

Files: pwiz/utility/misc/BinaryData.hpp 
 pwiz/utility/misc/BinaryData.cpp
 pwiz/utility/misc/BinaryDataTest.cpp
Copyright: 2017 Matt Chambers 
License: Apache-2.0

Files: pwiz/analysis/common/DataFilter.hpp
 pwiz/analysis/spectrum_processing/MS2Deisotoper.cpp
 pwiz/analysis/spectrum_processing/MS2Deisotoper.hpp
 pwiz/analysis/spectrum_processing/MS2NoiseFilter.cpp
 pwiz/analysis/spectrum_processing/MS2NoiseFilter.hpp
 pwiz/analysis/spectrum_processing/PrecursorMassFilter.cpp
 pwiz/analysis/spectrum_processing/PrecursorMassFilter.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_PrecursorRefine.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_PrecursorRefine.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_PrecursorRefineTest.cpp
Copyright: 2009, Institute for Systems Biology, Seattle, WA
License: Apache-2.0


Files: pwiz/utility/findmf/base/base/interpolate.hpp
 pwiz/utility/findmf/base/base/copy_iftest.cpp
 pwiz/utility/findmf/base/base/constants.hpp
 pwiz/utility/findmf/base/base/scale.hpp
 pwiz/utility/findmf/base/base/diff.hpp
 pwiz/utility/findmf/base/base/cumsum.hpp
 pwiz/utility/findmf/base/base/utilities/interpolation.hpp
 pwiz/utility/findmf/base/base/utilities/base.hpp
 pwiz/utility/findmf/base/base/cumsumtest.cpp
 pwiz/utility/findmf/base/base/basetest.cpp
 pwiz/utility/findmf/base/base/equispaceinterpolationtest.cpp
 pwiz/utility/findmf/base/base/difftest.cpp
 pwiz/utility/findmf/base/base/copyif.hpp
 pwiz/utility/findmf/base/base/base.hpp
 pwiz/utility/findmf/base/resample/bin1d.hpp
 pwiz/utility/findmf/base/resample/bucket1d.hpp
 pwiz/utility/findmf/base/resample/masscomparefunctors.hpp
 pwiz/utility/findmf/base/resample/utilities/determinebinwidth.hpp
 pwiz/utility/findmf/base/resample/convert2dense.hpp
 pwiz/utility/findmf/base/resample/determinbinwithtest.cpp
 pwiz/utility/findmf/base/resample/bucket1dtest.cpp
 pwiz/utility/findmf/base/resample/determinebinwidth.hpp
 pwiz/utility/findmf/base/resample/convert2densetest.cpp
 pwiz/utility/findmf/base/resample/breakspec.hpp
 pwiz/utility/findmf/base/filter/filter.hpp
 pwiz/utility/findmf/base/filter/utilities/gauss.hpp
 pwiz/utility/findmf/base/filter/utilities/preparedata.hpp
 pwiz/utility/findmf/base/filter/utilities/mexhat.hpp
 pwiz/utility/findmf/base/filter/filterutilstest.cpp
 pwiz/utility/findmf/base/filter/gaussfilter.hpp
 pwiz/utility/findmf/base/filter/gaussfiltertest.cpp
 pwiz/utility/findmf/base/ms/peakpickerqtof.hpp
 pwiz/utility/findmf/base/ms/simplepickertest.cpp
 pwiz/utility/findmf/base/ms/simplepicker.hpp
Copyright: ETH Zurich - Witold Wolski 
License: Apache-2.0

Files: pwiz/utility/math/HouseholderQR.hpp
Copyright: Robert Burke 
License: Apache-2.0

Files: pwiz/utility/misc/FailTest.cpp
 pwiz/utility/chemistry/iso.cpp
 pwiz/utility/chemistry/parse_isotopes.cpp
 pwiz/utility/math/qrTest.cpp
 pwiz/utility/math/HouseholderQRTest.cpp
Copyright: Matthew Chambers
License: Apache-2.0

Files: pwiz/analysis/frequency/DerivativeTest.hpp
 pwiz/analysis/frequency/FrequencyEstimator.hpp
 pwiz/analysis/frequency/FrequencyEstimatorPhysicalModel.cpp
 pwiz/analysis/frequency/FrequencyEstimatorPhysicalModel.hpp
 pwiz/analysis/frequency/FrequencyEstimatorSimple.cpp
 pwiz/analysis/frequency/FrequencyEstimatorSimple.hpp
 pwiz/analysis/frequency/FrequencyEstimatorSimpleTest.cpp
 pwiz/analysis/frequency/MagnitudeLorentzian.cpp
 pwiz/analysis/frequency/MagnitudeLorentzian.hpp
 pwiz/analysis/frequency/MagnitudeLorentzianTest.cpp
 pwiz/analysis/frequency/ParameterEstimator.cpp
 pwiz/analysis/frequency/ParameterEstimator.hpp
 pwiz/analysis/frequency/ParametrizedFunction.hpp
 pwiz/analysis/frequency/ParametrizedFunctionTest.cpp
 pwiz/analysis/frequency/PeakDetector.hpp
 pwiz/analysis/frequency/PeakDetectorMatchedFilter.cpp
 pwiz/analysis/frequency/PeakDetectorMatchedFilter.hpp
 pwiz/analysis/frequency/PeakDetectorMatchedFilterTest.cpp
 pwiz/analysis/frequency/PeakDetectorMatchedFilterTestData.cpp
 pwiz/analysis/frequency/PeakDetectorMatchedFilterTestData.hpp
 pwiz/analysis/frequency/PeakDetectorNaive.cpp
 pwiz/analysis/frequency/PeakDetectorNaive.hpp
 pwiz/analysis/frequency/PeakDetectorNaiveTest.cpp
 pwiz/analysis/frequency/TruncatedLorentzian.cpp
 pwiz/analysis/frequency/TruncatedLorentzian.hpp
 pwiz/analysis/frequency/TruncatedLorentzianEstimator.cpp
 pwiz/analysis/frequency/TruncatedLorentzianEstimator.hpp
 pwiz/analysis/frequency/TruncatedLorentzianParameters.cpp
 pwiz/analysis/frequency/TruncatedLorentzianParameters.hpp
 pwiz/analysis/frequency/TruncatedLorentzianParametersTest.cpp
 pwiz/analysis/frequency/TruncatedLorentzianTest.cpp
 pwiz/data/misc/CalibrationParameters.hpp
 pwiz/data/misc/CalibrationParametersTest.cpp
 pwiz/data/misc/FrequencyData.cpp
 pwiz/data/misc/FrequencyData.hpp
 pwiz/data/misc/FrequencyDataTest.cpp
 pwiz/data/misc/SampleDatum.hpp
 pwiz/data/misc/SampleDatumTest.cpp
 pwiz/data/proteome/AminoAcid.cpp
 pwiz/data/proteome/AminoAcid.hpp
 pwiz/data/proteome/AminoAcidTest.cpp
 pwiz/data/proteome/Peptide.cpp
 pwiz/data/proteome/Peptide.hpp
 pwiz/data/proteome/PeptideTest.cpp
 pwiz/utility/chemistry/Chemistry.cpp
 pwiz/utility/chemistry/Chemistry.hpp
 pwiz/utility/chemistry/ChemistryData.cpp
 pwiz/utility/chemistry/ChemistryData.hpp
 pwiz/utility/chemistry/ChemistryTest.cpp
 pwiz/utility/chemistry/Ion.hpp
 pwiz/utility/chemistry/IsotopeCalculator.cpp
 pwiz/utility/chemistry/IsotopeCalculator.hpp
 pwiz/utility/chemistry/IsotopeCalculatorTest.cpp
 pwiz/utility/chemistry/IsotopeTable.cpp
 pwiz/utility/chemistry/IsotopeTable.hpp
 pwiz/utility/chemistry/IsotopeTableTest.cpp
 pwiz/utility/misc/Base64.cpp
 pwiz/utility/misc/Base64.hpp
 pwiz/utility/misc/Image.hpp
 pwiz/utility/misc/unit.hpp
 pwiz/utility/proteome/IPIFASTADatabase.cpp
 pwiz/utility/proteome/IPIFASTADatabase.hpp
 pwiz/utility/proteome/IPIFASTADatabaseTest.cpp
 pwiz/utility/proteome/pepdb.cpp
Copyright: 2005, Louis Warschaw Prostate Cancer Center
  2006, Louis Warschaw Prostate Cancer Center
  2007, Louis Warschaw Prostate Cancer Center
License: Apache-2.0

Files: pwiz/utility/math/LinearLeastSquares.hpp
 pwiz/utility/math/LinearLeastSquaresTest.cpp
 pwiz/utility/math/Types.hpp
 pwiz/utility/math/qr.hpp
Copyright: Robert Burke 
 Louis Warschaw Prostate Cancer Center
License: Apache-2.0

Files: pwiz/utility/math/LinearSolverTest.cpp
 pwiz/utility/math/Stats.cpp
 pwiz/utility/math/Stats.hpp
 pwiz/utility/math/StatsTest.cpp
 pwiz/utility/math/Parabola.cpp
 pwiz/utility/math/Parabola.hpp
 pwiz/utility/math/ParabolaTest.cpp
 pwiz/utility/math/erf.cpp
 pwiz/utility/math/erf.hpp
 pwiz/utility/math/erfTest.cpp
Copyright: Louis Warschaw Prostate Cancer Center
 Darren Kessner 
License: Apache-2.0


Files: pwiz/analysis/peakdetect/FeatureDetectorPeakel.cpp
 pwiz/analysis/peakdetect/FeatureDetectorPeakel.hpp
 pwiz/analysis/peakdetect/FeatureDetectorPeakelTest.cpp
 pwiz/analysis/peakdetect/FeatureDetectorTuningTest.cpp
 pwiz/analysis/peakdetect/FeatureModeler.cpp
 pwiz/analysis/peakdetect/FeatureModeler.hpp
 pwiz/analysis/peakdetect/FeatureModelerTest.cpp
 pwiz/analysis/peakdetect/MZRTField.cpp
 pwiz/analysis/peakdetect/MZRTField.hpp
 pwiz/analysis/peakdetect/MZRTFieldTest.cpp
 pwiz/analysis/peakdetect/Noise.cpp
 pwiz/analysis/peakdetect/Noise.hpp
 pwiz/analysis/peakdetect/NoiseTest.cpp
 pwiz/analysis/peakdetect/PeakExtractor.cpp
 pwiz/analysis/peakdetect/PeakExtractor.hpp
 pwiz/analysis/peakdetect/PeakExtractorTest.cpp
 pwiz/analysis/peakdetect/PeakFinder.cpp
 pwiz/analysis/peakdetect/PeakFinder.hpp
 pwiz/analysis/peakdetect/PeakFinderTest.cpp
 pwiz/analysis/peakdetect/PeakFitter.cpp
 pwiz/analysis/peakdetect/PeakFitter.hpp
 pwiz/analysis/peakdetect/PeakFitterTest.cpp
 pwiz/analysis/peakdetect/PeakelGrower.cpp
 pwiz/analysis/peakdetect/PeakelGrower.hpp
 pwiz/analysis/peakdetect/PeakelGrowerTest.cpp
 pwiz/analysis/peakdetect/PeakelPicker.cpp
 pwiz/analysis/peakdetect/PeakelPicker.hpp
 pwiz/analysis/peakdetect/PeakelPickerTest.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_MZWindow.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_MZWindow.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_MZWindowTest.cpp
 pwiz/utility/chemistry/MZTolerance.cpp
 pwiz/utility/chemistry/MZTolerance.hpp
 pwiz/utility/chemistry/MZToleranceTest.cpp
 pwiz/utility/misc/almost_equal.hpp
 pwiz/utility/misc/almost_equal_test.cpp
Copyright: 2009, Center for Applied Molecular Medicine
License: Apache-2.0

Files: pwiz/utility/math/OrderedPair.hpp
 pwiz/utility/math/OrderedPairTest.cpp
Copyright: 2009, Center for Applied Molecular Medicine
 Darren Kessner 
License: Apache-2.0

Files: pwiz/analysis/Version.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_ScanSummer.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_ScanSummer.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_Sorter.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_Sorter.hpp
 pwiz/data/msdata/SpectrumList_BTDX.cpp
 pwiz/data/msdata/SpectrumList_BTDX.hpp
 pwiz/data/msdata/SpectrumList_MGF.cpp
 pwiz/data/msdata/SpectrumList_MGF.hpp
 pwiz/data/msdata/SpectrumList_MSn.cpp
 pwiz/data/msdata/SpectrumList_MSn.hpp
 pwiz/data/msdata/Version.hpp
 pwiz/data/proteome/Version.hpp
 pwiz/utility/misc/CharIndexedVector.hpp
 pwiz/utility/misc/Container.hpp
 pwiz/utility/misc/Exception.hpp
 pwiz/utility/misc/Export.hpp
 pwiz/utility/misc/Filesystem.cpp
 pwiz/utility/misc/Filesystem.hpp
 pwiz/utility/misc/FilesystemTest.cpp
 pwiz/utility/misc/Stream.hpp
 pwiz/utility/misc/String.hpp
 pwiz/utility/misc/optimized_lexical_cast.hpp
 pwiz/utility/misc/virtual_map.hpp
Copyright: 2008, Spielberg Family Center for Applied Proteomics
  2008, Vanderbilt University - Nashville, TN 37232
  2011, Vanderbilt University - Nashville, TN 37232
License: Apache-2.0

Files: pwiz/data/proteome/Digestion.cpp
 pwiz/data/proteome/Digestion.hpp
 pwiz/data/proteome/DigestionTest.cpp
 pwiz/data/proteome/Modification.cpp
 pwiz/data/proteome/Modification.hpp
Copyright: 2006, Louis Warschaw Prostate Cancer Center
  2008, Vanderbilt University - Nashville, TN 37232
License: Apache-2.0

Files: pwiz/analysis/spectrum_processing/SpectrumList_MZRefiner.cpp
 pwiz/analysis/spectrum_processing/SpectrumList_MZRefiner.hpp
 pwiz/analysis/spectrum_processing/SpectrumList_MZRefinerTest.cpp
Copyright: 2014, Pacific Northwest National Laboratory
License: Apache-2.0

Files: pwiz/utility/math/MatrixInverse.hpp
Copyright: http://www.crystalclearsoftware.com/cgi-bin/boost_wiki/wiki.pl?Effective_UBLAS/Matrix_Inversion
License: Public-domain or Boost
 Public Domain or Boost Software License - Version 1.0

Files: pwiz/utility/misc/SHA1.cpp
 pwiz/utility/misc/SHA1.h
Copyright: Dominik Reichl 
License: Public-domain
 The work is in the public domain.

Files: pwiz/utility/minimxml/SAXParser.cpp
 pwiz/utility/minimxml/SAXParser.hpp
Copyright: 2007, Spielberg Family Center for Applied Proteomics
  2011, Insilicos LLC
License: Apache-2.0

Files: pwiz/data/msdata/MSNumpress.cpp
 pwiz/data/msdata/MSNumpress.hpp
Copyright: 2013, Johan Teleman
License: Apache-2.0

Files: pwiz/analysis/passive/TabularConfig.cpp
 pwiz/analysis/passive/TabularConfig.hpp
Copyright: 2012, University of Minnesota - Minneapolis, MN 55455
License: Apache-2.0

Files: pwiz/utility/misc/random_access_compressed_ifstream.cpp
 pwiz/utility/misc/random_access_compressed_ifstream.hpp
Copyright: 1995-2005, Jean-loup Gailly.
  2005, Mark Adler
  Insilicos LLC 2008,2011
License: Zlib

Files: pwiz/data/common/cvgen.cpp
Copyright: 2007, Spielberg Family Center for Applied Proteomics
License: Apache-2.0

Files: pwiz/analysis/frequency/FrequencyEstimatorPhysicalModelTest.cpp
Copyright: 2007, Spielberg Family Center for Appled Proteomics
License: Apache-2.0

Files: pwiz/data/common/cv.hpp
Copyright: 2007, Spielberg Family Center for Applied Proteomics
License: Apache-2.0

Files: pwiz/utility/misc/mru_list.hpp
Copyright: 2003-2008, Joaquin M Lopez Munoz.
License: BSL-1.0


Files: pwiz_tools/commandline/msconvert.cpp
 pwiz_tools/commandline/pepcat.cpp
 pwiz_tools/common/FullReaderList.hpp
 pwiz_tools/common/MSDataAnalyzerApplication.cpp
 pwiz_tools/common/MSDataAnalyzerApplication.hpp
 pwiz_tools/common/MSDataAnalyzerApplicationTest.cpp
 pwiz_tools/examples/hello_analyzer.cpp
 pwiz_tools/examples/hello_analyzer_2.cpp
 pwiz_tools/examples/hello_msdata.cpp
 pwiz_tools/examples/mscat.cpp
 pwiz_tools/examples/txt2mzml.cpp
 pwiz_tools/examples/write_example_files.cpp
 pwiz_tools/examples/write_mzid_example_files.cpp
 pwiz_tools/examples/write_traml_example_files.cpp
Copyright: 2007, Spielberg Family Center for Applied Proteomics
  2008, Spielberg Family Center for Applied Proteomics
  2009, Spielberg Family Center for Applied Proteomics
  2010, Spielberg Family Center for Applied Proteomics
License: Apache-2.0

Files: pwiz_tools/commandline/idconvert.cpp
 pwiz_tools/examples/write_proteome_example_files.cpp
Copyright: 2010, Vanderbilt University - Nashville, TN 37232
  2011, Vanderbilt University - Nashville, TN 37232
License: Apache-2.0

Files: libraries/Eigen/nnls.h*
Copyright: 2013 Hannes Matuschek 
License: MPL-2.0
 This Source Code Form is subject to the terms of the Mozilla
 Public License v. 2.0. If a copy of the MPL was not distributed
 with this file, You can obtain one at http://mozilla.org/MPL/2.0/.

Files: libraries/doctest.h
Copyright: 2016-2017 Viktor Kirilov
License: MIT
 Permission is hereby granted, free of charge, to any person obtaining a copy of
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 the Software without restriction, including without limitation the rights to
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Files: debian/*
Copyright: 2012-2017 Filippo Rusconi 
License: GPL-3+
 This package is free software; you can redistribute it and/or modify
 it under the terms of the GNU General Public License as published by
 the Free Software Foundation; either version 3 of the License, or
 (at your option) any later version.
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 but WITHOUT ANY WARRANTY; without even the implied warranty of
 MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
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 You should have received a copy of the GNU General Public License
 along with this program. If not, see 
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 On Debian systems, the complete text of the GNU General
 Public License version 3 can be found in "/usr/share/common-licenses/GPL-3".