Constraint Element Description

When you describe a constraint element the element_name consists of two parts separated by two hyphens.

part1--part2

Each part represents one of the algorithms the constraint is imposed on.

If the algorithm is presented as one element on a schema (like ORF, Pattern) the algorithm’s part has format:

algorithm_element_name.unit

If the algorithm is presented as two subelements on a schema (like Repeats, Primer) the algorithm’s part has format:

algorithm_element_name.left

or:

algorithm_element_name.right

depending on the subelement the constraint is imposed on.

Also you should specify the constraint type parameter (currently the only available type is distance):

type: distance;

And specify one of the distance types, for example:

distance-type: end-to-start;

Example1: The constraint is imposed on myORF and myPattern algorithm elements:

myORF.unit--myPattern.unit {

   type: distance;
   distance-type: start-to-start;

   # Other parameters
}

Example2: The constraint is imposed on myORF algorithm element and the left myRepeats algorithm subelement:

myORF.unit--myRepeats.left {

   type: distance;
   distance-type: start-to-end;

   # Other parameters
}

The available constraint elements are described in the Constraint Elements chapter.