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5
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1 <tool id="fastabox" name="FASTA from text" version="1.0.0">
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2 <description>Simple creation of FASTA file from text area field.</description>
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3 <requirements>
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4 <requirement type="set_environment">INTERPROSCAN_SCRIPT_PATH</requirement>
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5 </requirements>
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6
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7 <command>
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8 cp $fasta_file $output
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9 </command>
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10
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11 <inputs>
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12 <param name="dataset_label" type="text" size="60" label="Dataset label"/>
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6
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13 <param name="url_paste" type="text" area="True" size="20x60" label="FASTA formatted sequence(s)">
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14 <sanitizer>
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15 <valid initial="string.printable">
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16 <remove value="'"/>
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17 </valid>
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18 </sanitizer>
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19 </param>
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20 </inputs>
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21
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22 <outputs>
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23 <data format="fasta" name="output" label="${dataset_label}"/>
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24 </outputs>
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25
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26 <configfiles>
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27 <configfile name="fasta_file">
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28 $url_paste
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29 </configfile>
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30 </configfiles>
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31
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32 <requirements>
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33 </requirements>
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34
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35 <help><![CDATA[
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36 **What it does**
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37
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38 Simply creates a FASTA dataset from a text input field. This is useful for a workflow where a tool needs a FASTA input,
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39 and the user should not be required to get the dataset into their history by something more complicated
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40 than direct input.
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41
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42
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43 #####
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44 Input
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45 #####
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46
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47 Required is a FASTA formatted text containing protein or nucleotide sequences.
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48
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49
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50 ######
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51 Output
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52 ######
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53
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54 A FASTA file.
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55 ]]>
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56 </help>
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57 </tool>
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