updated 2 tutorials

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......@@ -9,15 +9,15 @@
<title>404 Page not found</title>
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......@@ -12,20 +12,20 @@
<title>Capabilities :: Documentation for Hugo Learn Theme</title>
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<style>
:root #header + #content > #left > #rlblock_left{
......@@ -60,14 +60,14 @@
<span data-search-clear=""><i class="fas fa-times"></i></span>
</div>
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......@@ -3058,19 +3058,19 @@
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mermaid.initialize({ startOnLoad: true });
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......@@ -12,20 +12,20 @@
<title>Categories :: Documentation for Hugo Learn Theme</title>
<link href="/css/nucleus.css?1580176107" rel="stylesheet">
<link href="/css/fontawesome-all.min.css?1580176107" rel="stylesheet">
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<style>
:root #header + #content > #left > #rlblock_left{
......@@ -60,14 +60,14 @@
<span data-search-clear=""><i class="fas fa-times"></i></span>
</div>
<script type="text/javascript" src="/js/lunr.min.js?1580176107"></script>
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var baseurl = "";
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......@@ -3013,19 +3013,19 @@
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<script>
mermaid.initialize({ startOnLoad: true });
</script>
......
......@@ -12,20 +12,20 @@
<title>Contacts :: Documentation for Hugo Learn Theme</title>
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<script src="/js/jquery-3.3.1.min.js?1580997446"></script>
<style>
:root #header + #content > #left > #rlblock_left{
......@@ -60,14 +60,14 @@
<span data-search-clear=""><i class="fas fa-times"></i></span>
</div>
<script type="text/javascript" src="/js/lunr.min.js?1580176107"></script>
<script type="text/javascript" src="/js/auto-complete.js?1580176107"></script>
<script type="text/javascript" src="/js/lunr.min.js?1580997446"></script>
<script type="text/javascript" src="/js/auto-complete.js?1580997446"></script>
<script type="text/javascript">
var baseurl = "";
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<script type="text/javascript" src="/js/search.js?1580176107"></script>
<script type="text/javascript" src="/js/search.js?1580997446"></script>
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......@@ -3094,19 +3094,19 @@
<div style="left: -1000px; overflow: scroll; position: absolute; top: -1000px; border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;">
<div style="border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;"></div>
</div>
<script src="/js/clipboard.min.js?1580176107"></script>
<script src="/js/perfect-scrollbar.min.js?1580176107"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1580176107"></script>
<script src="/js/jquery.sticky.js?1580176107"></script>
<script src="/js/featherlight.min.js?1580176107"></script>
<script src="/js/highlight.pack.js?1580176107"></script>
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<script src="/js/perfect-scrollbar.min.js?1580997446"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1580997446"></script>
<script src="/js/jquery.sticky.js?1580997446"></script>
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<script>hljs.initHighlightingOnLoad();</script>
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<script src="/mermaid/mermaid.js?1580997446"></script>
<script>
mermaid.initialize({ startOnLoad: true });
</script>
......
......@@ -12,20 +12,20 @@
<title>Frequently Asked Questions :: Documentation for Hugo Learn Theme</title>
<link href="/css/nucleus.css?1580176107" rel="stylesheet">
<link href="/css/fontawesome-all.min.css?1580176107" rel="stylesheet">
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<link href="/css/featherlight.min.css?1580997446" rel="stylesheet">
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<link href="/css/auto-complete.css?1580997446" rel="stylesheet">
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<link href="/css/theme.css?1580997446" rel="stylesheet">
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<link href="/css/theme-blue.css?1580176107" rel="stylesheet">
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<script src="/js/jquery-3.3.1.min.js?1580176107"></script>
<script src="/js/jquery-3.3.1.min.js?1580997446"></script>
<style>
:root #header + #content > #left > #rlblock_left{
......@@ -60,14 +60,14 @@
<span data-search-clear=""><i class="fas fa-times"></i></span>
</div>
<script type="text/javascript" src="/js/lunr.min.js?1580176107"></script>
<script type="text/javascript" src="/js/auto-complete.js?1580176107"></script>
<script type="text/javascript" src="/js/lunr.min.js?1580997446"></script>
<script type="text/javascript" src="/js/auto-complete.js?1580997446"></script>
<script type="text/javascript">
var baseurl = "";
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<script type="text/javascript" src="/js/search.js?1580176107"></script>
<script type="text/javascript" src="/js/search.js?1580997446"></script>
</div>
......@@ -3442,19 +3442,19 @@ TIFF Directory at offset 0x800008 (8388616)
<div style="left: -1000px; overflow: scroll; position: absolute; top: -1000px; border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;">
<div style="border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;"></div>
</div>
<script src="/js/clipboard.min.js?1580176107"></script>
<script src="/js/perfect-scrollbar.min.js?1580176107"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1580176107"></script>
<script src="/js/jquery.sticky.js?1580176107"></script>
<script src="/js/featherlight.min.js?1580176107"></script>
<script src="/js/highlight.pack.js?1580176107"></script>
<script src="/js/clipboard.min.js?1580997446"></script>
<script src="/js/perfect-scrollbar.min.js?1580997446"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1580997446"></script>
<script src="/js/jquery.sticky.js?1580997446"></script>
<script src="/js/featherlight.min.js?1580997446"></script>
<script src="/js/highlight.pack.js?1580997446"></script>
<script>hljs.initHighlightingOnLoad();</script>
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<link href="/mermaid/mermaid.css?1580176107" rel="stylesheet" />
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<script src="/mermaid/mermaid.js?1580997446"></script>
<script>
mermaid.initialize({ startOnLoad: true });
</script>
......
......@@ -12,20 +12,20 @@
<title>Github Repositories :: Documentation for Hugo Learn Theme</title>
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<link href="/css/nucleus.css?1580997446" rel="stylesheet">
<link href="/css/fontawesome-all.min.css?1580997446" rel="stylesheet">
<link href="/css/hybrid.css?1580997446" rel="stylesheet">
<link href="/css/featherlight.min.css?1580997446" rel="stylesheet">
<link href="/css/perfect-scrollbar.min.css?1580997446" rel="stylesheet">
<link href="/css/auto-complete.css?1580997446" rel="stylesheet">
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<link href="/css/theme.css?1580997446" rel="stylesheet">
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<link href="/css/theme-blue.css?1580176107" rel="stylesheet">
<link href="/css/theme-blue.css?1580997446" rel="stylesheet">
<script src="/js/jquery-3.3.1.min.js?1580176107"></script>
<script src="/js/jquery-3.3.1.min.js?1580997446"></script>
<style>
:root #header + #content > #left > #rlblock_left{
......@@ -60,14 +60,14 @@
<span data-search-clear=""><i class="fas fa-times"></i></span>
</div>
<script type="text/javascript" src="/js/lunr.min.js?1580176107"></script>
<script type="text/javascript" src="/js/auto-complete.js?1580176107"></script>
<script type="text/javascript" src="/js/lunr.min.js?1580997446"></script>
<script type="text/javascript" src="/js/auto-complete.js?1580997446"></script>
<script type="text/javascript">
var baseurl = "";
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<script type="text/javascript" src="/js/search.js?1580997446"></script>
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......@@ -3019,19 +3019,19 @@ repositories hosting our programs</p>
<div style="left: -1000px; overflow: scroll; position: absolute; top: -1000px; border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;">
<div style="border: none; box-sizing: content-box; height: 200px; margin: 0px; padding: 0px; width: 200px;"></div>
</div>
<script src="/js/clipboard.min.js?1580176107"></script>
<script src="/js/perfect-scrollbar.min.js?1580176107"></script>
<script src="/js/perfect-scrollbar.jquery.min.js?1580176107"></script>
<script src="/js/jquery.sticky.js?1580176107"></script>
<script src="/js/featherlight.min.js?1580176107"></script>
<script src="/js/highlight.pack.js?1580176107"></script>
<script src="/js/clipboard.min.js?1580997446"></script>
<script src="/js/perfect-scrollbar.min.js?1580997446"></script>
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<script src="/js/jquery.sticky.js?1580997446"></script>
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<script>hljs.initHighlightingOnLoad();</script>
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<script src="/mermaid/mermaid.js?1580997446"></script>
<script>
mermaid.initialize({ startOnLoad: true });
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......
......@@ -12,20 +12,20 @@
<title>Neutron Imaging :: Documentation for Hugo Learn Theme</title>
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<link href="/css/fontawesome-all.min.css?1580176107" rel="stylesheet">
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"title": "Notebooks Tutorials",
"tags": [],
"description": "",
"content": " bin_images bragg_edge_signal_vs_powder_peaks 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 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 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 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/",
......@@ -270,7 +270,7 @@
"title": "Extract Evenly Spaced Files",
"tags": [],
"description": "",
"content": " Notebook name: extract_evenly_spaced_files.ipynb\nDescription This notebook allows you to copy into a new folder (extract) 1 every n files from the source folder. You will need to provide the skipping factor n in the notebook.\nExample:\nlet\u0026rsquo;s pretend you selected a folder (/Users/j35/my_data/) containing the following 21 images\nInput\n image001.fits\n image002.fits image003.fits image004.fits image005.fits image006.fits image007.fits image008.fits image009.fits image010.fits\n image011.fits image012.fits image013.fits image014.fits image015.fits image016.fits image017.fits image018.fits image019.fits image020.fits image021.fits and you decided to extract 1 every 5 files in the Desktop.\nThe notebook will create the folder called /Users/j35/Desktop/my_data_1_every_5_files and will copy the following files there\n image001.fits\n image006.fits image011.fits image016.fits image021.fits How does the notebook work? Select your IPTS Need help using the IPTS selector?\n Select the folder containing the images to extract Using the file selection tool, select the folder\nExtraction coefficient Select the number of images you want to skip. The notebook will give you live the list of files that will then be extracted.\nSelect output location Using the folder selection tool, select the location where you want to create the combine images.\nExtracting Once the output folder has been selected, the files will be automatically extracted (copied) into the output folder. Then a message will let you know when the process is done and where you can find the files copied.\n"
"content": " Notebook name: extract_evenly_spaced_files.ipynb\nDescription This notebook allows you to copy into a new folder (extract) 1 every n files from the source folder. You will need to provide the skipping factor n in the notebook. You will also have the option to rename those files, as they are copied, in order to keep a linear increasing index starting at index 0.\nExample:\nlet\u0026rsquo;s pretend you selected a folder (/Users/j35/my_data/) containing the following 21 images\nInput\n image_001.fits\n image_002.fits image_003.fits image_004.fits image_005.fits image_006.fits image_007.fits image_008.fits image_009.fits image_010.fits\n image_011.fits image_012.fits image_013.fits image_014.fits image_015.fits image_016.fits image_017.fits image_018.fits image_019.fits image_020.fits image_021.fits and you decided to extract 1 every 5 files in the Desktop.\nThe notebook will create the folder called /Users/j35/Desktop/my_data_1_every_5_files and will copy the following files there\n image_001.fits\n image_006.fits image_011.fits image_016.fits image_021.fits or if you decide to rename them\n image_0000.fits\n image_0001.fits image_0002.fits image_0003.fits image_0004.fits How does the notebook work? Select your IPTS Need help using the IPTS selector?\n Select the folder containing the images to extract Using the file selection tool, select the folder\nExtraction coefficient Select the number of images you want to skip. The notebook will give you live the list of files that will then be extracted.\nRename or not Files This is where you have the option to rename of not the output files.\nSelect output location Using the folder selection tool, select the location where you want to create the combine images.\nExtracting Once the output folder has been selected, the files will be automatically extracted (copied) into the output folder. Then a message will let you know when the process is done and where you can find the files copied.\n"
},
{
"uri": "/tutorial/notebooks/file_name_and_metadata_vs_time_stamp/",
......@@ -445,7 +445,7 @@
"title": "Rename Files",
"tags": [],
"description": "",
"content": " Notebook name: rename_files.ipynb\nDescription This notebook allows you to rename a set of files. You can define\n the prefix file name the starting index the index number of digits Main use of this notebook In this notebook, we will correctly format the file name index of the file selected. This allows the sorting of the file name to works all the time. For example, there are many cases where the images are saved using the following convention\nWrong filename index\nimage_1.tif image_2.tif image_3.tif image_4.tif ... image_10.tif image_11.tif ... image_100.tif Using this convention, any sorting algorithm will sort them as followed\nWrong sorting\nimage_1.tif image_10.tif image_100.tif ... So this notebook will fix this issue by renaming the files\ncorrect filename index\nimage_001.tif image_002.tif image_003.tif image_004.tif ... image_010.tif image_011.tif ... image_100.tif Start 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 images to rename Using the file dialog tool, select the folder for which you want to renmame the files.\nOnly the most dominant file type (ex: tiff, fits) from the folder will be renamed\nDefine new naming schema Current schema name This is where you define the way the file name is defined. You need to specify what string separates the first part of the file name with the index. The entire part of the string before this separator will be replaced by your own string (defined in New Naming Schema).\nThe Random input dropdown list displays a random selection of the input files, to help you in defining the separator string.\nNew naming schema Here, you define the new prefix file name, index separator, number of digits and offset of this index.\nExample:\n old file name: experiment_0845454_10.tiff separator: _ new file name prefix: my_image number of digits: 4 offset: 15 new file name will be: my_image_0025.tiff Result The bottom part of the cell will show the result of the naming on the first image selected.\nIf the new name shows an Error, checks your pre index separator.\nOutput folder You simply need to select where the new renamed file will be created. Then the program will copy the selected files and renamed them in the folder you selected.\nFeel free to check the dropdown list that shows the old name versus the new name of each file.\n"
"content": " Notebook name: rename_files.ipynb\nDescription This notebook allows you to rename a set of files. You can define\n the prefix file name from scratch or used part of the old name the starting index the index number of digits Main use of this notebook In this notebook, we will correctly format the file name index of the file selected. This allows the sorting of the file name to works all the time. For example, there are many cases where the images are saved using the following convention.\nWrong filename index\nimage_1.tif image_2.tif image_3.tif image_4.tif ... image_10.tif image_11.tif ... image_100.tif Using this convention, any sorting algorithm will sort them as followed\nWrong sorting\nimage_1.tif image_10.tif image_100.tif ... So this notebook will fix this issue by renaming the files\ncorrect filename index\nimage_001.tif image_002.tif image_003.tif image_004.tif ... image_010.tif image_011.tif ... image_100.tif Start 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 images to rename Using the file dialog tool, select the folder for which you want to renmame the files.\nOnly the most dominant file type (ex: tiff, fits) from the folder will be renamed\nDefine new naming schema Current schema name This is where you define the way the current file name is defined. You need to specify what string separates the first part of the file name with the index. If you decide to not fully rename the images, the string before this separator will be kept in the new file name.\nThe Random input dropdown list displays a random selection of the input files, to help you in defining the separator string. Play with it to make sure you correctly defined the current file name (what is prefix, what is a separator). Use the slider to the right of the file name prefix to define the prefix part of the name (as shown in the following animation).\nNew naming schema Here, you define if you want to keep the old prefix or not, the new prefix file name, index separator, number of digits and offset of this index.\nExample:\n old file name: experiment_0845454_10.tiff separator: _ new file name prefix: my_image number of digits: 4 offset: 15 new file name will be: my_image_0025.tiff Result The bottom part of the cell will show the result of the naming on the first image selected.\nIf the new name shows an Error, checks your pre index separator.\nOutput folder You simply need to select where the new renamed file will be created. Then the program will copy the selected files and renamed them in the folder you selected.\nFeel free to check the dropdown list that shows the old name versus the new name of each file.\n"
},
{
"uri": "/tutorial/notebooks/resonance_imaging_experiment_vs_theory/",
......
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