Class CdfFileReporterImporter

    • Constructor Detail

      • CdfFileReporterImporter

        public CdfFileReporterImporter()
        Constructor should be empty.
    • Method Detail

      • getMainType

        public Plugin.MainType getMainType()
        Description copied from interface: Plugin
        Get the type of the plugin. This method must always return the same value.
        Specified by:
        getMainType in interface Plugin
        Returns:
        One of the defined types
      • getPermissions

        public Collection<Permissions> getPermissions()
        Request create and write access to Reporter:s and read access to File:s ArrayDesign:s, ReporterType:s, Platform:s and DataFileType:s
        Specified by:
        getPermissions in interface Plugin
        Overrides:
        getPermissions in class AbstractPlugin
        Returns:
        A collection of permissions or null to not use permissions
      • run

        public void run​(Request request,
                        Response response,
                        ProgressReporter progress)
        Description copied from interface: Plugin
        Run the plugin. If a progress reporter object is passed it is recommended that the plugin makes use of it.
        Specified by:
        run in interface Plugin
        Parameters:
        request - Request object with the command and parameters
        response - Response object in for the plugin to response through
        progress - A ProgressReporter where the plugin can report its progess, can be null
      • getGuiContexts

        public Set<GuiContext> getGuiContexts()
        Description copied from interface: InteractivePlugin
        Get a set containing all items that the plugin handles. Ie. if the plugin imports reporters, return a set containing Item.REPORTER. This information is used by client applications to put the plugin in the proper place in the user interface.
        Specified by:
        getGuiContexts in interface InteractivePlugin
        Returns:
        A Set containing Item:s, or null if the plugin is not concerned about items
      • isInContext

        public String isInContext​(GuiContext context,
                                  Object item)
        If used from an array design context, verify that the array design is an affymetrix chip.
        Specified by:
        isInContext in interface InteractivePlugin
        Parameters:
        context - The current context of the client application, it is one of the values found in set returned by InteractivePlugin.getGuiContexts()
        item - The currently active item, it's type should match the GuiContext.getItem() type, or null if the context is a list context
        Returns:
        Null if the plugin can use that item, or a warning-level message explaining why the plugin can't be used
      • getSignalHandler

        public SignalHandler getSignalHandler()
        Description copied from interface: SignalTarget
        Get the signal handler that is handling signals on behalf of this object. Multiple invokations of this method may receive the same or different objects. Null may be returned if, for some reason, the current object instance doesn't want to receive signals. Returning null is the same as not implementing this interface.
        Specified by:
        getSignalHandler in interface SignalTarget
        Returns:
        A SignalHandler object, or null if the current instance doesn't support signals
      • importFromCdf

        private int importFromCdf​(DbControl dc,
                                  affymetrix.fusion.cdf.FusionCDFData cdf,
                                  ProgressReporter progress)