CINEMA has a number of user-configurable options that allow you to customise the way in which it behaves in order to best meet your needs. To customise CINEMA, choose Options from the Tools menu; the options dialog will appear:

Using this dialog you can change they way an alignment is displayed in an Alignment View. Once you have finished customising CINEMA, you can choose to either apply the changes for the current session only, or to apply and save them for this and future sessions. You can also restore the default CINEMA settings if you wish. Pressing Cancel at any point will restore the most recently-saved settings.

Alignment view options

These options allow you to change the way in which alignments are visualised, and can be useful for providing speed gains on slow machines. The following options may be turned on or off:

Option Effect

Update all viewers live This option controls how multiple views onto the same alignment are updated. Turn this option on to have each view of an alignment updated simultaneously during editing. For slower machines, this option should be turned off, in which case only the active view is updated during editing, all other views are updated on completion of the edit.

Highlight active viewing region in other views When there are two or more view windows open for the same alignment, all views, except that which is currently active, are dimmed slightly, with only the regions of the alignment coinciding with that displayed in the active view shown at full intensity. Turn this option off to have all views of an alignment displayed at normal intensity at all times.

Show alignment tips This option controls whether the alignment 'tool-tips' are displayed automatically whenever the mouse pointer is left idle. Turn this option off to suppress the automatic tool-tips. whilst turned off, tool tips may still be invoked by pressing the 't' key.

Miscellaneous options

By default, CINEMA will warn you if you attempt to open a non-UTOPIA or legacy CINEMA alignment (i.e. one created with an older version of CINEMA). If you regularly use CINEMA with non-UTOPIA or legacy alignments then this warning message may become annoying; it can be switched off by un-checking the Warn when opening a legacy or non-UTOPIA alignment box.

However, we recommend that this warning message is left switched on, as it is important to be aware of when a non-UTOPIA or legacy alignment has been opened.

Option	Effect
Update all viewers live	This option controls how multiple views onto the same alignment are updated. Turn this option on to have each view of an alignment updated simultaneously during editing. For slower machines, this option should be turned off, in which case only the active view is updated during editing, all other views are updated on completion of the edit.
Highlight active viewing region in other views	When there are two or more view windows open for the same alignment, all views, except that which is currently active, are dimmed slightly, with only the regions of the alignment coinciding with that displayed in the active view shown at full intensity. Turn this option off to have all views of an alignment displayed at normal intensity at all times.
Show alignment tips	This option controls whether the alignment 'tool-tips' are displayed automatically whenever the mouse pointer is left idle. Turn this option off to suppress the automatic tool-tips. whilst turned off, tool tips may still be invoked by pressing the 't' key.

Customising CINEMA