text_search performs a search against a full-text index maintained for the CDMI. The parameter "input" is the text string to be searched for. The parameter "entities" defines the entities to be searched. If the list is empty, all indexed entities will be searched. The "start" and "count" parameters limit the results to "count" hits starting at "start".
Example:
text_search [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.
This script is a wrapper for the CDMI-API call text_search. It is documented as follows:
$return = $obj->text_search($fids)
$fids is a fids $return is a reference to a hash where the key is a fid and the value is an annotations fids is a reference to a list where each element is a fid fid is a string annotations is a reference to a list where each element is an annotation annotation is a reference to a list containing 3 items: 0: a comment 1: an annotator 2: an annotation_time comment is a string annotator is a string annotation_time is an int
This is used only if the column containing the subsystem is not the last column.
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.
To install Bio::KBase, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::KBase
CPAN shell
perl -MCPAN -e shell install Bio::KBase
For more information on module installation, please visit the detailed CPAN module installation guide.