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annotate macros.xml @ 10:c939b4e5b95d draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/art commit 7e2fa670ffad6bf9cd2411d7807c65db7c7e2f6b"
author iuc
date Wed, 04 Dec 2019 11:18:43 +0000
parents 790128ba3e1b
children 0eea5a166d73
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1 <macros>
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c939b4e5b95d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/art commit 7e2fa670ffad6bf9cd2411d7807c65db7c7e2f6b"
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2 <token name="@WRAPPER_VERSION@">2016.06.05</token>
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4 <xml name="requirements">
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5 <requirements>
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6 <requirement type="package" version="2016.06.05">art</requirement>
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7 <yield/>
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8 </requirements>
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9 </xml>
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10
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11 <xml name="stdio">
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12 <stdio>
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13 <!-- Anything other than zero is an error -->
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14 <exit_code range="1:" />
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15 <exit_code range=":-1" />
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16 <!-- In case the return code has not been set propery check stderr too -->
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17 <regex match="Error:" />
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18 <regex match="Exception:" />
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19 </stdio>
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20 </xml>
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21 <xml name="aln">
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22 <param name="aln" argument="-a" type="boolean" truevalue="-a" falsevalue="" label="Output ALN alignment file" />
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23 </xml>
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24 <xml name="sam">
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25 <param name="sam" argument="-s" type="boolean" truevalue="-s" falsevalue="" label="Output SAM alignment file" />
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26 </xml>
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28 <xml name="rndSeed">
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29 <param name="rndSeed" argument="-r" type="integer" value="-1" optional="true" label="Fixed random seed for the simulation"
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30 help="Use -1 to request a random seed" />
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31 </xml>
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33 <xml name="citation">
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34 <citations>
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35 <citation type="doi">10.1093/bioinformatics/btr708</citation>
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36 </citations>
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37 </xml>
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39 <xml name="amplicon">
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40 <conditional name="amplicon">
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41 <param name="use_amplicon" type="boolean" truevalue="amplicon_true" falsevalue="amplicon_false" label="Run Amplicon Sequencing Simulation" />
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42 <when value="amplicon_true">
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43 <param name="reads_per_amplicon" type="integer" value="0" label="Number of reads per amplicon (for 5'end amplicon sequencing)" />
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44 </when>
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45 <when value="amplicon_false" />
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46 </conditional>
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47 </xml>
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49 <xml name="amplicon_pair">
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50 <conditional name="amplicon">
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51 <param name="use_amplicon" type="boolean" truevalue="amplicon_true" falsevalue="amplicon_false" label="Run Amplicon Sequencing Simulation" />
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52 <when value="amplicon_true">
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53 <param name="read_pairs_per_amplicon" type="integer" value="0" label="Number of read pairs per amplicon (for two-end amplicon sequencing)" />
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54 </when>
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55 <when value="amplicon_false" />
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56 </conditional>
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57 </xml>
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59 <xml name="frag_len_sd">
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60 <param name="fragment_size" type="integer" value="200" label="Average DNA fragment size" />
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61 <param name="fragment_sd" type="integer" value="0" label="Standard deviation of the DNA fragment size" />
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62 </xml>
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63 </macros>