[GENERAL]
AmountOfChains=2
ChainLibrary=fattyAcidChains.xlsx
CAtomsFromName=\D*(\d+):\d+
DoubleBondsFromName=\D*\d+:(\d+)
BasePeakCutoff=1%
ChainCutoff=10%
AlkenylChains=1
SpectrumCoverage=10%
RetentionTimePostprocessing=true
IsobarSCExclusionRatio=0.2
IsobarSCFarExclusionRatio=0.4


[HEAD]
!FRAGMENTS
Name=Precursor				Formula=$PRECURSOR		Charge=1	MSLevel=2	mandatory=false
Name=NL_H2O				Formula=$PRECURSOR-H2O		Charge=1	MSLevel=2	mandatory=true
Name=PEhead_wrong			Formula=$PRECURSOR-P1O4C2N1H8	Charge=1	MSLevel=2	mandatory=other
Name=PChead_wrong			Formula=C5H15NO4P		Charge=1	MSLevel=2	mandatory=other
Name=NL_Ethanolamine_43_wrong		Formula=$PRECURSOR-C2H5N	Charge=1	MSLevel=2	mandatory=other

!INTENSITIES
Equation=PEhead_wrong<$BASEPEAK				mandatory=true
Equation=PChead_wrong<$BASEPEAK				mandatory=true
Equation=NL_Ethanolamine_43_wrong<0.8*$BASEPEAK		mandatory=true
Equation=Precursor<0.5*$BASEPEAK			mandatory=true
Equation=NL_H2O>0.1*Precursor				mandatory=true
Equation=(Precursor+NL_H2O)*3>PEhead_wrong+PChead_wrong	mandatory=true


[CHAINS]
!FRAGMENTS
Name=plasmalogen	Formula=$ALKENYLCHAIN+C2H7O3PN		Charge=1	MSLevel=2	mandatory=true
Name=plasmalogen-H3PO4	Formula=$ALKENYLCHAIN+C2H7O3PN-H3PO4	Charge=1	MSLevel=2	mandatory=false
Name=sn2		Formula=$CHAIN+C3H5O			Charge=1	MSLevel=2	mandatory=true

!INTENSITIES
Equation=plasmalogen>0.25*$BASEPEAK	mandatory=true
Equation=sn2>0.25*$BASEPEAK		mandatory=true


[POSITION]
!INTENSITIES
Equation=sn2[2]>0*$BASEPEAK	mandatory=true
Equation=plasmalogen[1]>0*$BASEPEAK	mandatory=true