Apotome Plus can be used in Direct Processing. For general information, see Direct Processing.

  1. If you are using Direct Processing on different computers, you have connected acquisition and processing computer, see Connecting Acquisition Computer and Processing Computer.
  2. To ensure that the processing computer reads incoming files and starts the processing, on the Applications tab, in the Direct Processing tool, you have clicked Start Receiving. This is usually active by default.
  3. On the Acquisition tab, Direct Processing is activated. This activates the Auto Save tool as well.
  4. Depending on your settings, you have defined the folder where the acquired images are stored in the Direct Processing or the Auto Save tool. Use a folder to which the processing computer has access. For information about sharing a folder, see Sharing a Folder for Direct Processing.
  5. On the Acquisition tab, you have set up your experiment for Apotome acquisition.
  6. If you want to use advanced settings created with the Apotome Plus (adjustable) function, you have the settings available, see also Creating Apotome Plus Settings.
  1. On the Acquisition tab, open the Direct Processing tool.
  2. The tool parameters are displayed. In the processing pipeline, the first block is selected automatically
  3. If the function is not preselected, go to the Processing Function dropdown list and select Apotome Plus.
  4. The parameters are displayed.
  5. Select the algorithm you want to use. If you want to use an advanced settings file you have created with the function Apotome Plus (adjustable), activate Use Advanced Settings.
  6. A dropdown list is displayed under Load Setting created in the Apotome Plus function.
  7. From the dropdown list, select your advanced settings for Apotome Plus.
    Note: Currently Direct Processing supports settings configured on the Apotome Plus tab of the image processing function Apotome Plus (adjustable) and some parameters of the PSF Settings tab. Especially parameters that rely on external data (like using external PSF) are not possible with Direct Processing.
  8. Click Start Experiment to run the experiment. Note: You can pause the processing. If you stop the experiment, requests that have been sent earlier by the acquisition computer are not processed. However, already processed images will be retained.
  9. The images are stored in the folder you have defined in the Auto Save or Direct Processing tool. When you abort the acquisition, the remote processing will not take place. In case you have set up several processing functions, only the acquired image and the final output image are stored.
  10. The processing computer reads incoming files and starts the processing. The path to the selected folder, the currently processed image as well as the images to be processed are displayed in the Direct Processing tool. The processed image is saved to the same folder specified in the Direct Processing tool. If the image name already exists in this folder, the new file is saved under a new name <oldName>-02.czi.
  11. To cancel the processing on the processing computer, on the Applications tab, in the Direct Processing tool, click Cancel Processing.
  1. Once processing is finished, you are notified on the acquisition PC and can open and view the acquired image as well as the processed image. This should be done on the processing computer, so that you can immediately start a new experiment on the acquisition computer. However, you can also automatically open the processed image on the acquisition PC with the respective setting in the Direct Processing tool on the Acquisition tab.
  2. Information about Direct Processing (e.g. the duration) is available on the Info view tab of the processed image.