MS2 input file adapter. More...
#include <OpenMS/FORMAT/MS2File.h>
Public Member Functions | |
| MS2File () | |
| constructor More... | |
| virtual | ~MS2File () |
| constructor More... | |
| template<typename MapType > | |
| void | load (const String &filename, MapType &exp) |
 Public Member Functions inherited from ProgressLogger | |
| ProgressLogger () | |
| Constructor. More... | |
| ~ProgressLogger () | |
| Destructor. More... | |
| ProgressLogger (const ProgressLogger &other) | |
| Copy constructor. More... | |
| ProgressLogger & | operator= (const ProgressLogger &other) |
| Assignment Operator. More... | |
| void | setLogType (LogType type) const |
| Sets the progress log that should be used. The default type is NONE! More... | |
| LogType | getLogType () const |
| Returns the type of progress log being used. More... | |
| void | startProgress (SignedSize begin, SignedSize end, const String &label) const |
| Initializes the progress display. More... | |
| void | setProgress (SignedSize value) const |
| Sets the current progress. More... | |
| void | endProgress () const |
| Ends the progress display. More... | |
Additional Inherited Members | |
| Public Types inherited from ProgressLogger | |
| enum | LogType { CMD, GUI, NONE } |
| Possible log types. More... | |
| Static Protected Member Functions inherited from ProgressLogger | |
| static String | logTypeToFactoryName_ (LogType type) |
| Return the name of the factory product used for this log type. More... | |
| Protected Attributes inherited from ProgressLogger | |
| LogType | type_ |
| time_t | last_invoke_ |
| ProgressLoggerImpl * | current_logger_ |
| Static Protected Attributes inherited from ProgressLogger | |
| static int | recursion_depth_ |
Detailed Description
MS2 input file adapter.
For the format description take a look at: Rapid Communications in Mass Spectrometry. 2004;18(18):2162-8.
MS1, MS2, and SQT-three unified, compact, and easily parsed file formats for the storage of shotgun proteomic spectra and identifications.
McDonald WH, Tabb DL, Sadygov RG, MacCoss MJ, Venable J, Graumann J, Johnson JR, Cociorva D, Yates JR 3rd.
PMID: 15317041
Constructor & Destructor Documentation
◆ MS2File()
| MS2File | ( | ) |
constructor
◆ ~MS2File()
|
virtual |
constructor
Member Function Documentation
◆ load()
References MSExperiment::addSpectrum(), MSSpectrum::clear(), File::exists(), SpectrumSettings::getPrecursors(), File::readable(), MSExperiment::reset(), Peak1D::setIntensity(), DocumentIdentifier::setLoadedFilePath(), DocumentIdentifier::setLoadedFileType(), MSSpectrum::setMSLevel(), SpectrumSettings::setNativeID(), Peak1D::setPosition(), String::simplify(), String::split(), and String::trim().