Thank you Shaun.
That worked really good!
One final question.
What is the best way to generate output files dynamically by galaxy.
That is if the user sets a parameter, say create bam file. Then the output file
gets generated.
If the same parameter is false or no, then galaxy does not generate this file.
We tried using the when tags and the conditional tags inside the output tags
with no luck.
Thanks again and looking forward to your response.
Victor
On Feb 24, 2012, at 4:16 AM, SHAUN WEBB wrote:
>
>
>
> Hi Victor,
>
> this is how I have implemented this:
>
> <param name="sample" type="text" format="txt" label="Sample label" />
>
> <data format="tabular" name="filename" label="${sample}.genes-results" />
>
> Shaun
>
>
>
>
> Quoting VICTOR M RUOTTI wisc-mail <ruo...@wisc.edu> on Thu, 23 Feb 2012
> 13:06:23 -0600:
>
>> Hi Peter,Thanks for the quick feedback.
>> Sorry if I wasn't clear.
>> Yes, I asking on how to set the labels for a file so instead of
>> <data format="tabular" name="filename" label="genes-results"/>
>> we can have a variable that comes from the interface set by the user so it
>> can be like this?
>> Say the user set the name from a text box to be "S"
>> We can have S saved as $prefix, something like below.
>> <data format="tabular" name="$prefix.filename"
>> label="$prefix.genes-results"/>
>>
>>
>> The files then will be labeled:
>> S.genes-results
>> They still be called dataset_547.dat but labeled based on the user's input?
>>
>>
>> Victor
>>
>>
>> On 02/23/12, Peter Cock
>> wrote:
>>> On Thu, Feb 23, 2012 at 5:46 PM, Victor Ruotti <ruo...@wisc.edu> wrote:
>>> > Hi,
>>> > I hope someone can help me on how to implement this into a wrapper.
>>>
>>> This kind of question is normally redirected to the galaxy-dev list.
>>>
>>> > We would like to add an option so the user can set a sample name
>>> > which then be used for the prefix of the output files names.
>>>
>>> You have no control over the file names at all - Galaxy will assign
>>> something like database/files/000/dataset_547.dat automatically.
>>> The user never sees the file names anyway.
>>>
>>> Are you asking about how to control the description/caption shown
>>> to the user in Galaxy?
>>>
>>> Peter
>>
>>
>>
>> ___________________________________________________________
>> The Galaxy User list should be used for the discussion of
>> Galaxy analysis and other features on the public server
>> at usegalaxy.org. Please keep all replies on the list by
>> using "reply all" in your mail client. For discussion of
>> local Galaxy instances and the Galaxy source code, please
>> use the Galaxy Development list:
>>
>> http://lists.bx.psu.edu/listinfo/galaxy-dev
>>
>> To manage your subscriptions to this and other Galaxy lists,
>> please use the interface at:
>>
>> http://lists.bx.psu.edu/
>>
>>
>
>
>
> --
> The University of Edinburgh is a charitable body, registered in
> Scotland, with registration number SC005336.
>
>
___________________________________________________________
Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
http://lists.bx.psu.edu/
