AMICS - Batch Application

options for batch reclassification batch file – this will show the current batch file being used for the processing the file name is shown first, and then the folder location create open the folder/file interface to create a new batching file, if clicked, or open drop down menu with more options new batch file open the folder/file interface to create a new batching file from existing batch file open file dialog to select an existing batching file from project level open dialog to select files from the project manager edit current file open dialog to change settings for the current batching file classification options do classification with… activating this option will change the material classification to another classification method import mineral groupings from… this option will transfer the grouping from the selected classification method note this option can be chosen without reclassification, but will be defaulted if reclassification is selected current sample – this option will only be active if a measurement is open in the amics process when selected, amics will use the classification method and the classification steps from the opened measurement to reclassify the measurement batch other sample – this option opens a windows folder dialog window, allowing users to select any amics measurement and apply the classification method and classification steps for reclassification of the measurement batch self specimen this option reclassifies the batch using the classification method saved for each measurement in the batch this method is used when the classification method has been changed by a third party tool or script for each measurement, and the user only wants to reprocess the data using these changes classification method – this option allows users to select a classification method from the common library, which will be used for reclassifying the measurement batches priority slide bars the three slide bars can be used to determine how closely the measured spectra match the reference spectra for high, normal, and low priority materials batch imaging preprocessing image stitching – this option performs an automatic stitch of each measurement image and can be executed with or without reclassification of measurements total energy image only applicable for m4 data sets, and will calculate or recalculate a total energy image based on the x ray counts per point convert to 4096 amics will automatically convert any legacy 2000 channel dataset to an interpolated 4096 channel dataset hypermap resegmentation will perform a resegmentation of matrix map and hypermap data using x ray spectral distance spectrum tree steps this window will populate with any spectrum tree steps saved in the common reference library or within the mre files each step will have the option to activate or deactivate note if self specimen is selected, amics will use the setting saved in each mre file in terms of which step is activated touchup steps this window will populate with any touch up steps saved in the common reference library or within the mre files each step will have the option to activate or deactivate note if self specimen is selected, amics will use the setting saved in each mre file in terms of which step is activated live reporting report live when checked, during reclassification, amics will provide a summary report on selected materials the materials for live reporting can be selected by clicking on the button to the right showing three dots this will open a pop up interface to check which group and which material in the group to report during reclassification if materials have been selected, the live reporting section will update showing the group and the materials selected for live reporting data exporting options all the data exporting options can now be hidden or unhidden using the "hide the extra exporting option" at the bottom of the batch processing window batch image exporting export image mosaic – export bse image export classified image – export classified image export elemental image – export elemental image as a png, with the element selected in the elemental visualization section export raw data – this option will export a sqlite file containing the raw bse and/or x ray data for each point export json – this option will export a json string containing the raw bse and/or x ray data for each point in addition to the json file, a compressed file is also created export text this option will export a text file containing the pixel material classification data