Yes, for example:
https://github.com/peterjc/pico_galaxy/blob/master/tools/seq_filter_by_id/seq_filter_by_id.xml

Peter

On Wed, Apr 29, 2015 at 8:23 AM, Hans-Rudolf Hotz <h...@fmi.ch> wrote:
> Hi Ryan
>
> I guess you can work with filters, see:
>
> https://wiki.galaxyproject.org/Admin/Tools/ToolConfigSyntax#A.3Cdata.3E_tag_set
>
>
>
> Regards, Hans-Rudolf
>
>
>
>
> On 04/28/2015 06:28 PM, Ryan G wrote:
>>
>> Hi - I'm implementing a new tool in Galaxy.  The tool either takes 1 or
>> 2 fastq files as input.  If 1 file is specified, then 1 output file is
>> created.  If 2 inputs are specified, then 2 output files will be
>> created.  How do I specify the optional output parameter?
>>
>> I'm using this as my tool description right now:
>>
>> <tool id="subsample_fastq" name="Random subsample">
>>    <description>a fastq file</description>
>>    <command>
>>      ### Check for optional input file
>>      #if strlen($fq2) > 0:
>>        RandomSubFq -w $readsRequested -i "$fq1" -i "$fq2" -o $out1 -o
>> $out2
>>      #else:
>>        RandomSubFq -w $readsRequested -i "$fq1" -o $out1
>>      #end if
>>    </command>
>>    <inputs>
>>      <param name="fq1" type="data" format="fastq" label="FASTQ file (1st
>> of Pair)"/>
>>      <param name="fq2" type="data" format="fastq" label="FASTQ file (2nd
>> of Pair)" optional="true"/>
>>      <param name="readsRequested" type="integer" min="1" value="100000"
>> label="Total number of reads you want from the file"/>
>>    </inputs>
>>    <outputs>
>>      <data format="fastq" name="out1" />
>>      <data format="fastq" name="out2" />
>>    </outputs>
>>    <stdio>
>>      <exit_code range="-1" level="fatal" description="RandomSubFq failed"
>> />
>>    </stdio>
>>
>>
>>
>>
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