Bridget McInnes > UMLS-Interface-1.35 > getSemanticRelation.pl

Download:
UMLS-Interface-1.35.tar.gz

Annotate this POD

CPAN RT

Open  0
View/Report Bugs
Source   Latest Release: UMLS-Interface-1.41

NAME ^

getSemanticRelation.pl - This program returns a concepts semantic relation(s) between two semantic types

SYNOPSIS ^

This program takes two semantic types in the abbreviation form and returns their semantic relation.

USAGE ^

Usage: getSemanticRelation.pl [OPTIONS] [ST1] [ST2]

INPUT ^

Required Arguments:

[ST1] [ST2]

The semantic types in their abbreviation form. For example, the semantic type of ahnd is Body Part, Organ, or Organ Component. Its abbreviation form (which is more commonly used - at least by us - is pboc <- this is the form that you should entir.

Optional Arguments:

--infile FILE

A file containing a list of concepts or terms. The format requires two semantic types per line. For example:

  st1<>st2
  st3<>st4
  ...

--debug

Sets the debug flag for testing

--username STRING

Username is required to access the umls database on MySql unless it was specified in the my.cnf file at installation

--password STRING

Password is required to access the umls database on MySql unless it was specified in the my.cnf file at installation

--hostname STRING

Hostname where mysql is located. DEFAULT: localhost

--socket STRING

The socket your mysql is using. DEFAULT: /tmp/mysql.sock

--database STRING

Database contain UMLS DEFAULT: umls

--help

Displays the quick summary of program options.

--version

Displays the version information.

OUTPUT ^

List of CUIs that are associated with the input term

SYSTEM REQUIREMENTS ^

AUTHOR ^

 Bridget T. McInnes, University of Minnesota

COPYRIGHT ^

Copyright (c) 2007-2011,

 Bridget T. McInnes, University of Minnesota
 bthomson at cs.umn.edu
    
 Ted Pedersen, University of Minnesota Duluth
 tpederse at d.umn.edu

 Siddharth Patwardhan, University of Utah, Salt Lake City
 sidd@cs.utah.edu
 
 Serguei Pakhomov, University of Minnesota Twin Cities
 pakh0002@umn.edu

This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program; if not, write to:

 The Free Software Foundation, Inc.,
 59 Temple Place - Suite 330,
 Boston, MA  02111-1307, USA.
syntax highlighting: