Commit 1c38553f authored by Bilheux, Jean-Christophe's avatar Bilheux, Jean-Christophe
Browse files

updated water intake documentation

parent ffe86f5b
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"title": "Water Intake Profile Calculator",
"tags": [],
"description": "",
"content": " Notebook name: water_intake_profile_calculator.ipynb\nDescription This notebook will calculate the water intake profile vs time of a sample.\nThis application is still under heavy development. The look of the UI will differ from the screenshot you can see in this tutorial and features are added on a regular basis. The tutorial will be fully rewrite once the development is done. Here are the steps (bold for user input/manipulation)\n select the normalized images images sorted by time (by default) User Interface pops up! region of interest selected (optional) change the sorting algorithm by name by date (optional) select a folder containing the original .dsc files (which contain the right time stamp) profile of counts vs vertical-pixel calculated (select integrated algorithm: mean/median/sum) water intake profile vs file index or vs time export profiles Start the notebook If you need help accessing this notebook, check the How To \u0026gt; Start the python notebooks tutorial.\nSelect your IPTS Need help using the IPTS selector?\n Select Images to Process Select the images you want to process using the File Selector. Once you click the Select button, the time stamp and the images will be automatically loaded. Wait for the progress bar to be done.\nNeed help using the File Selector?\n \nWater Intake Calculator UI Resizing widgets It\u0026rsquo;s possible to resize or move any of the plots.\nSorting Algorithm By default, all the images are sorted using their time stamps. But in some cases (old IPTS), the time stamp may be wrong. So It\u0026rsquo;s possible to:\n either sort them using their name and let you define the time interval between the runs define a folder that contains the .dsc files created by the MCP. Those files contain in all cases, the correct time stamp. Profile Algorithm You can select the profile algorithm to use (to integrate over the x-axis of the region selected) using the profile algorithms available\n add mean median The profile is calculated using the following method:\n retrieve the region you defined in the top left image using the profile algorithm you selected, will integrate over the x-axis of the ROI display the profile vs the y-pixels. Using Pixel or Size Reference By default the water intake profile display the position of the \u0026ldquo;wave\u0026rdquo; as a pixel number vs the time. But it\u0026rsquo;s also possible to display this one using a real dimension (mm). To do so, just click the water intake y_axis -\u0026gt; distance check box and define the dimension of the pixel.\nIntegration Direction In the new version of the application, it is now possible to specify the direction of integration of the profiles. Select either y_axis or x_axis to change this direction.\nWater Intake Algorithms It\u0026rsquo;s possible to chose between 2 different algorithms to calculate the \u0026ldquo;wave\u0026rdquo; front position.\nSliding Average This method is fully demonstrated in this PDF document\nError Function Fitting The signal is fitted using a modified version of the error function as shown here\nChange Point Live Demo Export Results You can export the following data\n profile (Export \u0026gt; Profiles \u0026hellip;) water intake (Export \u0026gt; Water Intake \u0026hellip;) Table (Export Table \u0026hellip;, on the right of the table) For Advanced Users. keep reading!\n Want to Work on the Data in the Notebook? If you want to play yourself with the data loaded, you can easily access all the data and metadata loaded\nlist_of_data = o_gui.dict_data['list_data'] list_of_files = o_gui.dict_data['list_images'] list_of_time_stamp = o_gui.dict_data['list_time_stamp'] list_of_time_stamp_user_format = o_gui.dict_data['list_time_stamp_user_format'] "
"content": " Notebook name: water_intake_profile_calculator.ipynb\nDescription This notebook will calculate the water intake profile vs time of a sample.\nThis application is still under heavy development. The look of the UI will differ from the screenshot you can see in this tutorial and features are added on a regular basis. The tutorial will be fully rewrite once the development is done. Here are the steps (bold for user input/manipulation)\n select the normalized images images sorted by time (by default) User Interface pops up! region of interest selected (optional) change the sorting algorithm by name by date (optional) select a folder containing the original .dsc files (which contain the right time stamp) profile of counts vs vertical-pixel calculated (select integrated algorithm: mean/median/sum) water intake profile vs file index or vs time export profiles Start the notebook If you need help accessing this notebook, check the How To \u0026gt; Start the python notebooks tutorial.\nSelect your IPTS Need help using the IPTS selector?\n Select Images to Process Select the images you want to process using the File Selector. Once you click the Select button, the time stamp and the images will be automatically loaded. Wait for the progress bar to be done.\nNeed help using the File Selector?\n \nWater Intake Calculator UI Resizing widgets It\u0026rsquo;s possible to resize or move any of the plots.\nSorting Algorithm By default, all the images are sorted using their time stamps. But in some cases (old IPTS), the time stamp may be wrong. So It\u0026rsquo;s possible to:\n either sort them using their name and let you define the time interval between the runs define a folder that contains the .dsc files created by the MCP. Those files contain in all cases, the correct time stamp. Profile Algorithm You can select the profile algorithm to use (to integrate over the x-axis of the region selected) using the profile algorithms available\n add mean median The profile is calculated using the following method:\n retrieve the region you defined in the top left image using the profile algorithm you selected, will integrate over the x-axis of the ROI display the profile vs the y-pixels. Using Pixel or Size Reference By default the water intake profile display the position of the \u0026ldquo;wave\u0026rdquo; as a pixel number vs the time. But it\u0026rsquo;s also possible to display this one using a real dimension (mm). To do so, just click the water intake y_axis -\u0026gt; distance check box and define the dimension of the pixel.\nIntegration Direction In the new version of the application, it is now possible to specify the direction of integration of the profiles. Select either y_axis or x_axis to change this direction.\nWater Intake Algorithms It\u0026rsquo;s possible to chose between 2 different algorithms to calculate the \u0026ldquo;wave\u0026rdquo; front position.\nSliding Average This method is fully demonstrated in this PDF document\nError Function Fitting The signal is fitted using a modified version of the error function as shown here\nChange Point You can now select a 3rd algorithm based on the following python library (changepy)\nRebin For very poor statistics data, you can rebin the data by 2, 3 or more pixels. This will decrease the resolution of the water intake peak position, but will improve its calculation by the various algorithms (sliding average, error function, \u0026hellip;)\nLive Demo Export Results You can export the following data\n profile (Export \u0026gt; Profiles \u0026hellip;) water intake (Export \u0026gt; Water Intake \u0026hellip;) Table (Export Table \u0026hellip;, on the right of the table) For Advanced Users. keep reading!\n Want to Work on the Data in the Notebook? If you want to play yourself with the data loaded, you can easily access all the data and metadata loaded\nlist_of_data = o_gui.dict_data['list_data'] list_of_files = o_gui.dict_data['list_images'] list_of_time_stamp = o_gui.dict_data['list_time_stamp'] list_of_time_stamp_user_format = o_gui.dict_data['list_time_stamp_user_format'] "
}]
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