nmr-processing 9.7.7 → 9.7.9-pre.1690349439
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/lib/apodization/compose.js +1 -1
- package/lib/apodization/compose.js.map +1 -1
- package/lib/assignment/get13CAssignments.d.ts +1 -1
- package/lib/assignment/get13CAssignments.js +3 -3
- package/lib/assignment/get13CAssignments.js.map +1 -1
- package/lib/assignment/get1HAssignments.d.ts +2 -4
- package/lib/assignment/get1HAssignments.js +3 -3
- package/lib/assignment/get1HAssignments.js.map +1 -1
- package/lib/assignment/getAssignments.d.ts +3 -5
- package/lib/assignment/getAssignments.js +5 -5
- package/lib/assignment/getAssignments.js.map +1 -1
- package/lib/assignment/nmrAssigment.d.ts +2 -2
- package/lib/assignment/utils/addSolution.d.ts +13 -0
- package/lib/assignment/utils/addSolution.js +29 -0
- package/lib/assignment/utils/addSolution.js.map +1 -0
- package/lib/assignment/utils/{getAssignment → generalAssignment}/buildAssignments.d.ts +13 -27
- package/lib/assignment/utils/{getAssignment → generalAssignment}/buildAssignments.js +15 -15
- package/lib/assignment/utils/generalAssignment/buildAssignments.js.map +1 -0
- package/lib/assignment/utils/{getAssignment → generalAssignment}/checkIDs.js +6 -6
- package/lib/assignment/utils/generalAssignment/checkIDs.js.map +1 -0
- package/lib/assignment/utils/{getAssignment → generalAssignment}/createMapPossibleAssignment.d.ts +3 -7
- package/lib/assignment/utils/{getAssignment → generalAssignment}/createMapPossibleAssignment.js +7 -7
- package/lib/assignment/utils/generalAssignment/createMapPossibleAssignment.js.map +1 -0
- package/lib/assignment/utils/{getAssignment → generalAssignment}/exploreTree.d.ts +1 -1
- package/lib/assignment/utils/{getAssignment → generalAssignment}/exploreTree.js +6 -7
- package/lib/assignment/utils/generalAssignment/exploreTree.js.map +1 -0
- package/lib/assignment/utils/{getAssignment → generalAssignment}/formatData.js +5 -5
- package/lib/assignment/utils/generalAssignment/formatData.js.map +1 -0
- package/lib/assignment/utils/generalAssignment/getIntegrationOfAttachedProtons.js.map +1 -0
- package/lib/assignment/utils/{getAssignment → generalAssignment}/getTargetsAndCorrelations.d.ts +2 -4
- package/lib/assignment/utils/{getAssignment → generalAssignment}/getTargetsAndCorrelations.js +1 -1
- package/lib/assignment/utils/generalAssignment/getTargetsAndCorrelations.js.map +1 -0
- package/lib/assignment/utils/{getAssignment → generalAssignment}/getWorkFlow.d.ts +1 -1
- package/lib/assignment/utils/generalAssignment/getWorkFlow.js.map +1 -0
- package/lib/assignment/utils/{getAssignment → generalAssignment}/groupCarbonTargetByIntegrationZone.js +8 -8
- package/lib/assignment/utils/generalAssignment/groupCarbonTargetByIntegrationZone.js.map +1 -0
- package/lib/assignment/utils/generalAssignment/isSpectraData1D.js.map +1 -0
- package/lib/assignment/utils/{getAssignment → generalAssignment}/partialScore.d.ts +1 -3
- package/lib/assignment/utils/{getAssignment → generalAssignment}/partialScore.js +20 -20
- package/lib/assignment/utils/generalAssignment/partialScore.js.map +1 -0
- package/lib/assignment/utils/generalAssignment/searchIndices.js.map +1 -0
- package/lib/assignment/utils/{buildAssignments.d.ts → oneDimensionalAssignment/buildAssignments.d.ts} +2 -4
- package/lib/assignment/utils/{buildAssignments.js → oneDimensionalAssignment/buildAssignments.js} +4 -4
- package/lib/assignment/utils/oneDimensionalAssignment/buildAssignments.js.map +1 -0
- package/lib/assignment/utils/{createMapPossibleAssignments.d.ts → oneDimensionalAssignment/createMapPossibleAssignments.d.ts} +3 -5
- package/lib/assignment/utils/{createMapPossibleAssignments.js → oneDimensionalAssignment/createMapPossibleAssignments.js} +4 -4
- package/lib/assignment/utils/oneDimensionalAssignment/createMapPossibleAssignments.js.map +1 -0
- package/lib/assignment/utils/{exploreTreeRec.d.ts → oneDimensionalAssignment/exploreTreeRec.d.ts} +1 -1
- package/lib/assignment/utils/{exploreTreeRec.js → oneDimensionalAssignment/exploreTreeRec.js} +7 -8
- package/lib/assignment/utils/oneDimensionalAssignment/exploreTreeRec.js.map +1 -0
- package/lib/assignment/utils/{partialScore.d.ts → oneDimensionalAssignment/partialScore.d.ts} +1 -1
- package/lib/assignment/utils/{partialScore.js → oneDimensionalAssignment/partialScore.js} +9 -9
- package/lib/assignment/utils/oneDimensionalAssignment/partialScore.js.map +1 -0
- package/lib/constants/SignalsKinds.d.ts +2 -2
- package/lib/constants/SignalsKinds.js.map +1 -1
- package/lib/constants/couplingValues.d.ts +1 -3
- package/lib/constants/couplingValues.js.map +1 -1
- package/lib/constants/impurities.d.ts +1509 -6
- package/lib/constants/impurities.js +2 -1
- package/lib/constants/impurities.js.map +1 -1
- package/lib/databases/getDatabase.js +1 -1
- package/lib/databases/getDatabase.js.map +1 -1
- package/lib/datum/Filters.js +4 -0
- package/lib/datum/Filters.js.map +1 -1
- package/lib/datum/FiltersManager.d.ts +1 -1
- package/lib/datum/FiltersManager.js +2 -2
- package/lib/datum/FiltersManager.js.map +1 -1
- package/lib/datum/MatrixOptions.d.ts +2 -2
- package/lib/datum/data1d/Entry1D.d.ts +1 -1
- package/lib/datum/data1d/filter1d/baselineCorrection.js +4 -4
- package/lib/datum/data1d/filter1d/baselineCorrection.js.map +1 -1
- package/lib/datum/data1d/filter1d/digitalFilter.js +2 -2
- package/lib/datum/data1d/filter1d/digitalFilter.js.map +1 -1
- package/lib/datum/data1d/filter1d/fft.js +7 -7
- package/lib/datum/data1d/filter1d/fft.js.map +1 -1
- package/lib/datum/data1d/filter1d/phaseCorrection.js +3 -3
- package/lib/datum/data1d/filter1d/phaseCorrection.js.map +1 -1
- package/lib/datum/data1d/filter1d/signalProcessing.js +1 -1
- package/lib/datum/data1d/filter1d/signalProcessing.js.map +1 -1
- package/lib/datum/data1d/filter1d/utils/padDataToNextPowerOfTwo.js +2 -2
- package/lib/datum/data1d/filter1d/utils/padDataToNextPowerOfTwo.js.map +1 -1
- package/lib/datum/data1d/filter1d/zeroFilling.js +8 -8
- package/lib/datum/data1d/filter1d/zeroFilling.js.map +1 -1
- package/lib/datum/data1d/utils/mapPeaks.js +1 -1
- package/lib/datum/data1d/utils/mapPeaks.js.map +1 -1
- package/lib/datum/data2d/Entry2D.d.ts +1 -1
- package/lib/datum/data2d/filter2d/fftDimension1.d.ts +15 -0
- package/lib/datum/data2d/filter2d/fftDimension1.js +49 -0
- package/lib/datum/data2d/filter2d/fftDimension1.js.map +1 -0
- package/lib/datum/data2d/filter2d/fftDimension2.d.ts +15 -0
- package/lib/datum/data2d/filter2d/fftDimension2.js +60 -0
- package/lib/datum/data2d/filter2d/fftDimension2.js.map +1 -0
- package/lib/datum/data2d/utils/getShift.js +1 -1
- package/lib/datum/data2d/utils/getShift.js.map +1 -1
- package/lib/multiplicity/joinPatterns.js +1 -1
- package/lib/multiplicity/joinPatterns.js.map +1 -1
- package/lib/multiplicity/splitPatterns.js +1 -1
- package/lib/multiplicity/splitPatterns.js.map +1 -1
- package/lib/peaks/peakToXY.d.ts +1 -1
- package/lib/peaks/peaksFilterImpurities.js +7 -6
- package/lib/peaks/peaksFilterImpurities.js.map +1 -1
- package/lib/peaks/peaksToRanges.js +17 -17
- package/lib/peaks/peaksToRanges.js.map +1 -1
- package/lib/peaks/peaksToXY.d.ts +1 -1
- package/lib/peaks/solventSuppression.js +11 -11
- package/lib/peaks/solventSuppression.js.map +1 -1
- package/lib/peaks/util/addMissingIDs.js.map +1 -1
- package/lib/peaks/util/determineRealTop.js +32 -32
- package/lib/peaks/util/determineRealTop.js.map +1 -1
- package/lib/peaks/util/getKernel.js +4 -4
- package/lib/peaks/util/getKernel.js.map +1 -1
- package/lib/peaks/util/peakOptimizer.js +17 -17
- package/lib/peaks/util/peakOptimizer.js.map +1 -1
- package/lib/peaks/util/setIDs.js.map +1 -1
- package/lib/prediction/dataStructure.d.ts +1 -3
- package/lib/prediction/predictAll.js +2 -1
- package/lib/prediction/predictAll.js.map +1 -1
- package/lib/prediction/predictCOSY.js +1 -1
- package/lib/prediction/predictCOSY.js.map +1 -1
- package/lib/prediction/predictCarbon.js +6 -6
- package/lib/prediction/predictCarbon.js.map +1 -1
- package/lib/prediction/predictHMBC.js +1 -1
- package/lib/prediction/predictHMBC.js.map +1 -1
- package/lib/prediction/predictHSQC.js +1 -1
- package/lib/prediction/predictHSQC.js.map +1 -1
- package/lib/prediction/predictProton.js +9 -9
- package/lib/prediction/predictProton.js.map +1 -1
- package/lib/prediction/utils/getFilteredIDiaIDs.js +3 -3
- package/lib/prediction/utils/getFilteredIDiaIDs.js.map +1 -1
- package/lib/prediction/utils/getNuclei.d.ts +1 -3
- package/lib/prediction/utils/getNuclei.js.map +1 -1
- package/lib/prediction/utils/predict2D.d.ts +1 -3
- package/lib/prediction/utils/predict2D.js +17 -17
- package/lib/prediction/utils/predict2D.js.map +1 -1
- package/lib/prediction/utils/queryByHOSE.js +1 -1
- package/lib/prediction/utils/queryByHOSE.js.map +1 -1
- package/lib/ranges/markSolventSignal.js +8 -8
- package/lib/ranges/markSolventSignal.js.map +1 -1
- package/lib/ranges/rangesToACS.js +6 -6
- package/lib/ranges/rangesToACS.js.map +1 -1
- package/lib/ranges/rangesToXY.js +6 -6
- package/lib/ranges/rangesToXY.js.map +1 -1
- package/lib/signal/signalJoinCouplings.js +19 -12
- package/lib/signal/signalJoinCouplings.js.map +1 -1
- package/lib/signal/signalMultiplicityPattern.js +2 -2
- package/lib/signal/signalMultiplicityPattern.js.map +1 -1
- package/lib/signals/addDummySignals.js +4 -4
- package/lib/signals/addDummySignals.js.map +1 -1
- package/lib/signals/hackSignalsToXY.js +1 -1
- package/lib/signals/hackSignalsToXY.js.map +1 -1
- package/lib/signals/optimization/getInternalSignals.js +6 -6
- package/lib/signals/optimization/getInternalSignals.js.map +1 -1
- package/lib/signals/optimization/getSumOfShapes.js +1 -1
- package/lib/signals/optimization/getSumOfShapes.js.map +1 -1
- package/lib/signals/optimizeSignals.js +3 -3
- package/lib/signals/optimizeSignals.js.map +1 -1
- package/lib/signals/signals2DToZ.js +3 -2
- package/lib/signals/signals2DToZ.js.map +1 -1
- package/lib/signals/signalsJoin.js +5 -5
- package/lib/signals/signalsJoin.js.map +1 -1
- package/lib/signals/signalsToFID.js +1 -1
- package/lib/signals/signalsToFID.js.map +1 -1
- package/lib/signals/signalsToRanges.js +3 -3
- package/lib/signals/signalsToRanges.js.map +1 -1
- package/lib/signals/signalsToXY.js +3 -3
- package/lib/signals/signalsToXY.js.map +1 -1
- package/lib/signals/simulation/signalsToSpinSystem.js +2 -2
- package/lib/signals/simulation/signalsToSpinSystem.js.map +1 -1
- package/lib/signals/simulation/simulate1D.js +2 -2
- package/lib/signals/simulation/simulate1D.js.map +1 -1
- package/lib/signals/simulation/simulateXYPeaks.js +15 -17
- package/lib/signals/simulation/simulateXYPeaks.js.map +1 -1
- package/lib/signals/simulation/splitSpinSystem.js +26 -23
- package/lib/signals/simulation/splitSpinSystem.js.map +1 -1
- package/lib/signals/utils/jAnalyzer.js +38 -38
- package/lib/signals/utils/jAnalyzer.js.map +1 -1
- package/lib/types/Integrals.d.ts +1 -1
- package/lib/types/Peaks/Peaks.d.ts +1 -1
- package/lib/types/Ranges/Ranges.d.ts +1 -1
- package/lib/types/Zones/Zone.d.ts +1 -1
- package/lib/types/Zones/Zones.d.ts +1 -1
- package/lib/utilities/getFrequency.js +1 -1
- package/lib/utilities/getFrequency.js.map +1 -1
- package/lib/utilities/resurrectRange.js +1 -1
- package/lib/utilities/resurrectRange.js.map +1 -1
- package/lib/xy/xyAutoPeaksPicking.js +3 -3
- package/lib/xy/xyAutoPeaksPicking.js.map +1 -1
- package/lib/xyz/quadrature.js +6 -6
- package/lib/xyz/quadrature.js.map +1 -1
- package/lib/xyz/util/fft2d/digitalFilter.js +3 -3
- package/lib/xyz/util/fft2d/digitalFilter.js.map +1 -1
- package/lib/xyz/util/fft2d/fftDirectDimension.d.ts +1 -1
- package/lib/xyz/util/fft2d/fftDirectDimension.js +4 -3
- package/lib/xyz/util/fft2d/fftDirectDimension.js.map +1 -1
- package/lib/xyz/util/fft2d/fftIndirectDimension.js +5 -4
- package/lib/xyz/util/fft2d/fftIndirectDimension.js.map +1 -1
- package/lib/xyz/util/fft2d/removeDCOffset.js +1 -1
- package/lib/xyz/util/fft2d/removeDCOffset.js.map +1 -1
- package/lib/xyz/util/fft2d/zeroFilling.js +4 -6
- package/lib/xyz/util/fft2d/zeroFilling.js.map +1 -1
- package/lib/xyz/util/formatZone.js +3 -3
- package/lib/xyz/util/formatZone.js.map +1 -1
- package/lib/xyz/util/getMinMaxXY.d.ts +6 -0
- package/lib/xyz/util/getMinMaxXY.js +23 -0
- package/lib/xyz/util/getMinMaxXY.js.map +1 -0
- package/lib/xyz/util/padData.js +7 -7
- package/lib/xyz/util/padData.js.map +1 -1
- package/lib/xyz/xyzAutoSignalsPicking.js +19 -18
- package/lib/xyz/xyzAutoSignalsPicking.js.map +1 -1
- package/lib/xyz/xyzBidimensionalFFT.js +2 -19
- package/lib/xyz/xyzBidimensionalFFT.js.map +1 -1
- package/lib/xyz/xyzJResAnalyzer.js +21 -21
- package/lib/xyz/xyzJResAnalyzer.js.map +1 -1
- package/lib-esm/apodization/compose.js +1 -1
- package/lib-esm/apodization/compose.js.map +1 -1
- package/lib-esm/assignment/get13CAssignments.js +3 -3
- package/lib-esm/assignment/get13CAssignments.js.map +1 -1
- package/lib-esm/assignment/get1HAssignments.js +3 -3
- package/lib-esm/assignment/get1HAssignments.js.map +1 -1
- package/lib-esm/assignment/getAssignments.js +5 -5
- package/lib-esm/assignment/getAssignments.js.map +1 -1
- package/lib-esm/assignment/utils/addSolution.js +25 -0
- package/lib-esm/assignment/utils/addSolution.js.map +1 -0
- package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/buildAssignments.js +15 -15
- package/lib-esm/assignment/utils/generalAssignment/buildAssignments.js.map +1 -0
- package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/checkIDs.js +6 -6
- package/lib-esm/assignment/utils/generalAssignment/checkIDs.js.map +1 -0
- package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/createMapPossibleAssignment.js +7 -7
- package/lib-esm/assignment/utils/generalAssignment/createMapPossibleAssignment.js.map +1 -0
- package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/exploreTree.js +6 -7
- package/lib-esm/assignment/utils/generalAssignment/exploreTree.js.map +1 -0
- package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/formatData.js +5 -5
- package/lib-esm/assignment/utils/generalAssignment/formatData.js.map +1 -0
- package/lib-esm/assignment/utils/generalAssignment/getIntegrationOfAttachedProtons.js.map +1 -0
- package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/getTargetsAndCorrelations.js +1 -1
- package/lib-esm/assignment/utils/generalAssignment/getTargetsAndCorrelations.js.map +1 -0
- package/lib-esm/assignment/utils/generalAssignment/getWorkFlow.js.map +1 -0
- package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/groupCarbonTargetByIntegrationZone.js +8 -8
- package/lib-esm/assignment/utils/generalAssignment/groupCarbonTargetByIntegrationZone.js.map +1 -0
- package/lib-esm/assignment/utils/generalAssignment/isSpectraData1D.js.map +1 -0
- package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/partialScore.js +20 -20
- package/lib-esm/assignment/utils/generalAssignment/partialScore.js.map +1 -0
- package/lib-esm/assignment/utils/generalAssignment/searchIndices.js.map +1 -0
- package/lib-esm/assignment/utils/{buildAssignments.js → oneDimensionalAssignment/buildAssignments.js} +4 -4
- package/lib-esm/assignment/utils/oneDimensionalAssignment/buildAssignments.js.map +1 -0
- package/lib-esm/assignment/utils/{createMapPossibleAssignments.js → oneDimensionalAssignment/createMapPossibleAssignments.js} +4 -4
- package/lib-esm/assignment/utils/oneDimensionalAssignment/createMapPossibleAssignments.js.map +1 -0
- package/lib-esm/assignment/utils/{exploreTreeRec.js → oneDimensionalAssignment/exploreTreeRec.js} +7 -8
- package/lib-esm/assignment/utils/oneDimensionalAssignment/exploreTreeRec.js.map +1 -0
- package/lib-esm/assignment/utils/{partialScore.js → oneDimensionalAssignment/partialScore.js} +9 -9
- package/lib-esm/assignment/utils/oneDimensionalAssignment/partialScore.js.map +1 -0
- package/lib-esm/constants/SignalsKinds.js.map +1 -1
- package/lib-esm/constants/couplingValues.js.map +1 -1
- package/lib-esm/constants/impurities.js +2 -1
- package/lib-esm/constants/impurities.js.map +1 -1
- package/lib-esm/databases/getDatabase.js +1 -1
- package/lib-esm/databases/getDatabase.js.map +1 -1
- package/lib-esm/datum/Filters.js +4 -0
- package/lib-esm/datum/Filters.js.map +1 -1
- package/lib-esm/datum/FiltersManager.js +2 -2
- package/lib-esm/datum/FiltersManager.js.map +1 -1
- package/lib-esm/datum/data1d/filter1d/baselineCorrection.js +4 -4
- package/lib-esm/datum/data1d/filter1d/baselineCorrection.js.map +1 -1
- package/lib-esm/datum/data1d/filter1d/digitalFilter.js +2 -2
- package/lib-esm/datum/data1d/filter1d/digitalFilter.js.map +1 -1
- package/lib-esm/datum/data1d/filter1d/fft.js +7 -7
- package/lib-esm/datum/data1d/filter1d/fft.js.map +1 -1
- package/lib-esm/datum/data1d/filter1d/phaseCorrection.js +3 -3
- package/lib-esm/datum/data1d/filter1d/phaseCorrection.js.map +1 -1
- package/lib-esm/datum/data1d/filter1d/signalProcessing.js +1 -1
- package/lib-esm/datum/data1d/filter1d/signalProcessing.js.map +1 -1
- package/lib-esm/datum/data1d/filter1d/utils/padDataToNextPowerOfTwo.js +2 -2
- package/lib-esm/datum/data1d/filter1d/utils/padDataToNextPowerOfTwo.js.map +1 -1
- package/lib-esm/datum/data1d/filter1d/zeroFilling.js +8 -8
- package/lib-esm/datum/data1d/filter1d/zeroFilling.js.map +1 -1
- package/lib-esm/datum/data1d/utils/mapPeaks.js +1 -1
- package/lib-esm/datum/data1d/utils/mapPeaks.js.map +1 -1
- package/lib-esm/datum/data2d/filter2d/fftDimension1.js +43 -0
- package/lib-esm/datum/data2d/filter2d/fftDimension1.js.map +1 -0
- package/lib-esm/datum/data2d/filter2d/fftDimension2.js +54 -0
- package/lib-esm/datum/data2d/filter2d/fftDimension2.js.map +1 -0
- package/lib-esm/datum/data2d/utils/getShift.js +1 -1
- package/lib-esm/datum/data2d/utils/getShift.js.map +1 -1
- package/lib-esm/multiplicity/joinPatterns.js +1 -1
- package/lib-esm/multiplicity/joinPatterns.js.map +1 -1
- package/lib-esm/multiplicity/splitPatterns.js +1 -1
- package/lib-esm/multiplicity/splitPatterns.js.map +1 -1
- package/lib-esm/peaks/peaksFilterImpurities.js +7 -6
- package/lib-esm/peaks/peaksFilterImpurities.js.map +1 -1
- package/lib-esm/peaks/peaksToRanges.js +17 -17
- package/lib-esm/peaks/peaksToRanges.js.map +1 -1
- package/lib-esm/peaks/solventSuppression.js +11 -11
- package/lib-esm/peaks/solventSuppression.js.map +1 -1
- package/lib-esm/peaks/util/addMissingIDs.js.map +1 -1
- package/lib-esm/peaks/util/determineRealTop.js +32 -32
- package/lib-esm/peaks/util/determineRealTop.js.map +1 -1
- package/lib-esm/peaks/util/getKernel.js +4 -4
- package/lib-esm/peaks/util/getKernel.js.map +1 -1
- package/lib-esm/peaks/util/peakOptimizer.js +17 -17
- package/lib-esm/peaks/util/peakOptimizer.js.map +1 -1
- package/lib-esm/peaks/util/setIDs.js.map +1 -1
- package/lib-esm/prediction/predictAll.js +2 -1
- package/lib-esm/prediction/predictAll.js.map +1 -1
- package/lib-esm/prediction/predictCOSY.js +1 -1
- package/lib-esm/prediction/predictCOSY.js.map +1 -1
- package/lib-esm/prediction/predictCarbon.js +6 -6
- package/lib-esm/prediction/predictCarbon.js.map +1 -1
- package/lib-esm/prediction/predictHMBC.js +1 -1
- package/lib-esm/prediction/predictHMBC.js.map +1 -1
- package/lib-esm/prediction/predictHSQC.js +1 -1
- package/lib-esm/prediction/predictHSQC.js.map +1 -1
- package/lib-esm/prediction/predictProton.js +9 -9
- package/lib-esm/prediction/predictProton.js.map +1 -1
- package/lib-esm/prediction/utils/getFilteredIDiaIDs.js +3 -3
- package/lib-esm/prediction/utils/getFilteredIDiaIDs.js.map +1 -1
- package/lib-esm/prediction/utils/getNuclei.js.map +1 -1
- package/lib-esm/prediction/utils/predict2D.js +17 -17
- package/lib-esm/prediction/utils/predict2D.js.map +1 -1
- package/lib-esm/prediction/utils/queryByHOSE.js +1 -1
- package/lib-esm/prediction/utils/queryByHOSE.js.map +1 -1
- package/lib-esm/ranges/markSolventSignal.js +8 -8
- package/lib-esm/ranges/markSolventSignal.js.map +1 -1
- package/lib-esm/ranges/rangesToACS.js +6 -6
- package/lib-esm/ranges/rangesToACS.js.map +1 -1
- package/lib-esm/ranges/rangesToXY.js +6 -6
- package/lib-esm/ranges/rangesToXY.js.map +1 -1
- package/lib-esm/signal/signalJoinCouplings.js +19 -12
- package/lib-esm/signal/signalJoinCouplings.js.map +1 -1
- package/lib-esm/signal/signalMultiplicityPattern.js +2 -2
- package/lib-esm/signal/signalMultiplicityPattern.js.map +1 -1
- package/lib-esm/signals/addDummySignals.js +4 -4
- package/lib-esm/signals/addDummySignals.js.map +1 -1
- package/lib-esm/signals/hackSignalsToXY.js +1 -1
- package/lib-esm/signals/hackSignalsToXY.js.map +1 -1
- package/lib-esm/signals/optimization/getInternalSignals.js +6 -6
- package/lib-esm/signals/optimization/getInternalSignals.js.map +1 -1
- package/lib-esm/signals/optimization/getSumOfShapes.js +1 -1
- package/lib-esm/signals/optimization/getSumOfShapes.js.map +1 -1
- package/lib-esm/signals/optimizeSignals.js +3 -3
- package/lib-esm/signals/optimizeSignals.js.map +1 -1
- package/lib-esm/signals/signals2DToZ.js +3 -2
- package/lib-esm/signals/signals2DToZ.js.map +1 -1
- package/lib-esm/signals/signalsJoin.js +5 -5
- package/lib-esm/signals/signalsJoin.js.map +1 -1
- package/lib-esm/signals/signalsToFID.js +1 -1
- package/lib-esm/signals/signalsToFID.js.map +1 -1
- package/lib-esm/signals/signalsToRanges.js +3 -3
- package/lib-esm/signals/signalsToRanges.js.map +1 -1
- package/lib-esm/signals/signalsToXY.js +3 -3
- package/lib-esm/signals/signalsToXY.js.map +1 -1
- package/lib-esm/signals/simulation/signalsToSpinSystem.js +2 -2
- package/lib-esm/signals/simulation/signalsToSpinSystem.js.map +1 -1
- package/lib-esm/signals/simulation/simulate1D.js +2 -2
- package/lib-esm/signals/simulation/simulate1D.js.map +1 -1
- package/lib-esm/signals/simulation/simulateXYPeaks.js +15 -17
- package/lib-esm/signals/simulation/simulateXYPeaks.js.map +1 -1
- package/lib-esm/signals/simulation/splitSpinSystem.js +26 -23
- package/lib-esm/signals/simulation/splitSpinSystem.js.map +1 -1
- package/lib-esm/signals/utils/jAnalyzer.js +38 -38
- package/lib-esm/signals/utils/jAnalyzer.js.map +1 -1
- package/lib-esm/utilities/getFrequency.js +1 -1
- package/lib-esm/utilities/getFrequency.js.map +1 -1
- package/lib-esm/utilities/resurrectRange.js +1 -1
- package/lib-esm/utilities/resurrectRange.js.map +1 -1
- package/lib-esm/xy/xyAutoPeaksPicking.js +3 -3
- package/lib-esm/xy/xyAutoPeaksPicking.js.map +1 -1
- package/lib-esm/xyz/quadrature.js +6 -6
- package/lib-esm/xyz/quadrature.js.map +1 -1
- package/lib-esm/xyz/util/fft2d/digitalFilter.js +3 -3
- package/lib-esm/xyz/util/fft2d/digitalFilter.js.map +1 -1
- package/lib-esm/xyz/util/fft2d/fftDirectDimension.js +4 -3
- package/lib-esm/xyz/util/fft2d/fftDirectDimension.js.map +1 -1
- package/lib-esm/xyz/util/fft2d/fftIndirectDimension.js +5 -4
- package/lib-esm/xyz/util/fft2d/fftIndirectDimension.js.map +1 -1
- package/lib-esm/xyz/util/fft2d/removeDCOffset.js +1 -1
- package/lib-esm/xyz/util/fft2d/removeDCOffset.js.map +1 -1
- package/lib-esm/xyz/util/fft2d/zeroFilling.js +4 -6
- package/lib-esm/xyz/util/fft2d/zeroFilling.js.map +1 -1
- package/lib-esm/xyz/util/formatZone.js +3 -3
- package/lib-esm/xyz/util/formatZone.js.map +1 -1
- package/lib-esm/xyz/util/getMinMaxXY.js +19 -0
- package/lib-esm/xyz/util/getMinMaxXY.js.map +1 -0
- package/lib-esm/xyz/util/padData.js +7 -7
- package/lib-esm/xyz/util/padData.js.map +1 -1
- package/lib-esm/xyz/xyzAutoSignalsPicking.js +19 -18
- package/lib-esm/xyz/xyzAutoSignalsPicking.js.map +1 -1
- package/lib-esm/xyz/xyzBidimensionalFFT.js +1 -18
- package/lib-esm/xyz/xyzBidimensionalFFT.js.map +1 -1
- package/lib-esm/xyz/xyzJResAnalyzer.js +21 -21
- package/lib-esm/xyz/xyzJResAnalyzer.js.map +1 -1
- package/package.json +5 -5
- package/src/apodization/compose.ts +1 -1
- package/src/assignment/get13CAssignments.ts +6 -3
- package/src/assignment/get1HAssignments.ts +7 -6
- package/src/assignment/getAssignments.ts +7 -7
- package/src/assignment/nmrAssigment.ts +2 -2
- package/src/assignment/utils/addSolution.ts +45 -0
- package/src/assignment/utils/{getAssignment → generalAssignment}/buildAssignments.ts +29 -36
- package/src/assignment/utils/{getAssignment → generalAssignment}/checkIDs.ts +6 -6
- package/src/assignment/utils/{getAssignment → generalAssignment}/createMapPossibleAssignment.ts +10 -14
- package/src/assignment/utils/{getAssignment → generalAssignment}/exploreTree.ts +7 -8
- package/src/assignment/utils/{getAssignment → generalAssignment}/formatData.ts +5 -5
- package/src/assignment/utils/{getAssignment → generalAssignment}/getTargetsAndCorrelations.ts +3 -5
- package/src/assignment/utils/{getAssignment → generalAssignment}/getWorkFlow.ts +2 -5
- package/src/assignment/utils/{getAssignment → generalAssignment}/groupCarbonTargetByIntegrationZone.ts +8 -8
- package/src/assignment/utils/{getAssignment → generalAssignment}/partialScore.ts +25 -29
- package/src/assignment/utils/{buildAssignments.ts → oneDimensionalAssignment/buildAssignments.ts} +6 -8
- package/src/assignment/utils/{createMapPossibleAssignments.ts → oneDimensionalAssignment/createMapPossibleAssignments.ts} +9 -9
- package/src/assignment/utils/{exploreTreeRec.ts → oneDimensionalAssignment/exploreTreeRec.ts} +8 -9
- package/src/assignment/utils/{partialScore.ts → oneDimensionalAssignment/partialScore.ts} +10 -12
- package/src/constants/SignalsKinds.ts +1 -1
- package/src/constants/couplingValues.ts +1 -1
- package/src/constants/impurities.ts +14 -15
- package/src/databases/getDatabase.ts +1 -1
- package/src/datum/Filters.ts +4 -0
- package/src/datum/FiltersManager.ts +3 -3
- package/src/datum/MatrixOptions.ts +1 -1
- package/src/datum/data1d/Entry1D.ts +1 -1
- package/src/datum/data1d/filter1d/baselineCorrection.ts +4 -4
- package/src/datum/data1d/filter1d/digitalFilter.ts +2 -2
- package/src/datum/data1d/filter1d/fft.ts +7 -7
- package/src/datum/data1d/filter1d/phaseCorrection.ts +3 -3
- package/src/datum/data1d/filter1d/signalProcessing.ts +1 -1
- package/src/datum/data1d/filter1d/utils/padDataToNextPowerOfTwo.ts +2 -2
- package/src/datum/data1d/filter1d/zeroFilling.ts +10 -9
- package/src/datum/data1d/utils/mapPeaks.ts +1 -1
- package/src/datum/data2d/Entry2D.ts +1 -1
- package/src/datum/data2d/filter2d/fftDimension1.ts +61 -0
- package/src/datum/data2d/filter2d/fftDimension2.ts +72 -0
- package/src/datum/data2d/utils/getShift.ts +1 -1
- package/src/ml-tree-set.d.ts +1 -1
- package/src/multiplicity/joinPatterns.ts +3 -1
- package/src/multiplicity/splitPatterns.ts +1 -1
- package/src/peaks/peaksFilterImpurities.ts +7 -6
- package/src/peaks/peaksToRanges.ts +19 -18
- package/src/peaks/solventSuppression.ts +11 -11
- package/src/peaks/util/addMissingIDs.ts +1 -1
- package/src/peaks/util/determineRealTop.ts +32 -32
- package/src/peaks/util/getKernel.ts +4 -4
- package/src/peaks/util/peakOptimizer.ts +17 -17
- package/src/peaks/util/setIDs.ts +6 -4
- package/src/prediction/dataStructure.ts +1 -3
- package/src/prediction/predictAll.ts +3 -2
- package/src/prediction/predictCOSY.ts +1 -1
- package/src/prediction/predictCarbon.ts +6 -6
- package/src/prediction/predictHMBC.ts +1 -1
- package/src/prediction/predictHSQC.ts +1 -1
- package/src/prediction/predictProton.ts +9 -9
- package/src/prediction/utils/getFilteredIDiaIDs.ts +3 -3
- package/src/prediction/utils/getNuclei.ts +2 -2
- package/src/prediction/utils/predict2D.ts +21 -25
- package/src/prediction/utils/queryByHOSE.ts +1 -1
- package/src/ranges/markSolventSignal.ts +8 -8
- package/src/ranges/rangesToACS.ts +6 -6
- package/src/ranges/rangesToXY.ts +6 -6
- package/src/signal/signalJoinCouplings.ts +22 -16
- package/src/signal/signalMultiplicityPattern.ts +2 -2
- package/src/signals/addDummySignals.ts +4 -4
- package/src/signals/hackSignalsToXY.ts +1 -1
- package/src/signals/optimization/getInternalSignals.ts +6 -6
- package/src/signals/optimization/getSumOfShapes.ts +1 -1
- package/src/signals/optimizeSignals.ts +3 -3
- package/src/signals/signals2DToZ.ts +4 -8
- package/src/signals/signalsJoin.ts +5 -5
- package/src/signals/signalsToFID.ts +1 -1
- package/src/signals/signalsToRanges.ts +3 -3
- package/src/signals/signalsToXY.ts +3 -3
- package/src/signals/simulation/signalsToSpinSystem.ts +3 -5
- package/src/signals/simulation/simulate1D.ts +2 -2
- package/src/signals/simulation/simulateXYPeaks.ts +16 -17
- package/src/signals/simulation/splitSpinSystem.ts +28 -25
- package/src/signals/utils/jAnalyzer.ts +38 -38
- package/src/types/Integrals.ts +1 -1
- package/src/types/Peaks/Peaks.ts +1 -1
- package/src/types/Ranges/Ranges.ts +1 -1
- package/src/types/Zones/Zone.ts +1 -1
- package/src/types/Zones/Zones.ts +1 -1
- package/src/utilities/getFrequency.ts +1 -1
- package/src/utilities/resurrectRange.ts +1 -1
- package/src/xy/xyAutoPeaksPicking.ts +3 -3
- package/src/xyz/quadrature.ts +6 -6
- package/src/xyz/util/fft2d/digitalFilter.ts +3 -3
- package/src/xyz/util/fft2d/fftDirectDimension.ts +4 -7
- package/src/xyz/util/fft2d/fftIndirectDimension.ts +6 -8
- package/src/xyz/util/fft2d/removeDCOffset.ts +1 -1
- package/src/xyz/util/fft2d/zeroFilling.ts +5 -6
- package/src/xyz/util/formatZone.ts +3 -3
- package/src/xyz/util/getMinMaxXY.ts +19 -0
- package/src/xyz/util/padData.ts +7 -7
- package/src/xyz/xyzAutoSignalsPicking.ts +20 -19
- package/src/xyz/xyzBidimensionalFFT.ts +1 -20
- package/src/xyz/xyzJResAnalyzer.ts +21 -21
- package/lib/assignment/utils/buildAssignments.js.map +0 -1
- package/lib/assignment/utils/createMapPossibleAssignments.js.map +0 -1
- package/lib/assignment/utils/exploreTreeRec.js.map +0 -1
- package/lib/assignment/utils/getAssignment/buildAssignments.js.map +0 -1
- package/lib/assignment/utils/getAssignment/checkIDs.js.map +0 -1
- package/lib/assignment/utils/getAssignment/createMapPossibleAssignment.js.map +0 -1
- package/lib/assignment/utils/getAssignment/exploreTree.js.map +0 -1
- package/lib/assignment/utils/getAssignment/formatData.js.map +0 -1
- package/lib/assignment/utils/getAssignment/getIntegrationOfAttachedProtons.js.map +0 -1
- package/lib/assignment/utils/getAssignment/getTargetsAndCorrelations.js.map +0 -1
- package/lib/assignment/utils/getAssignment/getWorkFlow.js.map +0 -1
- package/lib/assignment/utils/getAssignment/groupCarbonTargetByIntegrationZone.js.map +0 -1
- package/lib/assignment/utils/getAssignment/isSpectraData1D.js.map +0 -1
- package/lib/assignment/utils/getAssignment/partialScore.js.map +0 -1
- package/lib/assignment/utils/getAssignment/searchIndices.js.map +0 -1
- package/lib/assignment/utils/partialScore.js.map +0 -1
- package/lib-esm/assignment/utils/buildAssignments.js.map +0 -1
- package/lib-esm/assignment/utils/createMapPossibleAssignments.js.map +0 -1
- package/lib-esm/assignment/utils/exploreTreeRec.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/buildAssignments.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/checkIDs.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/createMapPossibleAssignment.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/exploreTree.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/formatData.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/getIntegrationOfAttachedProtons.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/getTargetsAndCorrelations.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/getWorkFlow.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/groupCarbonTargetByIntegrationZone.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/isSpectraData1D.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/partialScore.js.map +0 -1
- package/lib-esm/assignment/utils/getAssignment/searchIndices.js.map +0 -1
- package/lib-esm/assignment/utils/partialScore.js.map +0 -1
- /package/lib/assignment/utils/{getAssignment → generalAssignment}/checkIDs.d.ts +0 -0
- /package/lib/assignment/utils/{getAssignment → generalAssignment}/formatData.d.ts +0 -0
- /package/lib/assignment/utils/{getAssignment → generalAssignment}/getIntegrationOfAttachedProtons.d.ts +0 -0
- /package/lib/assignment/utils/{getAssignment → generalAssignment}/getIntegrationOfAttachedProtons.js +0 -0
- /package/lib/assignment/utils/{getAssignment → generalAssignment}/getWorkFlow.js +0 -0
- /package/lib/assignment/utils/{getAssignment → generalAssignment}/groupCarbonTargetByIntegrationZone.d.ts +0 -0
- /package/lib/assignment/utils/{getAssignment → generalAssignment}/isSpectraData1D.d.ts +0 -0
- /package/lib/assignment/utils/{getAssignment → generalAssignment}/isSpectraData1D.js +0 -0
- /package/lib/assignment/utils/{getAssignment → generalAssignment}/searchIndices.d.ts +0 -0
- /package/lib/assignment/utils/{getAssignment → generalAssignment}/searchIndices.js +0 -0
- /package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/getIntegrationOfAttachedProtons.js +0 -0
- /package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/getWorkFlow.js +0 -0
- /package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/isSpectraData1D.js +0 -0
- /package/lib-esm/assignment/utils/{getAssignment → generalAssignment}/searchIndices.js +0 -0
- /package/src/assignment/utils/{getAssignment → generalAssignment}/getIntegrationOfAttachedProtons.ts +0 -0
- /package/src/assignment/utils/{getAssignment → generalAssignment}/isSpectraData1D.ts +0 -0
- /package/src/assignment/utils/{getAssignment → generalAssignment}/searchIndices.ts +0 -0
package/src/assignment/utils/{buildAssignments.ts → oneDimensionalAssignment/buildAssignments.ts}
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}
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package/src/assignment/utils/{exploreTreeRec.ts → oneDimensionalAssignment/exploreTreeRec.ts}
RENAMED
|
@@ -1,4 +1,4 @@
|
|
|
1
|
-
import type { Targets } from '
|
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1
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+
import type { Targets } from '../../get1HAssignments';
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|
2
2
|
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|
3
3
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import type {
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4
4
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RestrictionByCS1D,
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@@ -50,9 +50,9 @@ export function exploreTreeRec(
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50
50
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51
51
|
const diaID = diaIDPeerPossibleAssignment[currentIndex];
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|
52
52
|
const possibleAssignments = possibleAssignmentMap[diaID];
|
|
53
|
-
for (
|
|
53
|
+
for (const targetID of possibleAssignments) {
|
|
54
54
|
partial[currentIndex] = targetID;
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|
55
|
-
|
|
55
|
+
const score = partialScore(partial, {
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|
56
56
|
useIntegrationRestriction,
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57
57
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diaIDPeerPossibleAssignment,
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58
58
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nbAllowedUnAssigned,
|
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@@ -107,12 +107,11 @@ interface AddSolutionProps {
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107
107
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}
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108
108
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109
109
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function addSolution(store: StoreAssignments, props: AddSolutionProps) {
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110
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-
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|
111
|
-
score /= doubleAssignmentPenalty(partial, predictions);
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|
110
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+
const { score, maxSolutions, partial, predictions } = props;
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112
111
|
store.nSolutions++;
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|
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-
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112
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+
const solution: SolutionAssignment = {
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114
113
|
assignment: JSON.parse(JSON.stringify(partial)),
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|
115
|
-
score,
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|
114
|
+
score: score / doubleAssignmentPenalty(partial, predictions),
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|
116
115
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};
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116
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118
117
|
if (store.nSolutions >= maxSolutions) {
|
|
@@ -131,7 +130,7 @@ function doubleAssignmentPenalty(
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131
130
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predictions: Predictions1Dassignments,
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) {
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const nbSources = Object.keys(predictions).length;
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-
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-
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133
|
+
const assignments = new Set(partial);
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134
|
+
const nbDoubleAssignment = nbSources - assignments.size;
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136
135
|
return nbDoubleAssignment > 0 ? 2 * nbDoubleAssignment : 1;
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136
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}
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|
@@ -1,4 +1,4 @@
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1
|
-
import { Targets } from '
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1
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+
import { Targets } from '../../get1HAssignments';
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|
2
2
|
|
|
3
3
|
import type {
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4
4
|
Predictions1Dassignments,
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|
@@ -32,11 +32,9 @@ export function partialScore(
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|
32
32
|
} = options;
|
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33
33
|
const { useChemicalShiftScore } = restrictionByCS;
|
|
34
34
|
let countStars = 0;
|
|
35
|
-
|
|
36
|
-
|
|
37
|
-
|
|
38
|
-
} = {};
|
|
39
|
-
let activeDomainOnPrediction: number[] = [];
|
|
35
|
+
const totalPartial = partial.length;
|
|
36
|
+
const partialInverse: Record<string, string[]> = {};
|
|
37
|
+
const activeDomainOnPrediction: number[] = [];
|
|
40
38
|
|
|
41
39
|
for (let i = 0; i < partial.length; i++) {
|
|
42
40
|
const targetID = partial[i];
|
|
@@ -58,8 +56,8 @@ export function partialScore(
|
|
|
58
56
|
}
|
|
59
57
|
|
|
60
58
|
if (useIntegrationRestriction) {
|
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61
|
-
for (
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62
|
-
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59
|
+
for (const targetID of activeDomainOnTarget) {
|
|
60
|
+
const targetToSource = partialInverse[targetID];
|
|
63
61
|
let total = 0;
|
|
64
62
|
for (const diaID of targetToSource) {
|
|
65
63
|
const prediction = predictions[diaID];
|
|
@@ -74,7 +72,7 @@ export function partialScore(
|
|
|
74
72
|
}
|
|
75
73
|
|
|
76
74
|
//chemical shift score
|
|
77
|
-
|
|
75
|
+
const chemicalShiftScore = useChemicalShiftScore
|
|
78
76
|
? chemicalShiftScoring(partial, options)
|
|
79
77
|
: 1;
|
|
80
78
|
|
|
@@ -96,9 +94,9 @@ function chemicalShiftScoring(
|
|
|
96
94
|
const targetID = partial[index];
|
|
97
95
|
if (targetID && targetID !== '*') {
|
|
98
96
|
count++;
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|
99
|
-
|
|
100
|
-
|
|
101
|
-
|
|
97
|
+
const diaID = diaIDPeerPossibleAssignment[index];
|
|
98
|
+
const source = predictions[diaID];
|
|
99
|
+
const target = targets[targetID];
|
|
102
100
|
let error = tolerance;
|
|
103
101
|
if (source.error) {
|
|
104
102
|
error = Math.max(source.error, tolerance);
|
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
import { MultiplicityPatterns } from './MultiplicityPatterns';
|
|
2
2
|
|
|
3
|
-
const result:
|
|
3
|
+
const result: Record<string, number> = {};
|
|
4
4
|
for (const { value, multiplicity, names } of MultiplicityPatterns) {
|
|
5
5
|
if (multiplicity) result[value] = multiplicity - 1;
|
|
6
6
|
for (const name of names) {
|
|
@@ -1,19 +1,5 @@
|
|
|
1
|
-
export interface SolventImpurities {
|
|
2
|
-
[key: string]: Impurity;
|
|
3
|
-
}
|
|
4
|
-
|
|
5
|
-
export interface Impurity {
|
|
6
|
-
[key: string]: ImpuritySignal[];
|
|
7
|
-
}
|
|
8
|
-
|
|
9
|
-
export interface ImpuritySignal {
|
|
10
|
-
proton: string;
|
|
11
|
-
coupling: number;
|
|
12
|
-
multiplicity: string;
|
|
13
|
-
shift: number;
|
|
14
|
-
}
|
|
15
1
|
/* eslint-disable camelcase */
|
|
16
|
-
|
|
2
|
+
const impuritiesContent = {
|
|
17
3
|
cdcl3: {
|
|
18
4
|
tms: [
|
|
19
5
|
{
|
|
@@ -3144,3 +3130,16 @@ export const impurities: SolventImpurities = {
|
|
|
3144
3130
|
],
|
|
3145
3131
|
},
|
|
3146
3132
|
};
|
|
3133
|
+
export type SolventImpurities = Record<Solvent, Impurity>;
|
|
3134
|
+
|
|
3135
|
+
export type Impurity = Record<string, ImpuritySignal[]>;
|
|
3136
|
+
|
|
3137
|
+
export type Solvent = keyof typeof impuritiesContent;
|
|
3138
|
+
|
|
3139
|
+
export interface ImpuritySignal {
|
|
3140
|
+
proton: string;
|
|
3141
|
+
coupling: number;
|
|
3142
|
+
multiplicity: string;
|
|
3143
|
+
shift: number;
|
|
3144
|
+
}
|
|
3145
|
+
export const impurities: SolventImpurities = impuritiesContent;
|
package/src/datum/Filters.ts
CHANGED
|
@@ -11,6 +11,8 @@ import * as signalProcessing from './data1d/filter1d/signalProcessing';
|
|
|
11
11
|
import * as zeroFilling from './data1d/filter1d/zeroFilling';
|
|
12
12
|
import * as shift2DX from './data2d/filter2d/shiftX';
|
|
13
13
|
import * as shift2DY from './data2d/filter2d/shiftY';
|
|
14
|
+
import * as fftDimension1 from './data2d/filter2d/fftDimension1';
|
|
15
|
+
import * as fftDimension2 from './data2d/filter2d/fftDimension2';
|
|
14
16
|
|
|
15
17
|
export type { ApodizationOptions } from './data1d/filter1d/apodization/apodization';
|
|
16
18
|
export type {
|
|
@@ -46,6 +48,8 @@ export const Filters: Record<
|
|
|
46
48
|
digitalFilter,
|
|
47
49
|
equallySpaced,
|
|
48
50
|
fft,
|
|
51
|
+
fftDimension1,
|
|
52
|
+
fftDimension2,
|
|
49
53
|
phaseCorrection,
|
|
50
54
|
shiftX,
|
|
51
55
|
zeroFilling,
|
|
@@ -43,7 +43,7 @@ function updateData(datum: Entry1D | Entry2D) {
|
|
|
43
43
|
|
|
44
44
|
interface ApplyFilterOptions {
|
|
45
45
|
forceReapply?: boolean;
|
|
46
|
-
filterIndex?: number
|
|
46
|
+
filterIndex?: number;
|
|
47
47
|
}
|
|
48
48
|
|
|
49
49
|
interface FilterOption {
|
|
@@ -62,7 +62,7 @@ export function applyFilter(
|
|
|
62
62
|
) {
|
|
63
63
|
const { forceReapply = false, filterIndex } = options;
|
|
64
64
|
let isReduced = false;
|
|
65
|
-
for (
|
|
65
|
+
for (const filter of filters) {
|
|
66
66
|
const filterOption = {
|
|
67
67
|
name: filter.name,
|
|
68
68
|
label: Filters[filter.name].name,
|
|
@@ -99,7 +99,7 @@ export function applyFilter(
|
|
|
99
99
|
reapplyFilters(datum);
|
|
100
100
|
}
|
|
101
101
|
} else {
|
|
102
|
-
for (
|
|
102
|
+
for (const filter of filters) {
|
|
103
103
|
Filters[filter.name].apply(datum, filter.value);
|
|
104
104
|
}
|
|
105
105
|
}
|
|
@@ -40,7 +40,7 @@ export function apply(datum1D: Entry1D, options: BaselineCorrectionOptions) {
|
|
|
40
40
|
throw new Error('baselineCorrection not applicable on this data');
|
|
41
41
|
}
|
|
42
42
|
const { algorithm } = options;
|
|
43
|
-
|
|
43
|
+
const { x, re } = datum1D.data;
|
|
44
44
|
|
|
45
45
|
let corrected;
|
|
46
46
|
switch (algorithm) {
|
|
@@ -50,14 +50,14 @@ export function apply(datum1D: Entry1D, options: BaselineCorrectionOptions) {
|
|
|
50
50
|
case 'polynomial':
|
|
51
51
|
{
|
|
52
52
|
const { degree, zones } = options;
|
|
53
|
-
|
|
53
|
+
const reduced = xyEquallySpaced(
|
|
54
54
|
{ x, y: re },
|
|
55
55
|
{ numberOfPoints: 4096, zones },
|
|
56
56
|
);
|
|
57
|
-
|
|
57
|
+
const result = baselineRegression(reduced.x, reduced.y, {
|
|
58
58
|
regressionOptions: degree,
|
|
59
59
|
});
|
|
60
|
-
|
|
60
|
+
const { regression } = result;
|
|
61
61
|
corrected = new Float64Array(x.length);
|
|
62
62
|
for (let i = 0; i < re.length; i++) {
|
|
63
63
|
corrected[i] = re[i] - regression.predict(x[i]);
|
|
@@ -33,8 +33,8 @@ export function apply(spectrum: Entry1DDigitalFilter, options: any = {}) {
|
|
|
33
33
|
}
|
|
34
34
|
}
|
|
35
35
|
|
|
36
|
-
|
|
37
|
-
|
|
36
|
+
const re = new Float64Array(spectrum.data.re);
|
|
37
|
+
const im = new Float64Array(spectrum.data.im);
|
|
38
38
|
|
|
39
39
|
let pointsToShift = Math.floor(digitalFilterValue);
|
|
40
40
|
|
|
@@ -29,7 +29,7 @@ export function apply(datum1D: Entry1DFt) {
|
|
|
29
29
|
|
|
30
30
|
checkSameLength(datum1D);
|
|
31
31
|
|
|
32
|
-
|
|
32
|
+
const digitalFilterApplied = datum1D.filters.some(
|
|
33
33
|
(e) => e.name === 'digitalFilter' && e.flag,
|
|
34
34
|
);
|
|
35
35
|
|
|
@@ -58,8 +58,8 @@ export function apply(datum1D: Entry1DFt) {
|
|
|
58
58
|
);
|
|
59
59
|
|
|
60
60
|
if (digitalFilterApplied) {
|
|
61
|
-
|
|
62
|
-
|
|
61
|
+
const { digitalFilter = 0 } = info;
|
|
62
|
+
const ph1 = (digitalFilter - Math.floor(digitalFilter)) * Math.PI * 2;
|
|
63
63
|
Object.assign(
|
|
64
64
|
data,
|
|
65
65
|
reimPhaseCorrection(data as DataReIm, 0, -ph1, { reverse: true }),
|
|
@@ -90,10 +90,10 @@ function generateXAxis(datum1D: Entry1DFt) {
|
|
|
90
90
|
const frequencyOffset = Number(info.frequencyOffset);
|
|
91
91
|
const spectralWidth = Number(info.spectralWidth);
|
|
92
92
|
const offset = frequencyOffset / baseFrequency;
|
|
93
|
-
|
|
94
|
-
|
|
93
|
+
const spectralHalfWidth = 0.5 * spectralWidth;
|
|
94
|
+
const nbPoints = datum1D.data.x.length;
|
|
95
95
|
let firstPoint = offset - spectralHalfWidth;
|
|
96
|
-
|
|
96
|
+
const dx = spectralWidth / (nbPoints - 1);
|
|
97
97
|
const xAxis = new Float64Array(nbPoints);
|
|
98
98
|
for (let i = 0; i < nbPoints; i++) {
|
|
99
99
|
xAxis[i] = firstPoint;
|
|
@@ -110,7 +110,7 @@ function removeDCOffset(
|
|
|
110
110
|
spectrum: Partial<Entry1DFt> & { data: Required<NmrData1D> },
|
|
111
111
|
digitalFilterApplied: boolean,
|
|
112
112
|
) {
|
|
113
|
-
|
|
113
|
+
const { digitalFilter = 0 } =
|
|
114
114
|
digitalFilterApplied && spectrum.info ? spectrum.info : {};
|
|
115
115
|
const data = spectrum.data;
|
|
116
116
|
const nbPoints = data.re.length;
|
|
@@ -45,13 +45,13 @@ export function apply(datum1D: Entry1D, options: any = {}) {
|
|
|
45
45
|
filter.value = { ...filter.value, ph0: 0, ph1: 0, absolute };
|
|
46
46
|
}
|
|
47
47
|
} else if ('ph0' in options && 'ph1' in options) {
|
|
48
|
-
|
|
48
|
+
const { ph0, ph1 } = options;
|
|
49
49
|
phaseCorrection(datum1D, { ph0, ph1 });
|
|
50
50
|
if (filter) {
|
|
51
51
|
filter.value = { ...filter.value, absolute };
|
|
52
52
|
}
|
|
53
53
|
} else {
|
|
54
|
-
|
|
54
|
+
const { ph0, ph1 } = autoPhaseCorrection(datum1D);
|
|
55
55
|
phaseCorrection(datum1D, { ph0, ph1 });
|
|
56
56
|
if (filter) {
|
|
57
57
|
filter.value = { ...filter.value, absolute, ph0, ph1 };
|
|
@@ -63,7 +63,7 @@ function phaseCorrection(
|
|
|
63
63
|
spectrum: Entry1D & { data: Required<NmrData1D> },
|
|
64
64
|
phaseValues: { ph0: number; ph1: number },
|
|
65
65
|
) {
|
|
66
|
-
|
|
66
|
+
const { ph0, ph1 } = phaseValues;
|
|
67
67
|
const { re, im } = spectrum.data;
|
|
68
68
|
const phased = reimPhaseCorrection(
|
|
69
69
|
{ re, im },
|
|
@@ -33,7 +33,7 @@ export function reduce(previousValue: any, newValue: any) {
|
|
|
33
33
|
|
|
34
34
|
export function filterXY(spectrum: Entry1D, options: MatrixOptions) {
|
|
35
35
|
let x = spectrum.data.x.slice(0);
|
|
36
|
-
|
|
36
|
+
const cloneX = spectrum.data.x.slice(0);
|
|
37
37
|
let re = spectrum.data.re.slice(0);
|
|
38
38
|
let im = spectrum.data.im?.slice(0);
|
|
39
39
|
|
|
@@ -14,8 +14,8 @@ export function padDataToNextPowerOfTwo(
|
|
|
14
14
|
const { x, re, im } = datum1D.data;
|
|
15
15
|
const size = nextPowerOfTwo(x.length);
|
|
16
16
|
|
|
17
|
-
|
|
18
|
-
|
|
17
|
+
const newRE = new Float64Array(size);
|
|
18
|
+
const newIM = new Float64Array(size);
|
|
19
19
|
|
|
20
20
|
const grpdly = datum1D.info?.digitalFilter || 0;
|
|
21
21
|
const pointsToShift = grpdly > 0 ? Math.floor(grpdly) : 0;
|
|
@@ -27,17 +27,18 @@ export function apply(
|
|
|
27
27
|
throw new Error('zeroFilling not applicable on this data');
|
|
28
28
|
}
|
|
29
29
|
|
|
30
|
-
|
|
31
|
-
|
|
32
|
-
|
|
33
|
-
|
|
30
|
+
const { factor = 2 } = options;
|
|
31
|
+
const {
|
|
32
|
+
nbPoints = 2 ** Math.round(Math.log2(datum1D.data.x.length * factor)),
|
|
33
|
+
} = options;
|
|
34
|
+
if (!options.nbPoints) {
|
|
34
35
|
const filter = datum1D.filters.find((filter) => filter.name === id);
|
|
35
36
|
if (filter) {
|
|
36
37
|
filter.value = { nbPoints };
|
|
37
38
|
}
|
|
38
39
|
}
|
|
39
40
|
|
|
40
|
-
|
|
41
|
+
const digitalFilterApplied = datum1D.filters.some(
|
|
41
42
|
(e) => e.name === 'digitalFilter' && e.flag,
|
|
42
43
|
);
|
|
43
44
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@@ -47,9 +48,9 @@ export function apply(
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const { re, im, x } = datum1D.data;
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-
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const newRE = new Float64Array(nbPoints);
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const newIM = new Float64Array(nbPoints);
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const newX = new Float64Array(nbPoints);
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const length = Math.min(nbPoints, re.length);
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@@ -57,7 +58,7 @@ export function apply(
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newIM.set(im.slice(0, length - pointsToShift));
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newX.set(x.slice(0, length - pointsToShift));
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const diff = x[1] - x[0];
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let currentX = x[length - pointsToShift - 1];
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for (let i = length - pointsToShift; i < nbPoints; i++) {
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currentX += diff;
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@@ -41,7 +41,7 @@ export function mapPeaks(
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const shiftX = getShiftX(spectrum);
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const error = getSpectrumErrorValue(spectrum);
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const newPeaks: Peak1D[] = [];
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for (const peak of peaks) {
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const peakDelta = getPeakDelta(peak, shiftTarget, shiftX);
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@@ -0,0 +1,61 @@
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import { NmrData2DFid } from 'cheminfo-types';
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import { FilterDomainUpdateRules } from '../../FiltersManager';
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import { Entry2D } from '../Entry2D';
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import { quadrature } from '../../../xyz/quadrature';
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import {
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DirectDimensionOptions,
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fftDirectDimension,
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} from '../../../xyz/util/fft2d/fftDirectDimension';
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import { xEnsureFloat64 } from 'ml-spectra-processing';
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export const id = 'fftDimension1';
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export const name = 'FFT Dimension 1';
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export const DOMAIN_UPDATE_RULES: Readonly<FilterDomainUpdateRules> = {
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updateXDomain: true,
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updateYDomain: true,
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};
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export function apply(datum2D: Entry2D, options: DirectDimensionOptions) {
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if (!isApplicable(datum2D)) {
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throw new Error('fft dimension 1 not applicable on this data');
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}
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// eslint-disable-next-line @typescript-eslint/no-unused-vars
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const { data, info } = datum2D;
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const { digitalFilterValue = 0 } = info;
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const fnMode = info.fnMode[1];
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const { zeroFilling = {} } = options;
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const orderedData = quadrature(data, { fnMode });
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const nbColumns = orderedData.re[0].length;
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const { factor = 1 } = zeroFilling;
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const nbPoints =
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zeroFilling?.nbPoints || 2 ** Math.round(Math.log2(nbColumns * factor));
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const transformed = fftDirectDimension(orderedData, {
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fnMode,
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...options,
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digitalFilterValue,
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zeroFilling: { nbPoints },
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});
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datum2D.data.re.z = transformed.re.to2DArray().map(xEnsureFloat64);
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datum2D.data.im.z = transformed.im.to2DArray().map(xEnsureFloat64);
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}
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export function isApplicable(
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datum2D: Entry2D,
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): datum2D is Entry2D & { data: Required<NmrData2DFid> } {
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if (datum2D.info.isComplex && datum2D.info.isFid) return true;
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return false;
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}
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export function reduce() {
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return {
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once: true,
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reduce: undefined,
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};
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}
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@@ -0,0 +1,72 @@
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1
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import { NmrData2DFid, NmrData2DFt } from 'cheminfo-types';
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2
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import { FilterDomainUpdateRules } from '../../FiltersManager';
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3
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import { Entry2D } from '../Entry2D';
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import {
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IndirectDimensionOptions,
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fftIndirectDimension,
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} from '../../../xyz/util/fft2d/fftIndirectDimension';
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import { xEnsureFloat64 } from 'ml-spectra-processing';
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import { getMinMaxXY } from '../../../xyz/util/getMinMaxXY';
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export const id = 'fftDimension2';
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export const name = 'FFT Dimension 2';
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export const DOMAIN_UPDATE_RULES: Readonly<FilterDomainUpdateRules> = {
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updateXDomain: true,
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updateYDomain: true,
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};
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export function apply(datum2D: Entry2D, options: IndirectDimensionOptions) {
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if (!isApplicable(datum2D)) {
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throw new Error('fft dimension 2 not applicable on this data');
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}
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const { data, info } = datum2D;
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const fnMode = info.fnMode[1];
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const { zeroFilling = {} } = options;
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const nbRows = data.re.z.length;
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const { factor = 1 } = zeroFilling;
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const nbPoints =
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zeroFilling?.nbPoints || 2 ** Math.round(Math.log2(nbRows * factor));
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const transformed = fftIndirectDimension(
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{
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re: data.re.z,
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im: data.im.z,
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},
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{
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fnMode,
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...options,
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zeroFilling: { nbPoints },
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},
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);
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const minMaxXY = getMinMaxXY(info);
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(datum2D.data as NmrData2DFt) = {
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rr: {
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z: transformed.re.to2DArray().map(xEnsureFloat64),
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maxZ: transformed.re.max(),
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minZ: transformed.re.min(),
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...minMaxXY,
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},
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};
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const { isFid, isComplex, ...resInfo } = info;
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datum2D.info = {
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...resInfo,
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isFt: true,
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};
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}
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export function isApplicable(
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61
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+
datum2D: Entry2D,
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62
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+
): datum2D is Entry2D & { data: Required<NmrData2DFid> } {
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63
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if (datum2D.info.isComplex && datum2D.info.isFid) return true;
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+
return false;
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+
}
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66
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+
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67
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+
export function reduce() {
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68
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+
return {
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69
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+
once: true,
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70
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+
reduce: undefined,
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71
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+
};
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72
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+
}
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@@ -7,7 +7,7 @@ export interface Shift2D {
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7
7
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}
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8
8
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9
9
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export function getShift(spectrum: Entry2D): Shift2D {
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10
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-
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10
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+
const shift = { x: 0, y: 0 };
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11
11
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if (spectrum?.filters) {
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12
12
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for (const filter of spectrum.filters) {
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13
13
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if (filter.name === Filters.shift2DX.id) {
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