Commit 51e7ee18 authored by Bilheux, Jean-Christophe's avatar Bilheux, Jean-Christophe
Browse files

updated bragg edge normalization tutorial.

parent f631e071
......@@ -9,15 +9,15 @@
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......@@ -4030,19 +4030,19 @@ TIFF Directory at offset 0x800008 (8388616)
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"title": "Bragg Edge Normalization",
"tags": [],
"description": "",
"content": " Notebook name: bragg_edge_normalization.ipynb\nDescription This notebook is dedicated to the normalization of data set taken at the SNS.\nStart the notebook If you need help accessing this notebook, check the How To \u0026gt; Start the python notebooks tutorial.\nHow to Use It? Select your IPTS Check the full tutorial here\nSelect Sample Folder Select the sample folder using the file selector. If the time spectra file is part of the folder, it will be automatically loaded, if not, you will have the option to select the time spectra file next, or just ignore it and click the button dot not select any time spectra\nCheck the file selection tool tutorial to learn how to use the file selector tool. If you select a time spectra file, it will be automatically copied into the output folder. this will facilitate the next step that is usually the extraction of the Bragg edges versus lambda/TOF into an ASCII file.\n The sample data will be automatically loaded.\nSelect OB Folder Just like you did for the sample data, select the folder containing the open beam (OB) data. Once you selected this folder the data will be automatically loaded.\nSelection of background region in the image You have the option to define a region of your image that is background for sure. This will improve the normalization.\nTo do so, you first need to specify how many random images you want to use to help the selection. The more images you select, the higher resolution your image will have but the longer it will take to display it. Usually the default number of images provided is a good compromise. If you can not see your sample in the image, just close the UI and increase the number of images to use.\nOnce the ROI selection tool UI show up, you can select, or not, 1 or more regions. You need to make sure that/those region(s) is/are away from the sample. If the sample covers the entire image, do not select any region! Once you are done, click OK to close the UI.\nRemember The more images you want to load, the longer it will take.\nPerform normalization Just run this cell to run the normalization algorithm.\nExport normalized data Select where you want to export all the normalized images. You have the option to create a folder if needed. The notebook will create a folder inside the output folder location you selected. The folder will be named after the input sample folder name. If input folder is test_data, the normalized folder will be test_data_normalized\nIf you selected, or if the program automatically found, a time spectra file, this file will be copied into the output folder.\n"
"content": " Notebook name: bragg_edge_normalization.ipynb\nDescription This notebook is dedicated to the normalization of data set taken at the SNS.\nStart the notebook If you need help accessing this notebook, check the How To \u0026gt; Start the python notebooks tutorial.\nHow to Use It? Select your IPTS Check the full tutorial here\nPrepare UI Engine Make sure you don\u0026rsquo;t forget to run this cell (Prepare UI engine) if you want to select a region of interest later in the notebook.\n Select Raw Data Input Folder Select the sample folder using the file selector. If the time spectra file is part of the folder, it will be automatically loaded, if not, you will have the option to manually select the time spectra file next, or just ignore it and click the button dot not select any time spectra\nCheck the file selection tool tutorial to learn how to use the file selector tool. If you select a time spectra file, it will be automatically copied into the output folder. this will facilitate the next step that is usually the extraction of the Bragg edges versus lambda/TOF into an ASCII file.\n The sample data will be automatically loaded and a message will inform you of the number of files loaded and the status of the time spectra file.\nSelect mode of normalization You will have now the option to perform the normalization using two modes:\n using open beam using background region of sample With open beam Select first the OB folder by clicking Select OB \u0026hellip; The slider defines the number of images to use in the preview to select the ROI. The higher the number of images, the better the contrast, but the slower the loading. OPTIONAL: Select a region of interest (ROI) Select a region away from the sample\n Without open beam The slider defines the number of images to use in the preview to select the ROI. The higher the number of images, the better the contrast, but the slower the loading. MANDATORY: Select a region of interest (ROI) Select a region away from the sample\n Just like you did for the sample data, select the folder containing the open beam (OB) data. Once you selected this folder the data will be automatically loaded.\nSelection of background region in the image You have the option to define a region of your image that is background for sure. This will improve the normalization.\nTo do so, you first need to specify how many random images you want to use to help the selection. The more images you select, the higher resolution your image will have but the longer it will take to display it. Usually the default number of images provided is a good compromise. If you can not see your sample in the image, just close the UI and increase the number of images to use.\nOnce the ROI selection tool UI show up, you can select, or not, 1 or more regions. You need to make sure that/those region(s) is/are away from the sample. If the sample covers the entire image, do not select any region! Once you are done, click OK to close the UI.\nRemember The more images you want to load, the longer it will take.\nExport Normalized Data and Time Spectra File After running this cell, you will be asked to select the output folder to use to create the normalized images.\n"
},
{
"uri": "/tutorial/notebooks/bragg_edge_profile/",
......
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