SedAnal 10 file format, written by SedAnal v7.95 on 2025-01-16 22:30:28 (SedAnal.exe is in C:\SEDANAL\Program 7.95) owner "???" last name of person responsible for this copy of SedAnal -1 nPreferenceUsers 1 # of users 748 preferenceUserCurrent 0 Current user # 748 preferencesameDir TRUE Use same dir for preference file as SedAnal.exe 755 userName "???" current user name 748 preferenceFilePath "C:\SEDANAL\Program 7.95\Preferences.txt" full path to this preference file 748 key 0 for developer use; 0 for other users -1 databaseKey 0 unique identifier for your experiment database -1 dataDir "User_data" top-level user data directory -1 modelDir "ModelEditor" directory containing the model information file used by SedAnal -1 recentControlFilesMax 100 number of recent control filenames to retain between sessions -1 imageFormat 2 saved screen images are 0=PNG 1=JPEG 2=bmp -1 plotInitMax 30 max # scans to plot in preprocessor -1 preprocessorInstructions FALSE display instructions preprocessor -1 stepsInPreprocessor FALSE force preprocessor parameters to be done in order -1 compressRunFiles FALSE raw data sections in .abr files are compressed using zstd -1 compressionRunFilesLevel 22 zstd compression level -1 showAttentionBoxes FALSE show indicator for next parameter to be chosen in preprocessor -1 exptTreeDisable FALSE disable the experiment tree in preprocessor and dc/dt (user must browse) -1 experimentInfoOldFiles FALSE ask to add exp info in existing run files -1 experimentInfoNewFiles FALSE ask to add exp info in new run files -1 sameWavelengthTolerance 4 maximum scan wavelengths can differ to be considered same -1 speedTolerance 100 maximum RPM speeds can differ to be considered same 764 rescaleAfterScanSelect 0 rescale after selecting scans in PP: 0=never 1=always 2=only if user didn't change scaling 785 showAxisX TRUE show x-axis on preprocessor plot 594 showAxisY FALSE show y-axis on preprocessor plot 594 showNumberOfScans TRUE show # scans/total scans on preprocessor plot 594 showScaleX 1 0=none, 1=ticks, 2=grid for preprocessor plot 594 showScaleY 1 0=none, 1=ticks, 2=grid for preprocessor plot 594 preprocPlotPointSize 100 preprocessor plot point size (0=1 pixel, else diameter of solid circle) -1 scanSelectChoice 2 0=checkboxes always, 1=grid always, 2=checkboxes <1000 scans, else grid 751 scanFileExts "RA?,RI?,IP?,FI?,MW?,mwrs" describes valid scan file extensions 777 nameAbrChoice 0 0=prefix date, 1=prefix runID, 2=no prefix 777 simulationAbrExists 0 Simulation .abr output 0=ask, 1=number, 2=overwrite 780 simDefType V simulation default type V=sed vel E=sed equil 787 simDefMen 5.9 simulation default meniscus 787 simDefBase 7.2 simulation default cell base 787 simDefInterval 100 simulation default interval between scans 787 simDefSpeed 50000 simulation default speed RPM 787 simDefNoiseSignal 0 simulation default noise std dev signal 787 simDefNGrid 1500 simulation default # radii in output grid 787 simDefNoiseRadius 0 simulation default noise std dev radius 787 simDefTotScans 90 simulation default total scans 787 simDefOptics 0 simulation default optics 0=interference 1=absorbance 787 simDefLimit0 [none] simulation default lower limit for signal 787 simDefLimit1 [none] simulation default upper limit for signal 787 simDefMWL FALSE simulation default multiwavelength 787 simDefCompressAbr FALSE simulation default compress output .abr file 787 apprEqDScan0 9801 difference between final scan sequence and initial scan to be compared 754 apprEqDScan1 0 diff between final scan sequence and scan to be used as reference; usu 0 754 apprEqDr0 0.01 difference from meniscus to initial radius to be used for comparison 754 apprEqDr1 0.002 difference between final radius and cell base to be used for comparison 754 apprEqDr 0.0005 spacing of uniform grid onto which experimental scans are interpolated 754 apprEqPlotColor 255 color of the RMSD plot symbols 754 apprEqPlotType 6 size & shape of the RMSD plot symbols 754 apprEqPlotConnect FALSE RMSD plot symbols are to be connected 754 apprEqPlotColor2 32768 color of the angle plot symbols 766 apprEqPlotType2 6 size & shape of the angle plot symbols 766 apprEqPlotConnect2 FALSE angle plot symbols are to be connected 766 apprEqPlotWhich 3 which app to eq plot(s) are shown (0=none, 1=RMSD 2=angle 3=both 766 showScanSummary TRUE show the app eq plot on data load 787 showAppEqWindow FALSE show the approach-to-eq window 787 noWarnAbrFormatChange FALSE don't warn when upgrading .abr file format 790 BioSpinButtons12 110010 which plots appear in plot windows 1 and 2 -1 BioSpinButtons3 1110 which plots appear in plot window 3 -1 BioSpinErrorBars TRUE show error bars -1 BioSpinLog FALSE plot log of input data in plot window 4 -1 BioSpinMin 0 minimum for 2-species plots in plot window 3 -1 BioSpinMax 9 maximum -1 BioSpinFitDegree 2 fit data to polynomial of this degree -1 BioSpinNPoints 15 minimum points for least-squares fitting -1 BioSpinRange 0.6 minimum concentration range for least-squares fitting -1 nDcdtSGridPoints 1000 number of s* grid points -1 nDcdtRGridPoints 1600 number of radial grid points for input data -1 nPlateauIterations 4 number of iterations used for WDA plateau processing -1 dcdtPlotShow 2 what to show in dc/dt vs s* plot -1 WDAPlotShow 2 what to show in WDA plot -1 gPlotShow 1 what to show in gHat vs s* plot -1 dcdtDoWide TRUE default is WDA -1 dcdtComputeWtAvg FALSE compute weight averages -1 dcdtDoInterpolation TRUE do interpolation -1 dcdtUseUnsmoothed TRUE use unsmoothed to calc S.E.M. for WDA 726 dcdtLogPlot FALSE default is log plot -1 dcdtLogBase10 TRUE logs are base 10 -1 dcdtLogScaleX TRUE x-axis log-scaled -1 dcdtLogScaleY FALSE y-axis log-scaled -1 dcdtSmoothingPercent 2 smoothing percent -1 dcdtSSpacing 0.01 s* grid spacing -1 dcdtReportColSeparator 9 char which separates columns in dc/dt report files -1 WDARadius0 5.9 WDA radius grid r0 651 WDARadius1 7.2 WDA radius grid r1 651 WDARadiusInc 0.01 WDA radius grid increment 651 WDARadiiCalc(1) "bbbbbbbbbbbbbbbbbbbbb*" default radial points to calculate 651 WDARadiiCalc(2) "" default radial points to calculate 651 WDARadiiCalc(3) "" default radial points to calculate 651 WDARadiiPlot(1) "#############_bbB#####" default radial points to plot 651 WDARadiiPlot(2) "" default radial points to plot 651 WDARadiiPlot(3) "" default radial points to plot 651 dcdtAvgLineWidth 2 width of the line of averages in plots -1 dumpDcdtData 0 non-0 to write debugging info to DcdtData.txt -1 dcdtReportDir "" directory where links to reports are stored -1 dcdtCopyReports FALSE make a copy of dc/dt reports instead of link -1 rFractDcdt0 0.153846 fract of r omit dc/dt auto-scale, men -1 rFractDcdt1 0.230769 fract of r omit dc/dt auto-scale, base -1 rFractWDA0 0.153846 fract of r omit WDA auto-scale, men -1 rFractWDA1 0.230769 fract of r omit WDA auto-scale, base -1 plotErrorBars(1) FALSE show error bars for dc/dt ,g/gHat, WDA plot -1 plotErrorBars(2) FALSE show error bars for dc/dt ,g/gHat, WDA plot -1 plotErrorBars(3) FALSE show error bars for dc/dt ,g/gHat, WDA plot -1 plotErrorBarColor(1) 8421504 color of error bars for dc/dt ,g/gHat, WDA plot -1 plotErrorBarColor(2) 8421504 color of error bars for dc/dt ,g/gHat, WDA plot -1 plotErrorBarColor(3) 8421504 color of error bars for dc/dt ,g/gHat, WDA plot -1 maxNMers 123 maximum number of n-mers to be computed for infinite self-association -1 polyMeth ISOENR polymerization method -1 expCoeffsS 0 0 0 0 a0, a1, a2 a3 in dependence of s on n-mer -1 maxIterations 100000 maximum number iterations for fitting -1 concUnitsControl g/L default units for loading concentrations -1 loadConcInputType 0 how load conc for comp>1 are input 499 controlScreenNSigDig 6 # sig fig for reals on control screen 499 controlScreenSizeX 1 relative size of control screen, horizontal (x) 499 controlScreenSizeY 1 relative size of control screen, vertical (y) 499 showOnlyValidInLastList FALSE control screen's last list shows only control files valid for the function 788 missingModelLookup FALSE if the control screen's model isn't found, look for it in another ModelInfo.txt 791 numberKCOutputFiles TRUE number the Kinetic calculator's output files 791 stdDevAbsorbanceScans 0.002 default std dev for absorbance data 692 stdDevInterferenceScans 0.005 default std dev for interference data 692 stdDevIntensityScans 50 default std dev for intensity data 692 stdDevFluorescenceScans 200 default std dev for fluorescence data 692 stdDevOtherScans 1 default std dev for other data 692 weightingChoice 1 0=no weighting 1=by cell type 2=plateau 3=use point std dev -1 perturbMin 0 minimum number of times to perturb and refit after best fit -1 perturbMax 0 maximum number of times to perturb and refit after best fit -1 perturbFractChg 0.01 minimum fractional change in fit criterion to continue perturbing -1 perturbAll FALSE use perturbations on every bootstrap/Monte Carlo fit -1 maxRunsToPlot 12 maximum number of plots on the fitting screen at once -1 maximizeFitWindow TRUE expand the fitting window to fit the screen -1 paramFmt "" during fitting, C++ format used to display params 745 gridTypeX NOGRID marking for fitting plots, x-axis 517 gridTypeY GRID marking for fitting plots, y-axis 517 labelPlots TRUE label the plots -1 showCellNumPlots TRUE number the plots -1 showCellStatPlots TRUE dispaly fit statistic in the plots -1 fitMethod 2 1=use simplex 2=use Levenberg-Marquardt -1 obsColor 255 color in fitting screen for observed data -1 calc0Color 65280 color in fitting screen for first calculated delta-c -1 calc1Color 12648384 color in fitting screen for last calculated delta-c -1 resColor 16711680 color in fitting screen for residuals -1 eqCalcColor 16711680 color in fitting screen for equilibrium calculator -1 axisColor 12632256 color in fitting screen for axes -1 ticksColor 0 color in fitting screen for ticks -1 descrColor 0 font color in fitting screen for description 757 descrBkgndColor 65535 background color in fitting screen for description 757 cellNumColor 0 font color in fitting screen for cell # 757 cellNumBkgndColor 12648384 background color in fitting screen for cell # 757 fitStatColor 0 font color in fitting screen for fit stat 757 fitStatBkgndColor 10535167 background color in fitting screen for fit stat 757 descrPos 0 where to position description in plots 757 cellNumPos 1 where to position cell # in plots 757 fitStatPos 1 where to position fit stat in plots 757 optColor 12632256 color in menu which outlines options -1 fitExpScreenPointSize 1 size of data points on fitting screen -1 fitExpPrintPointSize 1 size of data points on printed output -1 fitResidScreenPointSize 6 size of residuals on fitting screen -1 fitResidPrintPointSize 1 size of residuals on printed output -1 calc0Width 4 line thickness in fitting screen for first calculated delta-c -1 calc1Width 4 line thickness in fitting screen for last calculated delta-c -1 simulationWritesAbr TRUE Simulating data writes a run file -1 simulationWritesScans TRUE Simulating data writes scan files -1 simulationWritesControl TRUE Simulating data writes a prototype control file -1 controlFileCopy TRUE Fitting data makes a numbered copy of the control file -1 sRatioDefaultLimit [none] default limit for s/so -1 DRatioDefaultLimit [none] default limit for D/Do -1 minimize 4 statistic to be minimized during fitting -1 relStdDevToExit 1e-09 relative change in fitting criterion to stop sed vel fit -1 relStdDevToExitEq 1e-12 relative change in fitting criterion to stop equil fit -1 simplexInitMethod 3 which of several methods is used to initialize the simplex -1 LMScale TRUE scale parameters in L-M sed vel fit -1 LMScaleEq TRUE scale parameters in L-M eq fit -1 relParToExit 1e-15 relative change in parameters to stop L-M sed vel fit -1 relParToExitEq 1e-15 relative change in parameters to stop L-M eq fit -1 relErrorInFunc 0 relative change in function for numerical derivatives for L-M sed vel fit -1 relErrorInFuncEq 0 relative change in function for numerical derivatives for L-M eq fit -1 relStdSSQ 1e-15 relative change in sum of squares to stop L-M sed vel fit -1 relStdSSQEq 1e-15 relative change in sum of squares to stop L-M eq fit -1 orthogToExit 1e-15 orthogonality between parameters and derivatives to stop L-M sed vel fit -1 orthogToExitEq 1e-15 orthogonality between parameters and derivatives to stop L-M eq fit -1 LMStepBound 100 relative initial step bound in L-M sed vel fit -1 LMStepBoundEq 100 relative step size for numerical derivatives L-M eq fit -1 maxKIntSteps 10000 maximum steps in the kinetic integrator -1 kIntAccuracy 1e-06 -1 minKIntStep 1e-10 minimum step size in the kinetic integrator -1 krEquilibrium 0.01 reverse rate constant to be used if Keq given -1 initialEquilKinMeth 2 3 1 method for kinetics/equilibrium 458 runEquilKinMeth 2 3 1 method for kinetics/equilibrium 458 equilibFitEquilKinMeth 2 3 1 method for kinetics/equilibrium -1 equilMaxChg 1e-13 largest fractional concentration change allowed at equilibrium -1 stepChgLimit 0.01 fractional concentration change limit for conc(t) -1 stepSizeHalved 6 how many of times equilibrating time step may be halved -1 numSteps 6 times kinetic integrator step limit can be doubled during equilibration -1 NRfChgMin 1e-10 fractional function magnitude change limit for N-R successive approx -1 NRChgMin 1e-08 fractional component concentration change limit for N-R successive approx -1 clavDtInitial 0.01 -1 clavConcChange 0.02 -1 clavConcFracLimit 1e-06 -1 clavDtChange0 1.02 -1 clavDtChange1 1.02 -1 nTimeStepTries 4 times Claverie can reduce the time step to overcome invalid concentrations -1 nPointsDefFitSE 500 default # points for sed eq fits -1 nPointsDefFitSV 500 default # points for sed vel fits -1 nPointsDefSimSE 500 default # points for sed eq simulations -1 nPointsDefSimSV 1500 default # points for sed vel simulationss -1 negativeContinue FALSE whether Claverie should continue if it encounters negative concentrations -1 nSpacings 1 number of grid spacings for Claverie simulation -1 fractDist(1) 1 Fraction meniscus-base for density 1 -1 fractDist(2) 1 Fraction meniscus-base for density 2 -1 fractDist(3) 1 Fraction meniscus-base for density 3 -1 gridDens(1) 1 Relative density in region 1 -1 gridDens(2) 1 Relative density in region 2 -1 gridDens(3) 1 Relative density in region 3 -1 nSubsets 0 the number of subsets of the data to be refitted -1 errEstMethod 0 choice of error estimation in fitted parameters -1 FStatistics FALSE whether F-statistics should be used to estimate errors -1 FFormula 0 choice of formula for target F in F-statistics -1 confidenceLevel 0.95 confidence level for F-statistics -1 FStatErrInConf 0.01 tolerance in fractional part of confidence level for F-statistics -1 FS_maxAddlFits 16 max tries for fit in F-statistics -1 FIncM 0.03 FALSE initial fractional increment in F-statistics for parameter type M -1 FIncS 0.01 FALSE initial fractional increment in F-statistics for parameter type s -1 FIncD 0.01 FALSE initial fractional increment in F-statistics for parameter type D -1 FIncDensIncr 0.01 FALSE initial fractional increment in F-statistics for parameter type densIncr -1 FIncExtCoeff 0.01 FALSE initial fractional increment in F-statistics for parameter type ext coeff -1 FIncK 0.1 FALSE initial fractional increment in F-statistics for parameter type kf/kr/K -1 FIncLoadConc 0.05 FALSE initial fractional increment in F-statistics for parameter type load conc -1 FIncMb 0.01 TRUE initial absolute increment in F-statistics for parameter type men,base -1 FIncYOff 0.005 TRUE initial absolute increment in F-statistics for parameter type yOff -1 FIncF 0.005 TRUE initial absolute increment in F-statistics for parameter type f/fo -1 FIncKs 0.01 FALSE initial fractional increment in F-statistics for parameter type Ks -1 FIncKs2 0.01 FALSE initial fractional increment in F-statistics for parameter type Ks2 -1 FIncBM1 0.01 FALSE initial fractional increment in F-statistics for parameter type BM1 -1 FIncCM1 0.01 FALSE initial fractional increment in F-statistics for parameter type CM1 -1 FIncTheta 0.01 FALSE initial fractional increment in F-statistics for parameter type theta -1 FIncTemp 0.01 FALSE initial fractional increment in F-statistics for parameter type temp -1 FIncDens 0.01 FALSE initial fractional increment in F-statistics for parameter type dens -1 FIncViscR 0.01 FALSE initial fractional increment in F-statistics for parameter type viscR -1 FIncUserAux1 0.01 FALSE initial fractional increment in F-statistics for parameter type user aux -1 FIncUserAux2 0.01 FALSE initial fractional increment in F-statistics for parameter type user aux -1 ComprChoiceDcdt 0 default compressibility choice for SV 682 ComprValueDcdt 4.591e-11 default compressibility fixed value for SV 682 ComprChoiceWDA 0 default compressibility choice for SV 682 ComprValueWDA 4.591e-11 default compressibility fixed value for SV 682 ComprChoiceSE 0 default compressibility choice for SV 682 ComprValueSE 4.591e-11 default compressibility fixed value for SV 682 ComprChoiceSV 0 default compressibility choice for SV 682 ComprValueSV 4.591e-11 default compressibility fixed value for SV 682 reportOutput TRUE FALSE RTF TRUE Report file: produce multi-fits textType numberSeq -1 minOutput TRUE FALSE GPerL TRUE Minimum file: produce brief concUnits numberSeq -1 concROutput FALSE UNUSED MolPerL UNUSED [none] [none] Conc(r) file: produce [unused] concUnits [unused] r0 r1 freq -1 concTOutput FALSE UNUSED MolPerL UNUSED Conc(t) file: produce [unused] concUnits -1 logsOutput UNUSED 4 Log files: unused produceLogs -1 minScanPairPrint 16 -1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 which scan pairs to print (start,end,show,skip) -1 debugOutputFiles(1) "Approach equilibrium calculation details" "AppEq_Detail" FALSE 0 0 "Scan freq" 1 0 "Point freq" 1 0 "[unused]" 0 0 debugging output file [developer only] 787 debugOutputFiles(2) "Deconvolution calculation details" "Deconv_Detail" FALSE 0 0 "Scan" 1 20 "WL seq" 1 0 "Center r of 11" 2 6 debugging output file [developer only] 787 useCellDataFileWrite2 FALSE use older cell data file write function 794