# METHOD_OPTIONS

This details the methods to be used in the script and is a required section.

## Example METHOD_OPTIONS from a Fit Script

    METHOD_OPTIONS:
        # Python module required to process this script file
        py_module: fit

        # Option to set seed to make run result
        # reproducible -e.g. when debugging.
        # rand_seed: 12345
        rand_seed: auto

        # Format string for numerical output
        # float_format: nonmem
        float_format: default

## Main METHOD_OPTIONS Fields

### py_module

When calling this script using popy_run, PoPy needs to know which type of script is being called. This is determined by the ‘py_module’ field.

In the example above a ‘fit’ script is specified. Other possible entries are ‘fit’, ‘tut’, ‘gen’, ‘mtut’ etc. See Script File Formats for more information.

### rand_seed

There are two types of scripts run by PoPy:-

- Deterministic - given the same inputs the same outputs are always returned
- Stochastic - given the same inputs the result are dependent on a random number generator

For example a Gen Script is inherently stochastic. Whereas a Fit Script using the ‘JOE’ fitting method is inherently deterministic.

When running a stochastic method you have two options, this setting:-

    rand_seed: auto

Will ensure that the random number generator is seeded with a different random number, every time the script is run. This will generate different output each time. Alternatively you set the seed explicitly:-

    rand_seed: 314159

This will initialise the pseudorandom number generator with the value ‘314159’, which will then generate the same output every time, given the same inputs. For more information on seeding and pseudorandom number generators, see Wikipedia page:-

http://en.wikipedia.org/wiki/Random_seed

Note if your script is deterministic then the ‘rand_seed’ setting will have no effect.

### float_format

This field allows you to control how numbers output by PoPy are rendered as strings. If you leave this field out it defaults to:-

    float_format: default

This has the effect of outputting float values to 5 significant figures. Table 57 shows both named float formats.

Table 57 float format options
Entry | Format String | Example Input | Example Output
--- | --- | --- | ---
default | .5G | 1.0123456 | ‘1.0123’
nonmem | .2E | 1.0123456 | ‘1.01E+00’

You can also specify your own custom format, e.g. ‘.3G’ for 3 significant figures in general format or ‘.4E’ for 4 significant figures in exponent format. Examples of different format strings on the Python command prompt are:-

    >>> '{:.3G}'.format(1.0123456)
    '1.01'
    >>> '{:.4E}'.format(1.0123456)
    '1.0123E+00'

You can experiment with your own formatting. See the rather esoteric instructions here:-

https://docs.python.org/3.4/library/string.html#format-specification-mini-language

Note that PoPy adds the prefix ‘{:’ and the suffix ‘}’ to your ‘float_format’ config file entry.