Package ca.corefacility.bioinformatics.irida.database.changesets

Class FastqcToFilesystem

  • All Implemented Interfaces:
    liquibase.change.custom.CustomChange, liquibase.change.custom.CustomSqlChange
    public class FastqcToFilesystem
extends java.lang.Object
implements liquibase.change.custom.CustomSqlChange
    Liquibase update class for moving the fastqc analysis results off the AnalysisFastQC class (and out of the database). This will instead save them to the filesystem as an AnalysisOutputFile. This should greatly decrease the size of the database for large IRIDA installs and speed up loading of the AnalysisFastQC class.

    • Method Summary

      All Methods Instance Methods Concrete Methods 
      Modifier and Type Method Description
      liquibase.statement.SqlStatement[] generateStatements​(liquibase.database.Database database)  
      java.lang.String getConfirmationMessage()  
      void setFileOpener​(liquibase.resource.ResourceAccessor resourceAccessor)  
      void setUp()  
      liquibase.exception.ValidationErrors validate​(liquibase.database.Database database)  

      • Methods inherited from class java.lang.Object

        clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

    • Constructor Detail

      • FastqcToFilesystem

        public FastqcToFilesystem()

    • Method Detail

      • generateStatements

        public liquibase.statement.SqlStatement[] generateStatements​(liquibase.database.Database database)
                                                      throws liquibase.exception.CustomChangeException
        Specified by:
        generateStatements in interface liquibase.change.custom.CustomSqlChange
        Throws:
        liquibase.exception.CustomChangeException

      • getConfirmationMessage

        public java.lang.String getConfirmationMessage()
        Specified by:
        getConfirmationMessage in interface liquibase.change.custom.CustomChange

      • setUp

        public void setUp()
           throws liquibase.exception.SetupException
        Specified by:
        setUp in interface liquibase.change.custom.CustomChange
        Throws:
        liquibase.exception.SetupException

      • setFileOpener

        public void setFileOpener​(liquibase.resource.ResourceAccessor resourceAccessor)
        Specified by:
        setFileOpener in interface liquibase.change.custom.CustomChange

      • validate

        public liquibase.exception.ValidationErrors validate​(liquibase.database.Database database)
        Specified by:
        validate in interface liquibase.change.custom.CustomChange