#10 Function name in data generator not preserved

[Richard Adams]

From Chris Myers
I wanted to include functions in my math for DataGenerators, but it always turns them into “misc” and does not preserve the function name. I was thinking to use this to indicate, for example, “mean” of a result of a repeated task.

[Richard Adams]

Can you send some code you've tried, or an example of the MathML you'd expect, just so I'm clear what is the problem?

[Chris Myers]

I think I did something like this:

Libsedml.parseFormulaString(mean(X));

And I think it came up with “misc”.

Chris

On Jul 18, 2016, at 3:03 PM, Richard Adams otter606@users.sf.net wrote:

Can you send some code you've tried, or an example of the MathML you'd expect, just so I'm clear what is the problem?

[bugs:#10] https://sourceforge.net/p/jlibsedml/bugs/10/ Function name in data generator not preserved

Status: open
Group: 2.3
Created: Wed Jul 13, 2016 09:09 PM UTC by Richard Adams
Last Updated: Mon Jul 18, 2016 09:02 PM UTC
Owner: Richard Adams

From Chris Myers
I wanted to include functions in my math for DataGenerators, but it always turns them into “misc” and does not preserve the function name. I was thinking to use this to indicate, for example, “mean” of a result of a repeated task.

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[Richard Adams]

Hi Chris,
'mean' isn't a supported MathML function in SED-ML level 1 - the only vector functions are sum, min, max and product are supported ( see section 2.2.1 of the spec). If you wanted to create a 'mean' function, then you could follow the example of org.jlibsedml.mathsymbols.ProductSymbol, MinSymbol etc - but this would be invalid SEDML

[Chris Myers]

I agree it is invalid, but I think I also tried other functions and all functions I tried turned into “misc”. Would be nice if serialized any function you don’t recognize preserving the “name”. This would allow experimentation with extensions to the mathML subset.

Chris

On Jul 24, 2016, at 3:15 PM, Richard Adams otter606@users.sf.net wrote:

Hi Chris,
'mean' isn't a supported MathML function in SED-ML level 1 - the only vector functions are sum, min, max and product are supported ( see section 2.2.1 of the spec). If you wanted to create a 'mean' function, then you could follow the example of org.jlibsedml.mathsymbols.ProductSymbol, MinSymbol etc - but this would be invalid SEDML

[bugs:#10] https://sourceforge.net/p/jlibsedml/bugs/10/ Function name in data generator not preserved

Status: open
Group: 2.3
Created: Wed Jul 13, 2016 09:09 PM UTC by Richard Adams
Last Updated: Mon Jul 18, 2016 09:03 PM UTC
Owner: Richard Adams

From Chris Myers
I wanted to include functions in my math for DataGenerators, but it always turns them into “misc” and does not preserve the function name. I was thinking to use this to indicate, for example, “mean” of a result of a repeated task.

Sent from sourceforge.net because you indicated interest in https://sourceforge.net/p/jlibsedml/bugs/10/ https://sourceforge.net/p/jlibsedml/bugs/10/
To unsubscribe from further messages, please visit https://sourceforge.net/auth/subscriptions/ https://sourceforge.net/auth/subscriptions/

[Richard Adams]

I've committed in a test 'testExtensionSymbolMean()' in org.jlibsedml.mathsymbols.SymbolTests
that shows how to create and register a new symbol with jmathml and provide an implementation of its functionality - does this do what you want?

[Chris Myers]

Yes, that should work.

On Jul 24, 2016, at 4:18 PM, Richard Adams otter606@users.sf.net wrote:

I've committed in a test 'testExtensionSymbolMean()' in org.jlibsedml.mathsymbols.SymbolTests
that shows how to create and register a new symbol with jmathml and provide an implementation of its functionality - does this do what you want?

[bugs:#10] https://sourceforge.net/p/jlibsedml/bugs/10/ Function name in data generator not preserved

Status: pending
Group: 2.3
Created: Wed Jul 13, 2016 09:09 PM UTC by Richard Adams
Last Updated: Sun Jul 24, 2016 09:15 PM UTC
Owner: Richard Adams

From Chris Myers
I wanted to include functions in my math for DataGenerators, but it always turns them into “misc” and does not preserve the function name. I was thinking to use this to indicate, for example, “mean” of a result of a repeated task.

Sent from sourceforge.net because you indicated interest in https://sourceforge.net/p/jlibsedml/bugs/10/ https://sourceforge.net/p/jlibsedml/bugs/10/
To unsubscribe from further messages, please visit https://sourceforge.net/auth/subscriptions/ https://sourceforge.net/auth/subscriptions/