Parameter files

Whereas Enzo uses a flat parameter list with relatively simple data types, Cello uses a more “hierarchical” parameter list, and allows more complicated data types. The rationale is that the power of the application is ultimately limited by the expressiveness of its input; conversely, a rich and powerful input language can allow the application itself to be more powerful.

This page describes how Cello parameter files are structured, which is similar to configuration files readable by libconfig. For documentation on specific parameters in Enzo-E / Cello, please see the Enzo-E / Cello parameter reference page.

Groups

A group is a named collection of related parameters or subgroups enclosed in braces:

<group> ::= <group-name> "{" <parameter-assignment-list> "}"

All group names are capitalized, and all parameters must be contained in exactly one group. Below, Domain and Mesh are groups, and lower, upper, and root_size are parameters contained in the respective groups.

Domain {
  lower = [0.0, 0.0, 0.0];
  upper = [1.0, 1.0, 1.0];
}

Mesh {
  root_size = [128,128,128];
}

Parameters within a group can be specified in different parts of a file, or even in separate files. Ordering of parameters within a group only matters when a given parameter is listed more than once, in which case only its last value is used. Below, boundary conditions will be initialized to be “reflecting”.

Boundary {
  type = "periodic";
}

Mesh {
  root_size = [128,128,128];
}

Boundary {
  type = "reflecting";
}

Subgroups

A subgroup is a related collection of parameters within a group. Subgroups typically begin with a lower case letter, and may be nested.

Below, Initial is a group, value is a subgroup, and cycle and density are parameters.

Initial {

   value {
      density = [ x + y, x - y < 0.5, 1.0 ];
   }

   cycle = 10;

}

The shorthand used for naming parameters in the documentation is <group> : <subgroup> : <parameter>, e.g. “Mesh : root_size” or “Initial : value : density”. Note that This shorthand is used only for documentation–it is not valid syntax within the parameter file.

Parameters

A parameter is a variable associated with a group and (optionally) a subgroup. A parameter assignment is the assignment of a value to a parameter. The scope of a parameter is its enclosing group and subgroup. Parameters may be either required or optional, and all optional parameters have default values that are specified in the API function call used to access the parameter value in the code. Some parameters may have more than one type, e.g. a scalar, or a list of scalars. Parameters may be assigned to multiple times, in which case the last value is used. All parameter assignments end with a semi-colon ";"

<parameter-assignment> ::= <parameter-name> '=' <value> ';'

Data types

Parameters can be assigned different values, depending on the parameter name and the group the parameter belongs to.

<value> ::= <value-integer>
          | <value-scalar>
          | <value-string>
          | <value-variable>
          | <scalar-expression>
          | <logical-expression>
          | <list>

A parameter value is one of several different basic data types:

==================  =============================
Type                Example
==================  =============================
integer             42
scalar              6.673e-8
string              "velocity_x"
variable            x, y, z, or t
scalar expression   2.0*sin(pi*x) + cos(pi*y)
logical expression  (x < y) || (y < z)
list                [ "velocity_x", 3.14, x < y ]
==================  =============================

Integer types are integers, and must be representable using a 32-bit integer.

Scalar types are any floating point or integral numerical values. The constant ‘pi’ is also recognized as a scalar.

Note that floating-point and integers are not interchangeable: if a floating point type is expected, one cannot use an integer.

String types are enclosed in double-quotes.

Variables represent the position coordinates in space (x, y, and z) and time (t).

Scalar expressions are any “C-like” expression evaluating to a Scalar, and involving Scalar’s, Variable’s, operations ‘+’ ‘-’ ‘*’ ‘/’, ‘^’ (for power), parenthesis, and (almost all) standard functions in math.h. Scalar expressions are typically used for specifying initial or boundary conditions, etc.

Note that “-” when used for subtraction must have blank space after it: x-1.0 will not be parsed correctly, but x - 1.0 will. Similarly, “-” when used for negation must not have a blank space after it.

Logical expressions are any “C-like” expressions that evaluate to “true” or “false”, and involve Scalars, Variabless, and at least one relational operator == != > < <= >=. Logical operators && and || are also recognized. Logical expressions are typically used for defining subregions of the domain for initial or boundary conditions.

Lists represent an ordered sequence of values of mixed types, separated by commas. Lists can be assigned a value, e.g. list = ["dark","star"];, or can be appended to, e.g. list += ["trace"]; Appending to a parameter that has not been assigned to yet is allowed, and equivalent to assignment.

Comments

Comments begin with # and extend to the end of the line.

Include files

The include directive is used to include other parameter declarations from other files. For example, one can have a file of parameters for AMR that is maintained separately from problem specific declarations:

include "amr_defaults.incl"
include "hydro_defaults.incl"

The advantage of using include is that repetition between different parameter files can be reduced. However, a disadvantage is that parameters for a given run can be spread out among different files, making it difficult to understand what parameters are defined and their values. Because of this, Cello writes out its parameters to a single file "parameters.out". Since it is a valid parameter file itself, it can even be used to rerun the simulation, though it should be renamed first to avoid it being overwritten.

Examples

Below is a list of sample input files used for developing Enzo-E parameters. Individual parameters are expected to evolve, though the underlying grammar and syntax are relatively fixed.

Boundary {
    type = "reflecting";
}

Domain {
    lower = [ 0.0, 0.0 ];
    upper = [ 0.3, 0.3 ];
}

Field {

    list = [ "density", "velocity_x", "velocity_y",
             "total_energy", "internal_energy", "pressure" ];

    courant = 0.8;
    gamma = 1.4;
    ghost_depth = 4;
}

Initial {
   list = ["value"];
   value {
      type = "value";
      density = [ 0.125, ( x  +  y ) <  0.1517 , 1.0 ];
      total_energy = [ 2.8, ( x  +  y ) <  0.1517 , 2.5 ];
      velocity_x = 0.0;
      velocity_y = 0.0;
   }
}

Adapt {
    list = [ "SLOPE" ];

    SLOPE {
        field_list = [ "density" ];
        min_refine = 2.0;
        max_coarsen = 0.5;
        type = "slope";
    }

}

Mesh {

    max_level = 3;
    root_blocks = [ 2, 2 ];
    root_rank = 2;
    root_size = [ 40, 40 ];
}

Method {

    list = [ "ppm" ];

}

Output {

    list = [ "DENSITY", "MESH" ];

    DENSITY {
        name = [ "implosion-d-%03d.png", "count" ];
        type = "image";
        image_type = "data";
        field_list = [ "density" ];
        colormap = [ 0.0, 0.0, 0.0,
                     1.0, 0.0, 0.0,
                     1.0, 1.0, 0.0,
                     1.0, 1.0, 1.0 ];
        schedule {
            step = 10;
            type = "interval";
            var = "cycle";
        }
    }

    MESH {
        name = [ "implosion-mesh-%03d.png", "count" ];
        type = "image";
        image_type = "mesh";
        image_reduce_type = "max";
        image_size = [ 513, 513 ];
        colormap = [ 0.0, 0.0, 0.0,
                     0.0, 0.0, 1.0,
                     0.0, 1.0, 1.0,
                     0.0, 1.0, 0.0,
                     1.0, 1.0, 0.0,
                     1.0, 0.0, 0.0 ];
        schedule {
            step = 10;
            type = "interval";
            var = "cycle";
        }
    }
}

Stopping {
    cycle = 100;
    time = 2.50;
}

---

2020-04-10: Updated with corrections from Joshua Smith.