[GENERAL]
AmountOfChains=2
ChainLibrary=fattyAcidChains.xlsx
CAtomsFromName=\D*(\d+):\d+
DoubleBondsFromName=\D*\d+:(\d+)
BasePeakCutoff=0.02%
ChainCutoff=20%
AlkenylChains=1
SpectrumCoverage=10%
RetentionTimePostprocessing=true


[HEAD]
!FRAGMENTS
Name=PChead_104			Formula=C5H14NO			Charge=1	MSLevel=2	mandatory=false
Name=PChead_125			Formula=C2H6O4P			Charge=1	MSLevel=2	mandatory=false
Name=PChead_184			Formula=C5H15NO4P		Charge=1	MSLevel=2	mandatory=true
Name=NL_59_WRONG		Formula=$PRECURSOR-C3H9N	Charge=1	MSLevel=2	mandatory=other
Name=Plasmalogen_fragment_307_WRONG	Formula=C21H39O			Charge=1	MSLevel=2	mandatory=other
Name=PChead_147_WRONG		Formula=C2H5O4PNa		Charge=1	MSLevel=2	mandatory=other
Name=NL_183_WRONG		Formula=$PRECURSOR-P1O4C5N1H14	Charge=1	MSLevel=2	mandatory=other
Name=NL_205_WRONG		Formula=$PRECURSOR-C5H13NO4PNa	Charge=1	MSLevel=2	mandatory=other
Name=Plasmalogen_307_WRONG	Formula=C21H39O			Charge=1	MSLevel=2	mandatory=other

!INTENSITIES
Equation=NL_59_WRONG<0.1*$BASEPEAK			mandatory=true
Equation=NL_59_WRONG<0.2*PChead_184	mandatory=true
Equation=PChead_184>0.2*$BASEPEAK			mandatory=true
Equation=Plasmalogen_fragment_307_WRONG<0.1*$BASEPEAK	mandatory=true
Equation=Plasmalogen_fragment_307_WRONG<0.2*PChead_184	mandatory=true
Equation=PChead_184>0.9*$BASEPEAK		mandatory=true				
Equation=PChead_184*0.1>NL_59_WRONG		mandatory=true
Equation=PChead_184*0.2>NL_183_WRONG		mandatory=true
Equation=PChead_184*0.3>PChead_125		mandatory=true
Equation=PChead_184*0.2>PChead_104		mandatory=true
Equation=PChead_147_WRONG<0.02*PChead_184	mandatory=true
Equation=NL_205_WRONG<0.02*PChead_184		mandatory=true

[CHAINS]
!FRAGMENTS
Name=NL_Ketene		Formula=$PRECURSOR-$CHAIN+H2O		Charge=1	MSLevel=2	mandatory=true
Name=NL_Carboxy		Formula=$PRECURSOR-$CHAIN		Charge=1	MSLevel=2	mandatory=false
Name=NL_Carb_Alk	Formula=$PRECURSOR-$ALKENYLCHAIN	Charge=1	MSLevel=2	mandatory=true
Name=Carb_Alk		Formula=$ALKENYLCHAIN+H			Charge=1	MSLevel=2	mandatory=false

!INTENSITIES
Equation=NL_Carb_Alk*1.5>NL_Ketene	mandatory=true
Equation=NL_Carb_Alk>NL_Carboxy			mandatory=true
Equation=NL_Carb_Alk+NL_Ketene<PChead_184	mandatory=true
Equation=NL_Carb_Alk>0.002*PChead_184		mandatory=true


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