Hello Mélanie,

  I am sorry about that. There was a bug with multiple input data
parameters when nested inside a conditional the way one of your tools
works. I think Peter reported this to Trello a while ago - but your
workflow really helped me track down the problem - so thanks a lot! I
have opened a pull request to fix this in galaxy-central's stable
branch 
(https://bitbucket.org/galaxy/galaxy-central/pull-request/373/bugfix-for-multiple-input-data-parameters/diff).
The patch is very minor.

Thanks again!
-John

On Tue, Apr 15, 2014 at 9:17 AM, Mélanie Hachet
<mhac...@versailles.inra.fr> wrote:
> Hello,
>
> I would like to report a bug.
> I'm using galaxy in local and I was detected this bug 2 months ago.
>
> First, several inputs are necessary for a box (tool) in order to create a
> workflow.
> Then, the workflow is saved with several links for one box.
> So I launched the workflow but i can put only one input.
> When I looked the workflow, only one link is kept (the last one marked),
> others aren't kept.
> However the script corresponding to the box run well independently.
>
> If you need any further information, feel free to contact me.
>
> Best regards.
>
> Mélanie Hachet
>
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