Results Manager

Some commands within gap4 produce "results" that are updated automatically as data is edited. The Result Manager provides a way to list these results, and to interact with them.

A result is an abstract term used to define any collection of data. Typically this data can be displayed, manipulated and is usually updated automatically when changes are made that affect it. In gap4 each set of matches from a particular search plotted on the Contig Comparator (see section Contig Comparator) is a result, as are entire displays such as the Template Display.

The "results" window, shown above, can be invoked either from the View menu in the main display or from the View menu of the Contig Comparator. Each result is listed in the window on a separate line containing the time that the result was created (which may not be the same as when it was last updated), the name of the function that created the result, and the result number. The number is simply a unique identifier to help distinguish two results produced by the same function.

Each item in the list is consuming memory on your computer. Running functions over and over again without removing the previous results will slow down your machine and it will, eventually, run out of memory. Removing items from the list solves this.

Pressing the right mouse button over an listed item will display a popup menu of operations that can be performed on this result. The operations available will always contain "Remove" which will delete this result and shut down any associated window, but others listed will depend on the result selected. In the illustration above the popup menu for the "Repeat search" can be seen. Here the operations relate to a set of repeat matches currently being displayed in the Contig Comparator (not shown).

The Contig Comparator functions ("Find internal joins", "Find read pairs", "Find repeats", "Check assembly" and "Find Sequences") are all listed in the Results Manager once per usage of the function. It is worth remembering that the only places to completely remove the plots from one of these functions is using the "Remove" command within the Results Manager or to use the "Clear" button within the Contig Comparator to remove all plots.