complexes_to_roles

Complexes catalyze reactions and are made up of one or more roles. The roles that make up a complex can be "optional", or not.

This command takes as input a table with a column composed of complex ids and adds one column (containing a role that is part of the complex). The "optional" field is not returned, so you do not get back a field indicating whether or not the role is optional. If you need that information, we recommend that you use

get_relationship_IsTriggeredBy -rel optional -to id

This would tack on both the optional flag and the role.

Example:

complexes_to_roles [arguments] < input > output

The standard input should be a tab-separated table (i.e., each line is a tab-separated set of fields). Normally, the last field in each line would contain the identifer. If another column contains the identifier use

-c N

where N is the column (from 1) that contains the subsystem.

This is a pipe command. The input is taken from the standard input, and the output is to the standard output.

Documentation for underlying call

This script is a wrapper for the CDMI-API call complexes_to_roles. It is documented as follows:

$return = $obj->complexes_to_roles($complexes)

Parameter and return types

$complexes is a complexes
$return is a reference to a hash where the key is a complexes and the value is a roles
complexes is a reference to a list where each element is a complex
complex is a string
roles is a reference to a list where each element is a role
role is a string

Command-Line Options

-c Column

This is used only if the column containing the subsystem is not the last column.

-i InputFile [ use InputFile, rather than stdin ]

Output Format

The standard output is a tab-delimited file. It consists of the input file with extra columns added.

Input lines that cannot be extended are written to stderr.