[GENERAL]
AmountOfChains=2
ChainLibrary=fattyAcidChains.xlsx
CAtomsFromName=\D*(\d+):\d+
DoubleBondsFromName=\D*\d+:(\d+)
BasePeakCutoff=0.01%
AlkenylChains=1
ChainCutoff=20%
RetentionTimePostprocessing=true
SingleChainIdentification=true
SpectrumCoverage=10%


[HEAD]
!FRAGMENTS
Name=NL_PChead_60		Formula=$PRECURSOR-C2O2H4	Charge=1	MSLevel=2	mandatory=true
Name=PChead_168			Formula=C4H11NO4P		Charge=1	MSLevel=2	mandatory=false
Name=PChead_224			Formula=C7H15O5NP		Charge=1	MSLevel=2	mandatory=false
Name=plasmalogen_fragment_403	Formula=C21H40O5P		Charge=1	MSLevel=2	mandatory=false

!INTENSITIES
Equation=NL_PChead_60>0.9*$BASEPEAK			mandatory=true
Equation=NL_PChead_60*0.3>plasmalogen_fragment_403	mandatory=true
Equation=NL_PChead_60*0.15>PChead_168			mandatory=true


[CHAINS]
!FRAGMENTS
Name=Carboxy		Formula=$CHAIN-H	Charge=1	MSLevel=2			mandatory=true
Name=Alkenyl		Formula=$ALKENYLCHAIN-H	Charge=1	MSLevel=2			mandatory=false
Name=NL-Carboxy		Formula=$PRECURSOR-$CHAIN	Charge=1	MSLevel=2		mandatory=false
Name=NL_Carboxy_head	Formula=NL_PChead_60-$CHAIN		Charge=1	MSLevel=2	mandatory=false
Name=NL_Ketene_head	Formula=NL_PChead_60-$CHAIN+H2O		Charge=1	MSLevel=2	mandatory=true

!INTENSITIES
Equation=Carboxy>0.6*NL_Ketene_head	mandatory=true
Equation=Carboxy>0.4*NL_Carboxy_head	mandatory=true
Equation=0.2*Carboxy>Alkenyl		mandatory=true


[POSITION]
!INTENSITIES
Equation=Carboxy[2]>0.1*NL_Ketene_head[2]+0*$BASEPEAK		mandatory=true
Equation=Alkenyl[1]>0*Carboxy[1]+0*$BASEPEAK			mandatory=true