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added screenshots for galaxy2im
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danielabutano committed Sep 10, 2019
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15 changes: 13 additions & 2 deletions docs/webapp/third-party-tools/galaxy.rst
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Expand Up @@ -72,14 +72,25 @@ welcomeMessage displays on the homepage when coming from Galaxy yes

Export data from InterMine to Galaxy
------------------------------------
1. starting from an InterMine instance, e.g. FlyMine, run a query, select the option **Export** -> **Send to Galaxy** and the data will be exported in the galaxy instance specified in the *Galaxy Location field*
1. starting from an InterMine instance, e.g. FlyMine, run a query, select the option **Export** -> **Send to Galaxy** and the data will be exported in the galaxy instance specified in the *Galaxy Location* field

.. figure:: img/sendtogalaxy.png
:align: center

2. starting from Galaxy, use the NEW intermine tool to be redirected to the InterMine registry, select the InterMine instance you want to use to export the data, run the query, select the option **Export** -> **Send to Galaxy** and the data will be exported in the Galaxy instance you started from.

.. figure:: img/sendtogalaxy2.png
:align: center


Export data from Galaxy to InterMine
------------------------------------
Use the new **InterMine interchange dataset** to generate an intermediate file (tsv formatted), then click on *View InterMine at Registry* to be redirected to the InterMIne registry in order to chose the InterMine instace to export the data to.
Use the new **InterMine interchange dataset** to generate an intermediate file (tsv formatted)

.. figure:: img/sendtoim.png
:align: center

and then click on *View InterMine at Registry* to be redirected to the InterMIne registry in order to chose the InterMine instace to export the data to.

.. figure:: img/sendtoim2.png
:align: center
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