Editing CrocoBLAST:UserManual (section)

= 4. CrocoBLAST update =
CrocoBLAST has a built-in update function that allows you to keep CrocoBLAST always up to date. Given that you have internet access, all you need to do is to type:

{| class="wikitable" border="1" style="margin: 1em auto 1em auto;" width="650px"
 |- 
 |<!--Col1-->'''a)''' Select the “Update” tab
 |<!--Col2-->'''b)''' Click the “Update” button and follow the log messages. CrocoBLAST may restart during the update process
 |-
 |<!--Col1-->[[File:CrocoBLAST_UpdateCrocoBLAST1.png|800x800px]]
 |<!--Col2-->[[File:CrocoBLAST_UpdateCrocoBLAST2.png|800x800px]]
 |}

With that command, CrocoBLAST will check for newer versions automatically update if a newer version is found. CrocoBLAST updates will not affect your queue, indexed databases, or the progress of your BLAST jobs.
</div></div>
----<div class="mw-collapsible mw-collapsed">
'''<small style="font-size:200%;">IV) Using CrocoBLAST (Command Line)</small>'''<div class="mw-collapsible-content">
CrocoBLAST is built to help you plan your BLAST jobs and run them efficiently. CrocoBLAST operates with the concept of ''queue'', which is basically a list of BLAST jobs scheduled to run. Thus, you can plan several BLAST jobs and let CrocoBLAST manage their execution for you.

All CrocoBLAST functionality is available via the command line utility and the graphical user interface. In fact, the graphical user interface does precisely what its name suggests: it provides an interface for the command line utility. In a nutshell, while you can interact with CrocoBLAST via simple commands, you may also use the interface to generate the commands or read the output of such commands.

The following guide contains step-by-step instructions for using CrocoBLAST in the '''command line''' mode.