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I have run into a limitation with add_graphs.php. It seems, when you run the command, you cannot do 3 things;
Specify the data source name
Specify the internal data source name
Specify a specific output field
The way we have set out data_input_methods is, we use a single script to gather the specific data we need. We just create multiple output fields to be able to tell the graph which we want. When you add a graph through the UI, you get a nice drop down to select which output field you want. We specify the custom internal ds for thta output and of course, give the ds itself a unique name. We can't do any of that from the add_graphs.php.
I second this request. Been searching long and hard for something along these lines.
Would be an excellent feature, I'll continue to try and work on a solution myself, but hopefully someone else will come along with a good one.