TOPALi project files hold all settings and results related to the current alignment file you are working on.
When the project is first created (see creating a new project), a copy of the alignment file is merged with the project. This allows you to work with this data from within TOPALi without adversely affecting the original. This data is also highly compressed - in most cases, a TOPALi project file, complete with alignment data and multiple analysis results data will still be significantly smaller than the original alignment file on its own.
In addition to the alignment data, a project will also maintain and store the results from any analysis runs that are carried out. This includes the visual representation of the graphs, along with the raw data required to draw them. Any selected partitions that have been added to the Partitions dialog will also be saved, along with any Phylogenetic trees that were created from them.
Creating a new project
See creating a new project for this information.
To open an existing project, select File | Open Project from the menu bar, click the Open Project toolbar button, or press Ctrl-O. This brings up a standard file chooser allowing you to select a project file (generally with the extension .top) from disk.
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Open Project |
The four most-recently used projects are also accessible by selecting File | Recent Projects from the menu bar. Selecting any of the project files listed will then open it.
While you a working within TOPALi, you can save the current project at any time by selecting File | Save Project from the menu bar, clicking the Save toolbar button, or pressing Ctrl-S.
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Save Project |
You can also save the project under a different name by selecting File | Save As from the menu bar.