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ProteoWizard
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Provides a custom-sorted spectrum list. More...
#include <SpectrumList_ScanSummer.hpp>
Public Member Functions | |
| SpectrumList_ScanSummer (const msdata::SpectrumListPtr &inner, double precursorTol, double rTimeTol, double mobilityTol=0, pwiz::util::IterationListenerRegistry *ilr=0) | |
| void | pushSpectrum (const msdata::SpectrumIdentity &) |
| double | getPrecursorMz (const msdata::Spectrum &) const |
| void | sumSubScansNaive (pwiz::util::BinaryData< double > &, pwiz::util::BinaryData< double > &, const precursorGroupPtr &, msdata::DetailLevel) const |
| virtual size_t | size () const |
| returns the number of spectra More... | |
| virtual const msdata::SpectrumIdentity & | spectrumIdentity (size_t index) const |
| access to a spectrum index More... | |
| virtual msdata::SpectrumPtr | spectrum (size_t index, bool getBinaryData=false) const |
| retrieve a spectrum by index More... | |
| virtual msdata::SpectrumPtr | spectrum (size_t index, msdata::DetailLevel) const |
| retrieve a spectrum by index More... | |
Public Member Functions inherited from pwiz::msdata::SpectrumListWrapper | |
| SpectrumListWrapper (const SpectrumListPtr &inner) | |
| virtual bool | empty () const |
| returns true iff (size() == 0) and (dataProcessingPtr.get() == NULL) More... | |
| virtual const boost::shared_ptr< const DataProcessing > | dataProcessingPtr () const |
| returns the data processing affecting spectra retrieved through this interface More... | |
| SpectrumListPtr | inner () const |
| SpectrumListPtr | innermost () const |
Public Member Functions inherited from pwiz::msdata::SpectrumList | |
| virtual size_t | find (const std::string &id) const |
| find id in the spectrum index (returns size() on failure) More... | |
| virtual size_t | findAbbreviated (const std::string &abbreviatedId, char delimiter='.') const |
| find an abbreviated id (e.g. "1.1.123.2" for "sample=1 period=1 cycle=123 experiment=2") in the spectrum index (returns size() on failure) More... | |
| virtual IndexList | findNameValue (const std::string &name, const std::string &value) const |
| find all spectrum indexes with specified name/value pair More... | |
| virtual IndexList | findSpotID (const std::string &spotID) const |
| find all spectrum indexes with spotID (returns empty vector on failure) More... | |
| virtual SpectrumPtr | spectrum (const SpectrumPtr &seed, bool getBinaryData) const |
| get a copy of the seed spectrum, optionally with its binary data populated this is useful for formats like mzML that can delay loading of binary data More... | |
| virtual void | warn_once (const char *msg) const |
| issues a warning once per SpectrumList instance (based on string hash) More... | |
| virtual | ~SpectrumList () |
Private Member Functions | |
| SpectrumList_ScanSummer (SpectrumList_ScanSummer &) | |
| SpectrumList_ScanSummer & | operator= (SpectrumList_ScanSummer &) |
Private Attributes | |
| double | lowerMZlimit |
| double | upperMZlimit |
| double | TotalDaltons |
| double | precursorTol_ |
| double | rTimeTol_ |
| double | mobilityTol_ |
| std::vector< msdata::SpectrumIdentity > | spectrumIdentities |
| std::vector< size_t > | indexMap |
| std::vector< precursorGroupPtr > | precursorMap |
| std::map< double, precursorGroupPtr > | precursorList |
| std::vector< precursorGroupPtr > | ms2RetentionTimes |
Additional Inherited Members | |
Protected Attributes inherited from pwiz::msdata::SpectrumListWrapper | |
| SpectrumListPtr | inner_ |
| DataProcessingPtr | dp_ |
Provides a custom-sorted spectrum list.
Definition at line 55 of file SpectrumList_ScanSummer.hpp.
| pwiz::analysis::SpectrumList_ScanSummer::SpectrumList_ScanSummer | ( | const msdata::SpectrumListPtr & | inner, |
| double | precursorTol, | ||
| double | rTimeTol, | ||
| double | mobilityTol = 0, |
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| pwiz::util::IterationListenerRegistry * | ilr = 0 |
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| ) |
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| void pwiz::analysis::SpectrumList_ScanSummer::pushSpectrum | ( | const msdata::SpectrumIdentity & | ) |
| double pwiz::analysis::SpectrumList_ScanSummer::getPrecursorMz | ( | const msdata::Spectrum & | ) | const |
| void pwiz::analysis::SpectrumList_ScanSummer::sumSubScansNaive | ( | pwiz::util::BinaryData< double > & | , |
| pwiz::util::BinaryData< double > & | , | ||
| const precursorGroupPtr & | , | ||
| msdata::DetailLevel | |||
| ) | const |
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returns the number of spectra
Reimplemented from pwiz::msdata::SpectrumListWrapper.
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access to a spectrum index
Reimplemented from pwiz::msdata::SpectrumListWrapper.
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retrieve a spectrum by index
Implements pwiz::msdata::SpectrumListWrapper.
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retrieve a spectrum by index
Reimplemented from pwiz::msdata::SpectrumListWrapper.
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Definition at line 71 of file SpectrumList_ScanSummer.hpp.
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Definition at line 72 of file SpectrumList_ScanSummer.hpp.
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Definition at line 73 of file SpectrumList_ScanSummer.hpp.
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Definition at line 74 of file SpectrumList_ScanSummer.hpp.
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Definition at line 75 of file SpectrumList_ScanSummer.hpp.
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Definition at line 76 of file SpectrumList_ScanSummer.hpp.
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Definition at line 78 of file SpectrumList_ScanSummer.hpp.
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Definition at line 79 of file SpectrumList_ScanSummer.hpp.
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Definition at line 80 of file SpectrumList_ScanSummer.hpp.
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Definition at line 81 of file SpectrumList_ScanSummer.hpp.
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Definition at line 82 of file SpectrumList_ScanSummer.hpp.