Did you try what Dan suggested ? Which issues did you find by doing so ? PD: Someone should put the "repy to:" munging in this mailing list so that it keeps the responses in the list automatically, there's a mailman setting for this (reply_goes_to_list): http://www.gnu.org/s/mailman/mailman-admin/node11.html Ignore the "considered harmful" nonsense, in my experience it does help a lot in mailing lists such as this. 16 sep 2011 kl. 10:11 skrev Fengyuan Hu:
Hi,
I don't mean to be pushy, but just in case my question is buried and forgotten to be viewed. Could someone have a look at this, please?
Thanks Fengyuan
On 12/09/11 10:20, Fengyuan Hu wrote:
Dear Galaxy developers,
I'm trying to create a tool to export galaxy interval data to InterMine instances.
Firstly, based on the tool to send dataset to EpiGRAPH, I created one to FlyMine, it's working on my local instance. Then I tried a bit complex one, to integrate multiple mines in one tool, source xml as following:
<?xml version="1.0"?> <tool name="Perform advanced genomic region search" id="intermine_export"> <description> with an InterMine instance</description> <redirect_url_params>GENOME=${input1.dbkey} NAME=${input1.name} INFO=${input1.info}</redirect_url_params> <inputs> <param format="bed" name="input1" type="data" label="Send this dataset to an InterMine instance"> <validator type="unspecified_build" /> </param> <conditional name="destination"> <param name="indexDestination" type="select" label="Select InterMine instance" help="InterMine genomic region search service."> <option value="flymine">FlyMine</option> <option value="modmine">modMine</option> <option value="metabolicmine">MetabolicMine</option> </param> <when value="flymine"> <param name="REDIRECT_URL" type="hidden" value="http://www.flymine.org/query/genomicRegionSearch.do" /> </when> <when value="modmine"> <param name="REDIRECT_URL" type="hidden" value="http://intermine.modencode.org/query/genomicRegionSearch.do" /> </when> <when value="metabolicmine"> <param name="REDIRECT_URL" type="hidden" value="http://www.metabolicmine.org/beta/query/genomicRegionSearch.do" /> </when> </conditional> <param name="DATA_URL" type="baseurl" value="/datasets" /> <param name="GALAXY_URL" type="baseurl" value="/tool_runner?tool_id=intermine_import" /> </inputs> <outputs/> <help> some help text here... </help> </tool>
I use <conditional> tag on intermine instances, it will be parsed to a dropdown list in html page, every time I select a different mine, I'd like the value of "REDIRECT_URL" param to change accordingly, but this is not working. After testing and reading the doc a bit, I realised that "REDIRECT_URL" will be renamed "destination | REDIRECT_URL" in the rendered html, and the xml parser will only recognise the key word "REDIRECT_URL" (reserved), is this the case?
Can I still valid my logics in the xml?
Thanks Fengyuan
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