:orphan:

Export
================================

Default exporters in bio project

* tab/csv - tab or comma separated 
* GFF3
* FASTA
* BED
* Galaxy - export data in tab or BED format to Galaxy server

Appears on these pages:

* Query results page
* List analysis page
* Genomic Region Search results page


Create a custom exporter
------------------------

You can add additional export options to your InterMine by creating a custom exporter.

1. Write Java classes to handle the data

	see `BEDHttpExporter.java` and `BEDExporter.java`

2. Add the class to your webconfig-model.xml file:

.. code-block:: xml

  <tableExportConfig id="bed" className="org.intermine.bio.web.export.BEDHttpExporter"/>

3. update Struts config

.. code-block:: xml

	# struts-config-model.xml
	<action path="/bedExportAction" name="bedExportForm" type="org.intermine.web.struts.TableExportAction" parameter="method"/>
	
	# tiles-defs-model.xml
	<definition name="bedExportOptions.tile" path="/model/bedExportOptions.jsp" controllerUrl="/initSequenceFeatureExportOptions.do" />

	# struts-config-model-form.xml
	<form-bean name="bedExportForm" type="org.intermine.bio.web.struts.BEDExportForm"/>

Customisation
--------------

By default, SequenceFeature and Protein can be exported as FASTA format

.. code-block:: properties

	fasta.export.classes = SequenceFeature,Protein

Exporter description

.. code-block:: properties

	exporter.galaxy.description = Export to Galaxy
	exporter.sequence.description=Export in FASTA format
	exporter.gff3.description=Export in GFF3 format
	exporter.bed.description=Export in BED format

.. index:: export