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  HyPhy Documentation: HyPhy Console: 'Analysis' Menu

  • "Cancel Execution" terminates current analysis. It may take a few seconds for the analysis to exit. Is disabled when no analysis is running.
  • "Suspend Execution" immediately suspends current analysis and changes to "Resume Execution", which can be then selected to resume the run from the place where it was suspended. Is disabled when no analysis is running.
  • "View messages.log" displays the log of diagnostic/information messages generated by all the analyses run in current session (Those messages are kept in the file "messages.log" and can also be viewed with any text editor after the HYPHY session has ended).
  • "Standard Analyses" presents a list of available standard analyses. Standard analyses files are located in "TemplateBatchFiles" directory, which should be a part of the HYPHY distribution. Details of standard analyses are described in a separate help topic.
  • "Results" contains a list of tools that can be used to process results of analyses. Is disabled if no relevant analysis results are available. The items listed in this submenu are located in "TemplateBatchFiles" directory, which should be a part of the HYPHY distribution. Some items may not be available for all analyses.
  • "Rerun Last Analysis" is a shortcut to run the most recent analysis again. Is disabled until the first analysis of the session has finished.
  • "Trees" (MacOS Only) A submenu with the list of trees defined by the recent analysis. Selecting an item will open a tree viewer/editor window for that tree.
  • "Compute Expression" Puts HYPHY in calculator mode, i.e. any typed expression will be immediately evaluated as soon as 'Enter' is pressed. The console will display '>' when calculator mode is in effect. After an expression has been entered and evaluated, HYPHY will revert to normal mode. For example:
    >Sqrt(2) 
    1.41421
    (Select 'Compute Expression' again)
    >Format (Sqrt(2),0,20) 
    1.41421356237309514547       
             
  • "Execute Selection" Instructs HYPHY to parse and execute the commands contained in the selected area of the console. If the selection is empty, this command has no effect.
    fprintf (stdout, "\nHello World\n"); -- Select this and choose 'Execute Selection'
    Hello World -- The result of the above command
             

 
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