Hi, I would like to write my xmls in a way that reduces the amount of effort a casual guest user would require to try a tool from my local galaxy install. For example, in the remove_beginning tool I would like to set it up in a way that I could tell someone to do this: 1) go to the website that has my local galaxy install 2) click on the 'remove_beginning' tool from the left panel of the galaxy page 3) click on the 'execute' button to see how the tool works But right now they would have to somehow import data before they 'execute' the tool. In comparison, the Mobyle interface includes a "use example data" link corresponding to step 2.5) click the 'use example data' link near each field that requires data I am not an experienced galaxy user or administrator and I'm just wondering if there is anything like this in galaxy to make it simpler for casual users who are curious to see what the tool does with default data but not curious enough to go through multiple steps to import some example data. Alex On Thu, May 10, 2012 at 5:57 PM, Jennifer Jackson <jen@bx.psu.edu> wrote:

Hello Alex,

Do you mean a default dataset (that a user can modify or never modify) or default form entry data?

If default form entry data, then you can use the <param> tag set with "value", as described in this wiki: http://wiki.g2.bx.psu.edu/Admin/Tools/Tool%20Config%20Syntax#A.3Cparam.3E_ta...

Looking at existing tools that have default form data can provide good examples. For instance, the tool:

galaxy-central / tools / filters / remove_beginning.xml

See the content in <param  value="X"  /> line 5 below

 1  <tool id="Remove beginning1" name="Remove beginning">  2    <description>of a file</description>  3    <command interpreter="perl">remove_beginning.pl $input $num_lines $out_file1</command>  4    <inputs>  5      <param name="num_lines" size="5" type="integer" value="1" label="Remove first" help="lines"/>  6      <param format="txt" name="input" type="data" label="from"/>  7    </inputs>  8    <outputs>  9      <data format="input" name="out_file1" metadata_source="input"/> 10    </outputs> 12    <tests> 13      <test> 14       <param name="num_lines" value="5"/> 15       <param name="input" value="1.bed"/> 16        <output name="out_file1" file="eq-removebeginning.dat"/> 17      </test> 18    </tests> 19    <help>

Hopefully this helps. If not, write back, or even better, add in some clarification and post a brand new question/thread to the galaxy-dev@bx.psu.edu mailing list (the best list for development questions): http://wiki.g2.bx.psu.edu/Support#Mailing_Lists

Jen Galaxy team

On 5/10/12 12:12 PM, alex wrote:

...

Hi,

Is there a way to specify default data for a tool, maybe inside an xml?

Alex ___________________________________________________________ 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:

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