owltools.gaf.rules.go
Class BasicChecksRule

java.lang.Object
  extended by owltools.gaf.rules.AbstractAnnotationRule
      extended by owltools.gaf.rules.go.BasicChecksRule
All Implemented Interfaces:
AnnotationRule

public class BasicChecksRule
extends AbstractAnnotationRule

This class performs basic checks. See the GO_AR:0000001 rule in the "http://www.geneontology.org/quality_control/annotation_checks/annotation_qc.xml" file for details about the checks.

Author:
Shahid Manzoor

Constructor Summary
BasicChecksRule(String xrefAbbsLocation)
           
 
Method Summary
 Set<AnnotationRuleViolation> getRuleViolations(GeneAnnotation a)
          Given an annotation, find the set of violations using the rule
 
Methods inherited from class owltools.gaf.rules.AbstractAnnotationRule
getRuleId, getRuleViolations, isDocumentLevel, setRuleId
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

BasicChecksRule

public BasicChecksRule(String xrefAbbsLocation)
Parameters:
xrefAbbsLocation -
Method Detail

getRuleViolations

public Set<AnnotationRuleViolation> getRuleViolations(GeneAnnotation a)
Description copied from interface: AnnotationRule
Given an annotation, find the set of violations using the rule

Specified by:
getRuleViolations in interface AnnotationRule
Specified by:
getRuleViolations in class AbstractAnnotationRule
Parameters:
a - annotation
Returns:
set of violations


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