Updated doc for bragg edge normalization notebook

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"title": "Notebooks Tutorials",
"tags": [],
"description": "",
"content": " bin_images bragg_edge_signal_vs_powder_peaks bragg_edge_normalization calibrated_transmission combine_folders combine_all_images_selected combine_images_n_by_n create_list_of_file_name_vs_time_stamp cylindrical_geometry_correction deal_images display_and_export_images_with_metadata_profile display_and_export_images_with_timestamp display_counts_of_region_vs_stack display_file_names_vs_time_stamp display_integrated_stack_of_images extract_evenly_spaced_files extract_nexus_daslogs file_name_and_metadata_vs_time_stamp fix_images frederick_ipts from_attenuation_to_concentration from_dsc_time_info_to_ascii_file_vs_time gamma_filtering_tool images_and_metadata_extrapolation_matcher integrated_roi_counts_vs_file_name_and_time_stamp list_element_bragg_edges list_metadata_and_time_with_oncat list_tiff_metadata metadata_ascii_parser metadata_overlapping_images normalization normalization_batch normalization_with_simplify_selection profile radial_profile registration rename_files resonance_imaging_experiment_vs_theory rotate_and_crop_images sequential_combine_images_using_metadata template_ui topaz_config_generator water_intake_profile_calculator \nTools File Selector Select IPTS \n Recently updated\n"
"content": " bin_images bragg_edge_signal_vs_powder_peaks bragg_edge_normalization calibrated_transmission combine_folders combine_all_images_selected combine_images_n_by_n create_list_of_file_name_vs_time_stamp cylindrical_geometry_correction deal_images display_and_export_images_with_metadata_profile display_and_export_images_with_timestamp display_counts_of_region_vs_stack display_file_names_vs_time_stamp display_integrated_stack_of_images extract_evenly_spaced_files extract_nexus_daslogs file_name_and_metadata_vs_time_stamp fix_images frederick_ipts from_attenuation_to_concentration from_dsc_time_info_to_ascii_file_vs_time gamma_filtering_tool images_and_metadata_extrapolation_matcher integrated_roi_counts_vs_file_name_and_time_stamp list_element_bragg_edges list_metadata_and_time_with_oncat list_tiff_metadata metadata_ascii_parser metadata_overlapping_images normalization normalization_batch normalization_with_simplify_selection profile radial_profile registration rename_files resonance_imaging_experiment_vs_theory rotate_and_crop_images sequential_combine_images_using_metadata template_ui topaz_config_generator water_intake_profile_calculator \nTools File Selector Select IPTS \n Recently updated\n"
},
{
"uri": "/tutorial/notebooks/bin_images/",
......@@ -165,7 +165,7 @@
"title": "Bragg Edge Normalization",
"tags": [],
"description": "",
"content": " Notebook name: bragg_edge_normalization.ipynb\nDescription This notebook has been implemented to produce an ASCII file of the average counts of the entire image, or of selected regions, versus lambda (Angstroms) and TOF (microS).\nIt\u0026rsquo;s also possible to compare the signal with the Bragg edge signature of a given unstrained powder.\nOutput will look like this\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.\nCheck the file selection tool tutorial to learn how to use the file selector tool. 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.\nSelection of Sample in the Image In order to calculate the signal of the loaded images, you must define the location of your sample in the image. But before doing so, the program will need to load a random subset of those images. You will need to define how many images you want to use to select that sample. A subset has been defined for you by default. Using this value (N), the program will load N images randomly choosen within the list of images in the working folder.\nRemember The more images you want to load, the longer it will take.\nOnce this subset has been defined, running the next cell will bring a user interface that will allow you to define the location(s) of your sample.\nSelect Powder Elements It\u0026rsquo;s now time to select the powder elements for which you want to see the Bragg Edges on top of your signal.\nDefine Experiment Setup This is where you can set up your experiment and play with these values to make sure the Bragg Edges of the reference powder elements show up at the right lambda in your signal data.\nDisplay Bragg Edges vs Signal Feel free to play with the iPlot widgets (above the plot) to zoom, pan, \u0026hellip; etc\nExport ASCII data Select the output folder\nand then an ASCII file will be automatically created using the sample input folder as based name.\n"
"content": " Notebook name: bragg_edge_normalization.ipynb\nDescription This notebook has been implemented to produce an ASCII file of the average counts of the entire image, or of selected regions, versus lambda (Angstroms) and TOF (microS).\nIt\u0026rsquo;s also possible to compare the signal with the Bragg edge signature of a given unstrained powder.\nOutput will look like this\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.\nCheck the file selection tool tutorial to learn how to use the file selector tool. 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.\nSelection of Sample in the Image In order to calculate the signal of the loaded images, you must define the location of your sample in the image. But before doing so, the program will need to load a random subset of those images. You will need to define how many images you want to use to select that sample. A subset has been defined for you by default. Using this value (N), the program will load N images randomly choosen within the list of images in the working folder.\nRemember The more images you want to load, the longer it will take.\nOnce this subset has been defined, running the next cell will bring a user interface that will allow you to define the location(s) of your sample.\nSelect Powder Elements It\u0026rsquo;s now time to select the powder elements for which you want to see the Bragg Edges on top of your signal.\nDefine Experiment Setup This is where you can set up your experiment and play with these values to make sure the Bragg Edges of the reference powder elements show up at the right lambda in your signal data.\nCalculate Bragg Edges Data This cell will calculate the Bragg edges data using the region selected, if any.\nDisplay Bragg Edges vs Signal This cell is optional and you need to run it only if you want to display the Counts vs lambda.\nFeel free to play with the iPlot widgets (above the plot) to zoom, pan, \u0026hellip; etc\nExport ASCII data Select the output folder\nand then an ASCII file will be automatically created using the sample input folder as based name.\n"
},
{
"uri": "/tutorial/notebooks/calibrated_transmission/",
......
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