Add to web.properties file, replacing FlyMine with your Mine name:
# in web.properties
galaxy.display = true
galaxy.disabledMessage = Galaxy export is disabled.
galaxy.baseurl.default = https://usegalaxy.org
galaxy.url.value = /tool_runner?tool_id=flymine
galaxy.welcomeMessage = <b>Welcome to FlyMine, GALAXY users</b><br/><br/>You can run queries by clicking on the 'Templates' tab at the top of this page. You can end the query results to Galaxy from the 'EXPORT' menu in the results page.
Update Struts config
# webapp/src/main/resources/struts-config-model.xml
<action path="/galaxyExportOptions" forward="galaxyExportOptions.page"/>
<action path="/initGalaxyExportOptions"
type="org.intermine.bio.web.struts.GalaxyExportOptionsController"/>
<action path="/galaxyExportAction" name="galaxyExportForm"
type="org.intermine.bio.web.struts.GalaxyExportAction" parameter="method"/>
# webapp/src/main/resources/tiles-defs-model.xml
<definition name="galaxyExportOptions.page" extends="layout.template">
<put name="body" value="galaxyExportOptions.tile"/>
<put name="pageName" value="galaxyExportOptions"/>
</definition>
<definition name="galaxyExportOptions.tile" path="/model/galaxyExportOptions.jsp"
controllerUrl="/initGalaxyExportOptions.do"/>
# webapp/src/main/resources/struts-config-model-form.xml
<form-bean name="galaxyExportForm" type="org.intermine.bio.web.struts.GalaxyExportForm"/>
Properties located in the ‘’web.properties’‘’ file.
| parameter | purpose | required? |
|---|---|---|
| display | enable Galaxy export | yes[1]_. |
| disabledMessage | displayed when Galaxy export is disabled | yes |
| baseurl.default | base url of Galaxy server | yes[2]_. |
| url.value | tool runner url | yes[3]_. |
| welcomeMessage | displays on the homepage when coming from Galaxy | yes |
| [1] | when display is false |
| [2] | default url is the main Galaxy server, but it can be replaced by any public/private server |
| [3] | e.g. on main Galaxy server, the tool for flymine is /tool_runner?tool_id=flymine. Customize this url to specific mines, learn how to create a tool from Galaxy wiki |
# galaxy
## set to "false" to disable galaxy
galaxy.display = true
galaxy.disabledMessage = Galaxy export is disabled.
galaxy.baseurl.default = https://usegalaxy.org
galaxy.url.value = /tool_runner?tool_id=flymine
galaxy.welcomeMessage = <b>Welcome to FlyMine, GALAXY users</b><br/><br/>You can run queries by \
clicking on the 'Templates' tab at the top of this page. You can send the query results \
to Galaxy from the 'EXPORT' menu in the results page.