Package ubic.gemma.apps

Class ArrayDesignMergeCli

  • All Implemented Interfaces:
    org.springframework.beans.factory.Aware, org.springframework.beans.factory.InitializingBean, org.springframework.context.ApplicationContextAware, org.springframework.context.EnvironmentAware, CLI
    public class ArrayDesignMergeCli
extends ArrayDesignSequenceManipulatingCli
    • make new array design based on others
    • Keep map of relation between new design elements and old ones
    • Store relationship with mergees
    Separate operations:
    • For an EE, Remap DesignElement references to old array designs to new one, and old BioAssay AD refs to new one.
    Author:
    pavlidis

    • Constructor Detail

      • ArrayDesignMergeCli

        public ArrayDesignMergeCli()

    • Method Detail

      • getCommandName

        public String getCommandName()
        Description copied from interface: CLI
        A short memorable name for the command that can be used to locate this class.
        Specified by:
        getCommandName in interface CLI
        Overrides:
        getCommandName in class AbstractCLI
        Returns:
        name; if null or blank, this will not be available as a shortcut command.

      • getShortDesc

        public String getShortDesc()
        Description copied from interface: CLI
        Obtain a short description for this command explaining what it does.
        Specified by:
        getShortDesc in interface CLI
        Overrides:
        getShortDesc in class AbstractCLI

      • buildOptions

        protected void buildOptions​(org.apache.commons.cli.Options options)
        Description copied from class: AbstractCLI
        Build option implementation.

        Implement this method to add options to your command line, using the OptionBuilder.

        This is called right after AbstractCLI.buildStandardOptions(Options) so the options will be added after standard options.

        Overrides:
        buildOptions in class ArrayDesignSequenceManipulatingCli