I have created a Trello card for this request here -
https://trello.com/c/Fk1mcGnZ.

-John


On Thu, Jan 2, 2014 at 11:48 AM, Thon deBoer <tdeb...@enzymatics.com> wrote:

>  Absolutely!
>
>  As long as I don’t need to open up the XML file in the toolshed tree…
>
>  Regards,
>
>  Thon
>
>
>
>
>  On Dec 31, 2013, at 11:53 AM, James Taylor <ja...@jamestaylor.org> wrote:
>
>  Would something as simple as showing the input parameter name in a
> tooltip inside the workflow editor accomplish what you need?
>
>
> --
> James Taylor
>
>
> On Fri, Dec 27, 2013 at 4:24 PM, Thon deBoer <tdeb...@enzymatics.com>wrote:
>
>> Hi,
>>
>>  In order to make Galaxy workflows even more useful, it is going to be
>> important for data files to be renamed in a workflow.
>> I know we can use the "#{input1 | base name}-BWA.sam" trick which is
>> useful IF you know what the actual parameter name is in the XML file.
>>
>>  There was some discussions some years ago (
>> http://lists.bx.psu.edu/pipermail/galaxy-dev/2012-September/011288.html)
>> but it is is now very time consuming to figure out from the XML file what
>> the name of the input parameter is you would like to use (and it is often
>> very tricky, due to the fact that the name of the actual input parameter
>> may actually change based on some selection in the UI….
>>
>>  I often had to resort to actually chaining the XML file to make the
>> output something like:
>>
>>  <data format="sam" name="output" label="#echo os.path.splitext ( str ( $
>> paired.input1.name ).replace ( '_R1' , '' )) [ 0 ]#-bwa_#echo str (
>> $paired.sPaired ) #.sam”>
>>
>>  But that is time consuming and does no longer work with the toolshed
>> since an update of a tool is merely a brute force replacement of the
>> previous version, no longer allowing me to have to change it once and let
>> the updates work with on the changed version as was working brilliantly
>> before all tools were moved out of the main branch and into the toolshed)…
>>
>>  So, are there any plans to at least expose the Inputs (or the XML)
>> during the workflow editing or something similar?
>> Now I have to dig up the XML file every time I use a new tool, making the
>> creation of workflow a tedious task...
>>  Regards,
>>
>>  Thon
>>
>>
>>
>>
>>     <enz_logo_2_newf03327.jpeg>
>>
>>
>> *Thon deBoer **Director of Software*
>>
>> 3415 Colorado Ave.
>> Room A255
>> Boulder, CO  80303
>>
>> Cell: (650) 799-6839
>>
>> tdeb...@enzymatics.com
>> www.enzymatics.com
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>
>
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