Package net.sf.basedb.util.overview.validator

Class PhysicalBioAssayValidator

java.lang.Object
net.sf.basedb.util.overview.validator.BasicNodeValidator<I>
net.sf.basedb.util.overview.validator.NameableNodeValidator<PhysicalBioAssay>
net.sf.basedb.util.overview.validator.PhysicalBioAssayValidator
All Implemented Interfaces:
NodeValidator<PhysicalBioAssay>
public class PhysicalBioAssayValidator extends NameableNodeValidator<PhysicalBioAssay>
Validator implementation for physical bioassays. Validation rules:
Version:
2.10
Author:
Nicklas
Last modified
$Date: 2015-03-25 08:13:39 +0100 (on, 25 mar 2015) $

  • Constructor Details

    • PhysicalBioAssayValidator

      public PhysicalBioAssayValidator()

  • Method Details

    • postValidate

      public void postValidate(DbControl dc, OverviewContext context, Node node, Node parentNode)
      Description copied from class: BasicNodeValidator
      Do nothing. Subclasses should override this method if they need more validation for an existing and accessible item.
      Specified by:
      postValidate in interface NodeValidator<PhysicalBioAssay>
      Overrides:
      postValidate in class NameableNodeValidator<PhysicalBioAssay>
      Parameters:
      dc - A DbControl to use if the validation needs to access the database
      context - The current overview context
      node - The node object that represents item
      parentNode - The parent node that is linked with the item

    • getMissingItemFix

      protected Fix getMissingItemFix(DbControl dc, Node parentNode)
      Description copied from class: BasicNodeValidator
      Subclasses should override this method if they have a suggessted fix for a missing item problem. The default implementation does nothing, but the following template may be usable by most subclasses: 
                      new Fix("Add item to parent", parentNode.getItem())
      Specified by:
      getMissingItemFix in class BasicNodeValidator<PhysicalBioAssay>
      Returns:
      Always null (since it can never be missing)

    • checkExtractSubtype

      public static void checkExtractSubtype(DbControl dc, OverviewContext context, Node bioAssayNode, Node extractNode)
      Check the subtype of the extract that is the parent to a physical bioassay. Given that the bioassay has a non-null subtype, which has a related EXTRACT subtype, this method checks if the parent extract has the same subtype. If there is no related subtype for the bioassay, any subtype for the parent is accepted.

    • getPhysicalBioAssays

      public static List<PhysicalBioAssay> getPhysicalBioAssays(DbControl dc, OverviewContext context, DerivedBioAssay bioAssay)
      Get all physical bioassays that are parents to the given derived bioassay. This is a utility method that provides caching support so that queries don't have to be repeated for the same derived bioassay.
      Since:
      3.2

    • getAllParentExtracts

      public static Set<Extract> getAllParentExtracts(DbControl dc, OverviewContext context, PhysicalBioAssay bioAssay)
      Get all parent extracts that are associated with the given physical bioassay.
      Since:
      3.2