PercolatorAdapter has been changed by Timo reverted to proper parsing…#9

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Leon-Bichmann wants to merge 42 commits intomwalzer:fix/TOPPercfrom

Leon-Bichmann:fix/PercolatorAdapter

Commits on Mar 8, 2017

[Feature] add COMETAdapter

Leon Bichmann
authored and
Leon Bichmann
committed

Commits on Mar 22, 2017

COMETAdapter changes - PepXML to idXML error not fixed

Leon Bichmann
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Leon Bichmann
committed

Commits on Mar 24, 2017

COMET Adapter now functional and removes pep.xml and .pin if debug ==0

Leon Bichmann
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Leon Bichmann
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[NOP] documentation
mwalzer
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[FIX] refactoring and cleanup of TopPerc
mwalzer
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[NOP] fileheader and cmake files
mwalzer
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[FEATURE] added a replacement feature for msgf+ mhc ligand identifications
mwalzer
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[Feature] refactored TopPerc a little bit more
mwalzer
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[NOP] added SE PIN info for TopPerc
mwalzer
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[FEATURE] added comet precolator input prep
mwalzer
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[FIX] changed scan referencing
mwalzer
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[FIX] fixed metavaluename for matched ions in comet usage, removed todos done
mwalzer
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[NOP] minor naming consistency correction
mwalzer
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[FEATURE] added mascot feature set - not even close to mascotpercolator feature set due to a lot of missing information (lost in mascotadapter)
mwalzer
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[FIX] some refactoring and fixing the result storage
mwalzer
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[FIX] multi engine percolating like in my pyOpenMS script, but little better (prep pin missing tho)
mwalzer
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[FIX] minimal set multifeature for prepareMULTIpin
mwalzer
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[FIX] removed mapping bugs, improved on logging informative quality
mwalzer
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[FEAT] added concat pin for topperc
mwalzer
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Successful build, used scan identifiers as SpecId for all search engines

MatthewThe
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mwalzer
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PercolatorAdapter working

MatthewThe
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mwalzer
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Created PSMFeatureExtractor util

MatthewThe
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mwalzer
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Set up merging of several idXML files. Added options for peptide and protein-level FDRs

MatthewThe
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mwalzer
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Fixed some issues for xtandem and multi search engine merge

MatthewThe
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mwalzer
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[FIX] fixed after merge to reflect renamed precursor_mass_tolerance
mwalzer
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[NOP] doc and code duplicate removal
mwalzer
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[FIX] fixed faulty getScanMergeKey_ function, added debug information
mwalzer
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[FIX] fixed refactoring introduced glitches
mwalzer
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[FIX] fixing one comet feature fallback
mwalzer
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COMET Adapter XTandem parts replaced by COMET, header still required to be changed

Leon Bichmann
authored and
Leon Bichmann
committed

Commits on Mar 25, 2017

[DOC] percolator related tools documentation
mwalzer
committed

Commits on Mar 27, 2017

[NOP,FIX] corrected some style issues; replaced the other find with hasPrefix in getScanNumber_ of PercolatorAdapter
mwalzer
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Julianus changes and pin file option

Leon Bichmann
authored and
Leon Bichmann
committed

Commits on Mar 28, 2017

PercolatorAdapter has been changed by Timo reverted to proper parsing of native idstring. Prefix was not right for parsing + a couple of couts for debugging

Leon Bichmann
authored and
Leon Bichmann
committed

Commits on Mar 30, 2017

Merge branch 'COMET_and_Percolator' into fix/PercolatorAdapter
Leon-Bichmann
authored