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After you have defined all reactions that make up your model, you could go ahead and do some calculations with your model. For some of the task this is fine since they show you the results in a separate results dialog and it might not be necessary to store those results into a file. For other tasks, like e.g. a time course, it is very likely that you want to store the resulting trajectory in a file or plot the result for visual inspection. So if you want COPASI to store the results or do a plot of them, you have to define either a report and associate it with a file or define a plot. (In the Time Course Simulation section we will also offer an alternative, albeit less flexible, way for storing the results of a time course simulation.) COPASI already has a list of predefined reports suitable for some of the calculation task. These are described in the next paragraph. If you want to create your own plots or reports you can either use the output assistant (the easy way) or you can define the output manually (the flexible way), as described in the Manual Definition section. For some of the calculation tasks predefined reports exist in COPASI. They are automatically created when COPASI is started or when a file is loaded that does not already contain them. These reports have the same name as the task they are suitable for. E.g. the predefined report for Steady-State calculations is Steady-State. The predefined reports print a description of the settings you provided for the calculation, usually (if it applies for the specific calculation) a table with intermediate results, and in the end a detailed report of the result. The report definitions can be changed or deleted using the mechanism described in the Manual Definition section. If you changed one of the predefined reports and want to go back to the original, just delete the report definition and save the file. When you load it again the current missing default report will be generated automatically. If you want to use the predefined reports you have to make sure that the report is selected for a task and that a filename is associated with the report. For this you can use the button as described in the sections about the specific calculation tasks below. |
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