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Created with Raphaël 2.2.09Oct8732130Sep19186530Aug2915952131Jul29252443128Jun2726251918121176543231May2924232221151110976229Apr28gtShowFsim : fixed bug with checking difspots in conflict; if changing the cmap, keeping the conflict flag (=6)gtDisorientation : fixed bug if lattice parameters are provided. Applied the same to gtMisorientationgtIPFCmap : added LD to output filename; general header commentinggeneral commenting and formatting...gtSetupIndexing : added option to use default strategy or/and default indexing parametersgtSegmentationBlob2SpotTable : implemented logic of saving difspots in different sub-directories as '00000' / '10000' / ... with 10000 difspots images each.gtMatchInitialize : fixed small bug...concerning saving parameters.matgtMakePoleFigure : if colormap is gray, set lines and text color to black.gtCrystAxisPoles : added 'axesRot' argument to rotate or transform the plane normal direction before calculating the poles.gtPrepDefaultParameters : fixed small bugUsing gtCheckParameters in Setup functions... also in gtFillCrystFields and gtMatchInitializegtCheckParameters : updated finally the running version of checking parameters. Possibility to check type of parameters ('default','used','extra','all') using checkType argument.Default parameters functions : set structure name with 'par_' in front of the section, to avoid matching during the checkinggtSetupIndexing : added option to reset all the indexing parametersgtMatchInitialize : added option to reset all the matching parametersgtSetupSegmentation,NewSegmentationPreGUI,gtSetupSegmentation_doublethr : added option to reset segmentation values to defaultsgtPrepDefaultParameters : Added some default parameters for preprocessinggtPreprocessing : stripped out the default values. The calculation or update of some prep parameters are done during gtPreprocessinggtStatus : added flag "completeCheck" to check single types of images even the preprocessing status seems ok; better commented and separated the single sections; reviewed the part for check fsim and check the reconstruction.gtPreprocessing : better handles check of images in the rawdata folder.Replaced gtGetReflections with gtCrystSignedHKLsgtMakePoleFigure : Added options 'linecolor','contourline','levels','clim','axesRot','view','debug','tag','fontsize','figname'gtFsimCheckMissingGrains : commented headergtCrystFindFamilies : using ~isrow() to check reflections format: it should be one reflection each row, but not really confident that it works wellgtShowFsim : added output 'grainOut'; changed legend bkg color, indented code, drawing also w valuesGeneral commenting of the headersgtAnalyseGrainsConflicts : by default fills the filed 'difspotID' in the analyser objectgtFillCrystFields : fixed name 'cryst.sg' for FABLE calculation of symmetry operators instead of 'cryst.opsym', which is filled already using the XOP/Diamond calculationgtBrightnessContrast : changed the position of the slidersgtAddMatFile : commented the headergtPreprocessing : restructured the function using gtPrepDefaultParameters and commenting the headergtForwardSimulation_v2 : added 'R_vector' and 'spotid' info to outputinitialise_gt : Added to path '7_Fed2' folderfindValueIntoCell : fixed bug with 'cell2mat' option trueGtThreshold : fixed bug with title for GtGaugegtSetAnalysisDir : fixing bug with replacing '_' with '/'makeCornerHist : added inputs 'xtitle' 'ytitle' and output 'newFig'Commenting and small formatting...gtGetReflections : restored previously deleted function (June 2013) still used in the codeget_structure / print_structure : better commented and formatted