Hi guys,
I am trying to write a tool with a conditional and for whatever reason the
results, well aren't any results. It just says 'no seek', which totally
bewildering. Does anyone know what this means?
Thank you,
Calvin
my xml file:
<tool id="quikr" name="Quikr">
<description>Classify with Quikr</description>
<command>
# if $qdb.dbtype == "user"
quikr -v -k 0 -s ${qdb.dbname} -i ${input} -o ${output}
# else
quikr -v -k 0 -s "${qdb.dbname}${qdb.dbsize}".mat.gz -i ${input} -o
${output}
# end if
</command>
<inputs>
<param name="input" type="data" format="fasta" label="input fasta
file"/>
<conditional name="qdb">
<param name="dbtype" type="select" label="Genomes to score against">
<option value="default" selected="true">Pretrained
databases</option>
<option value="user">Custom trained quikr database</option>
</param>
<when value="user">
<param name="dbname" type="data" format="quikrdb" label="custom
trained database"/>
<param name="dbsize" type="hidden" label="mer size">
<option value="5">5</option>
</param>
</when>
<when value="default">
<param name="dbname" type="select" label="Choose database">
<option value="/data/galaxy/data/gg91">Green Genes 91%</option>
<option value="/data/galaxy/data/gg94">Green Genes 94%</option>
<option value="/data/galaxy/data/rdp">RDP Trained Set</option>
</param>
<param name="dbsize" type="select" label="mer size">
<option value="5">5</option>
<option value="6">6</option>
<option value="7">7</option>
<option value="8">8</option>
</param>
</when>
</conditional>
<param name="lambda" type="integer" size="6" value="10000"
label="lambda" help="default 10000"/>
</inputs>
<outputs>
<data name="output" format="tabular" />
</outputs>
<help>
</help>
</tool>
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