net.sf.basedb.plugins.executor
Class FileOnlyImporterSupport

java.lang.Object
  net.sf.basedb.core.plugin.AbstractPlugin
      net.sf.basedb.plugins.executor.AbstractIOSupport
          net.sf.basedb.plugins.executor.FileOnlyImporterSupport

All Implemented Interfaces:

InteractivePlugin, Plugin, IOSupport

public class FileOnlyImporterSupport
extends AbstractIOSupport

Importer implementation for the external program executor that uploads all created files to BASE and attaches them to a child bioassay set.

Since:

2.16

Author:

nicklas

Last modified

$Date $

Nested Class Summary

Nested classes/interfaces inherited from interface net.sf.basedb.core.plugin.Plugin

Plugin.MainType

Field Summary

private static About	about
private RequestInformation	configureJob

Fields inherited from class net.sf.basedb.core.plugin.AbstractPlugin

annotationSection, configuration, COPY_ANNOTATIONS, job, OVERWRITE_ANNOTATIONS, sc

Fields inherited from interface net.sf.basedb.plugins.executor.IOSupport

COMMAND_CONFIGURE_IO_JOB, COMMAND_CONFIGURE_IO_PLUGIN, COMMAND_EXECUTE_IO_JOB

Constructor Summary

FileOnlyImporterSupport()

Method Summary

void	configure(GuiContext context, Request request, Response response) Configure the plugin.
About	getAbout() Get information about the plugin, such as name, version, authors, etc.
private RequestInformation	getConfigureExecutorParameters(String command)
private RequestInformation	getConfigureJobParameters(String command)
private Directory	getExtraFilesDirectory(DbControl dc, String pathName)
Plugin.MainType	getMainType() Get the type of the plugin.
RequestInformation	getRequestInformation(GuiContext context, String command) This method will return the RequestInformation for a given command, i.e.
String	getShortName() A default implementation to maintain backwards compatibility.
protected String	performIO(DbControl dc, ProgressReporter progress) Perform the IO operation.

Methods inherited from class net.sf.basedb.plugins.executor.AbstractIOSupport

getExecutor, getGuiContexts, init, isInContext, requiresConfiguration, run, supportsConfigurations

Methods inherited from class net.sf.basedb.core.plugin.AbstractPlugin

checkInterrupted, cloneParameterWithDefaultValue, closeLogFile, createLogFile, done, getCopyAnnotationsParmeter, getCurrentConfiguration, getCurrentJob, getJobOrConfigurationValue, getOverwriteAnnotationsParameters, getPermissions, init, log, log, storeValue, storeValue, storeValues, validateRequestParameters

Methods inherited from class java.lang.Object

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

Methods inherited from interface net.sf.basedb.core.plugin.Plugin

done, getPermissions, init

Field Detail

about

private static final About about

configureJob

private RequestInformation configureJob

Constructor Detail

FileOnlyImporterSupport

public FileOnlyImporterSupport()

Method Detail

getAbout

public About getAbout()

Description copied from interface: Plugin

Get information about the plugin, such as name, version, authors, etc.

Returns:

An About object

getMainType

public Plugin.MainType getMainType()

Description copied from interface: Plugin

Get the type of the plugin. This method must always return the same value.

Returns:

One of the defined types

configure

public void configure(GuiContext context,
                      Request request,
                      Response response)

Description copied from interface: InteractivePlugin

Configure the plugin. Hopefully the client is supplying values for the parameters specified by InteractivePlugin.getRequestInformation(GuiContext, String).

Parameters:

context - The current context of the client application, it is one of the values found in set returned by InteractivePlugin.getGuiContexts()

request - Request object with the command and parameters

response - Response object in for the plugin to response through

getRequestInformation

public RequestInformation getRequestInformation(GuiContext context,
                                                String command)
                                         throws BaseException

Description copied from interface: InteractivePlugin

This method will return the RequestInformation for a given command, i.e. the list of parameters and some nice help text.

Parameters:

context - The current context of the client application, it is one of the values found in set returned by InteractivePlugin.getGuiContexts()

command - The command

Returns:

The RequestInformation for the command

Throws:

BaseException - if there is an error

getShortName

public String getShortName()

Description copied from class: AbstractIOSupport

A default implementation to maintain backwards compatibility. Plug-ins that want to return a different short name should override this method.

Specified by:

getShortName in interface IOSupport

Overrides:

getShortName in class AbstractIOSupport

Returns:

The name of the plugin (eg. getAbout().getName())

performIO

protected String performIO(DbControl dc,
                           ProgressReporter progress)
                    throws IOException

Description copied from class: AbstractIOSupport

Perform the IO operation.

Specified by:

performIO in class AbstractIOSupport

Parameters:

dc - A DbControl that can be used by the subclass

progress - An optional progress reporter

Returns:

A message that is returned as to the external program executor

Throws:

IOException

getConfigureExecutorParameters

private RequestInformation getConfigureExecutorParameters(String command)

getConfigureJobParameters

private RequestInformation getConfigureJobParameters(String command)

getExtraFilesDirectory

private Directory getExtraFilesDirectory(DbControl dc,
                                         String pathName)