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_tag_set
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
[email protected] 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
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