Merge branch 'fix-pepxml-load' into FFId
Merge branch 'FFId' of https://github.com/hendrikweisser/OpenMS into FFId
[PARAM] added flag 'all_features' to FeatureFinderIdentification (return all features found by OpenSWATH per peptide ID, instead of best one only)
Merge branch 'develop' of https://github.com/OpenMS/OpenMS into FFId
[FEATURE,PARAM] reworked parameter handling, added internal feature detection (not yet finished)
[FEATURE] more work on feature detection (adding meta data to features: m/z, charge, peptide IDs)
[FIX] various fixes to get feature (elution peak) detection working
[FIX] write original intensities instead of scaled ones
Merge branch 'develop' of https://github.com/OpenMS/OpenMS into FFId
[FIX] adapted to change in AASequence class
[FIX] work-around for OpenSWATH: include all protein accessions (not just one) of quantified peptides in output
[PARAM,DOC] changed some parameter defaults and improved parameter documentation for FeatureFinderIdentification
Merge branch 'develop' into FFId

Conflicts:
	src/topp/FeatureFinderIdentification.cpp
[PARAM,DOC] added option to define max. gap length for feature detection; added comments to functions
[PARAM,FEATURE] added option to include zero-intensity points to constrain the model fitting
Merge branch 'develop' of https://github.com/OpenMS/OpenMS into FFId
Merge branch 'develop' of https://github.com/OpenMS/OpenMS into FFId
[PARAM] changed default value for 'add_zeros' parameter (decreasing its influence)
[FIX,PARAM] use 'max_gap' parameter for feature detection; removed unneeded parameter 'fraction' of 'findNextExtremum_'
[FIX,LOG] fixed bug in 'filtered' feature detection (selection of matching points); added debug output; cosmetic changes