The first thing to do in your brand new project is to import Result Files. To do so, Click on the “Import Result File” Button, in the toolbar of the project overview window or via a “right-click” on the Project node of the tree

You should then see this panel appear :

It allows you to select Result Files and set up following parameters for the import process :

• Parameters
  • Software Engine : the software which generated your interrogation file
  • Instrument : mass-spectrometer used for sample analysis
  • Peaklist Software : the software used for the peaklist creation

• Decoy Parameters
  • Decoy Strategy : TODO
  • Protein Match Decoy Rule : TODO

• Parser Parameters : according to your Software Engine, this will display some extra-parameters.
  • Mascot :
    • Ion Score Cutoff : TODO
    • Subset Threshold : TODO
    • Mascot Server URL : TODO
  • Omssa :
    • User mod file : TODO
    • PTM Composition File : TODO

• Check Files before Import : let this checked to ensure that your files contain no errors. The server will perform a check operation before launching the import.

In order to add files to your import selection, click on “Select Result File” to open the File Browser that will let you choose one or many result files to import :

The left side let you browse the directories, and when you click on one of them, its content is shown on the main panel. Choose one or multiple files then click “Ok”.

Back to the “Import Result File” window, you should now see your selection appear in the grid. Choose the instrument and the peaklist software corresponding to your files, and then select a “Decoy Strategy”. You can now click on “Start Import” to launch the check and the import tasks.

The server will check your files first, then the import itself will be launched automatically.

You can follow the current state of your tasks by clicking on the small cake in the bottom right corner of the desktop screen. It opens a small grid where you can see all your tasks.

When a task is done, you are notified by a small message in the top of the screen, and you can see its status in the tasks window :

All the Result Files you have imported are listed in the “Search Results” panel you can access by double-clicking the “Search Results” node in your project's tree.