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software:timelesstools
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software:timelesstools [2019/07/08 10:04] matthias [List of scripts] |
software:timelesstools [2023/03/16 13:55] (current) 167.114.211.237 ↷ Links adapted because of a move operation |
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| ===== List of scripts ===== | ===== List of scripts ===== | ||
| - | This list will get longer over time. A present, you will have access to the following commands | + | This list will get longer over time. At present, you will have access to the following commands |
| * Test | * Test | ||
| * ''timelessTest'', which runs several reading and parsing operations to make sure everything works well, | * ''timelessTest'', which runs several reading and parsing operations to make sure everything works well, | ||
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| * ''timelessEdf2tiffFileSeries'' to [[xray_data:convertfileseries|convert series of EDF files into series of tiff files]] | * ''timelessEdf2tiffFileSeries'' to [[xray_data:convertfileseries|convert series of EDF files into series of tiff files]] | ||
| * ''timelessAverageEDF'' to [[xray_data:averageEDF|take the average of two or more EDF images]] | * ''timelessAverageEDF'' to [[xray_data:averageEDF|take the average of two or more EDF images]] | ||
| - | * ''timelessMeanFileSeries''to [[xray_data:averageEDF|take the mean of two or more EDF images]] | + | * ''timelessMeanFileSeries'' to [[xray_data:averageManyEDF|take the mean of two or more EDF images]] |
| - | * ''timelessCreateEmptyImage''to [[processing:empty-image|produce an empty (black) image]] | + | * ''timelessCreateEmptyImage'' to [[xray_data:empty-image|produce an empty (black) image]] |
| * Diffraction pre-processing for diamond anvil cell experiments | * Diffraction pre-processing for diamond anvil cell experiments | ||
| - | * ''timelessDACShadow'' to [[processing:remove-shadow|remove the shadow which is produced during a 3D image acquisition]] | + | * ''timelessDACShadow'' to [[software:remove-shadow|remove the shadow which is produced during a 3D image acquisition]] |
| * ''timelessDiamondSpotRemoval'' to [[processing:clean-diamond-anvil-cell-data|take out spots from the single-crystal diamond anvils]] | * ''timelessDiamondSpotRemoval'' to [[processing:clean-diamond-anvil-cell-data|take out spots from the single-crystal diamond anvils]] | ||
| + | * Phase identification | ||
| + | * ''timelessTthHistogram2Maud'', used to [[processing:phase_identification|identify sample phases]], converts a 2theta histogram to an ESG file that you can load in [[software:maud|MAUD]]. | ||
| * Grain tools | * Grain tools | ||
| - | * ''timelessRemoveUsedGVE'', [[processing:remove-used-gve|removes G-vectors which are indexed in a GrainSpotter run so you can run GrainSpotter again]], | + | * ''timelessRemoveUsedGVE'', [[processing:remove-used-gve|removes G-vectors which are already indexed byGrainSpotter]]. ''timelessClearGVEGrains'' is more up-to-date with more options to [[processing:remove-used-gve-updated|clear a GVE file from G-vectors which are already assigne to grains]] |
| * ''timelessGrainComparison'', which is meant to [[processing:compare-grain-orientations|compare the orientations of grains]] between different sources | * ''timelessGrainComparison'', which is meant to [[processing:compare-grain-orientations|compare the orientations of grains]] between different sources | ||
| * ''timelessGrainSpotterMerge'', which is meant to [[processing:grainSpotter-merge|merge the output of multiple GrainSpotter runs into one]] | * ''timelessGrainSpotterMerge'', which is meant to [[processing:grainSpotter-merge|merge the output of multiple GrainSpotter runs into one]] | ||
| - | * ''timelessPlotIndexedGrain'' to [[processing:evaluateGrainIndexing|graphically evaluate the indexing quality for a given grain]] | + | * ''timelessSaveFLTGrains'' to [[processing:extractGVEGrain|extract the peaks corresponding to a grain]] |
| + | * ''timelessPlotIndexedGrain'' to [[evaluation:evaluategrainindexing|graphically evaluate the indexing quality for a given grain]] | ||
| * ''timelessExtractEulerAngles'' to [[processing:extractEulerAngles|convert a log file (from GrainSpotter) into a list of Euler angles (necessary for MTeX)]] | * ''timelessExtractEulerAngles'' to [[processing:extractEulerAngles|convert a log file (from GrainSpotter) into a list of Euler angles (necessary for MTeX)]] | ||
| + | * ''timelessFixGSOutput'' to [[processing:fixGSOutput | fix a bogus GrainSpotter output file]] | ||
| + | * ''timelessExtractGrainSizes'' and ''timelessRelToAbsGrainSize'' to [[evaluation:extractGrainSizes| determine grain sizes]] | ||
| * Peaks management | * Peaks management | ||
| - | * ''timelessClearGVEGrains'' (more or less identical to ''timelessRemoveUsedGVE'', for usage see description above) | + | * ''timelessClearGVEGrains'' (more up-to-date than ''timelessRemoveUsedGVE'' to [[processing:remove-used-gve|remove G-vectors which are already indexed byGrainSpotter]] ) |
| * ''timelessSaveFLTGrains'' | * ''timelessSaveFLTGrains'' | ||
| - | * ''timelessClearFLTGrains'' | + | * ''timelessClearFLTGrains'' to [[processing:remove-used-flt|remove the already used peaks]] |
| + | * ''timelessPeaksFromCIF'' to [[processing:list-peaks-from-cif|list expected peaks based on a CIF file]] | ||
| + | * Post-processing | ||
| + | * ''timelessGrainSpotterMerge'', which is meant to [[processing:grainSpotter-merge|merge the output of multiple GrainSpotter runs into one]] | ||
| + | * ''timelessTestGSvsGVE'', to be used if you lost track and need to [[evaluation:testGSvsGVE|test which g-vector file was used to perform a GrainSpotter indexing]] | ||
| + | * ''timelessGSIndexingStatistics'', when you run multiple GrainSpotter indexing loop, evaluation of indexing performance can be tricky. Use this script to [[evaluation:evaluate indexing statistics]] | ||
| + | * ''timelessExtractEulerAngles'' to [[processing:extractEulerAngles|convert a log file (from GrainSpotter) into a list of Euler angles (necessary for MTeX)]] | ||
software/timelesstools.1562580293.txt.gz · Last modified: 2019/07/08 10:04 by matthias
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