SwathWindowLoader Class Reference

Class to read a file describing the Swath Windows. More...

#include <OpenMS/ANALYSIS/OPENSWATH/SwathWindowLoader.h>

Static Public Member Functions
static void	annotateSwathMapsFromFile (const std::string &filename, std::vector< OpenSwath::SwathMap > &swath_maps, bool do_sort, bool force)
	Annotate a Swath map using a Swath window file specifying the individual windows. More...
static void	readSwathWindows (const std::string &filename, std::vector< double > &swath_prec_lower, std::vector< double > &swath_prec_upper)

Detailed Description

Class to read a file describing the Swath Windows.

The file must of be tab delimited and of the following format: window_lower window_upper 400 425 425 450 ...

Note that the first line is a header and will be skipped.

Member Function Documentation

annotateSwathMapsFromFile()

static void annotateSwathMapsFromFile ( const std::string &  filename, std::vector< OpenSwath::SwathMap > &  swath_maps, bool  do_sort, bool  force  )

static

Annotate a Swath map using a Swath window file specifying the individual windows.

Note

It is assumed that the files in the swath_maps vector are in the same order as the windows in the provided file (usually from lowest to highest).

Parameters

filename	The filename of the tab delimited file
swath_maps	The list of SWATH maps (assumed to be in the same order as in the file)
do_sort	Sort the windows after reading in ascending order
force	Force overriding the window boundaries, even if the new boundaries are wider than the data boundaries

Exceptions

Exception::IllegalArgument

if the number of maps in the file and the provided input maps to not match, or if the new boundaries are outside of the data boundaries (unless force==true)

Referenced by TOPPOpenSwathBase::loadSwathFiles().

readSwathWindows()

static void readSwathWindows ( const std::string &  filename, std::vector< double > &  swath_prec_lower, std::vector< double > &  swath_prec_upper  )

static

  @brief Reading a tab delimited file specifying the SWATH windows

  The file must of be tab delimited and of the following format:

window_lower window_upper
400 425
425 450
...

  Note that the first line is a header and will be skipped.

  @param filename The filename of the tab delimited file
  @param swath_prec_lower The output vector for the window start
  @param swath_prec_upper The output vector for the window end

  @throw Exception::InvalidValue if window's start >= end