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annotate macros.xml @ 7:3af174b9fb79 draft default tip

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit b5aa6e762b55a9793dc7514efcda05eb2ccd529c"
author iuc
date Sat, 25 Sep 2021 18:21:07 +0000
parents f000245e823b
children
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9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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1 <?xml version="1.0"?>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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2 <macros>
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3 <token name="@TOOL_VERSION@">0.4.3</token>
3af174b9fb79 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit b5aa6e762b55a9793dc7514efcda05eb2ccd529c"
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4 <token name="@VERSION_SUFFIX@">1</token>
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f000245e823b "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit 0502309b17c070efd9c8ab28e538279055835a45"
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5 <token name="@PROFILE@">20.05</token>
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6 <xml name="requirements">
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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7 <requirements>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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8 <requirement type="package" version="@TOOL_VERSION@">slamdunk</requirement>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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9 </requirements>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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10 </xml>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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11 <xml name="reference_files">
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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12 <conditional name="reference_source">
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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13 <param name="reference_source_selector" type="select" label="Reference genome FASTA file" help="Select a built-in FASTA file (if available) or one from the history">
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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14 <option value="cached">Use a built-in FASTA</option>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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15 <option value="history">Use a FASTA from history</option>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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16 </param>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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17 <when value="cached">
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18 <param name="ref_file" argument="--reference" type="select" label="Use built-in FASTA" help="Select genome from the list">
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19 <options from_data_table="all_fasta">
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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20 <filter type="sort_by" column="2" />
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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21 <validator type="no_options" message="No reference genomes are available" />
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22 </options>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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23 <validator type="no_options" message="A built-in reference genome is not available for the build associated with the selected input file"/>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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24 </param>
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25 </when>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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26 <when value="history">
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27 <param name="ref_file" argument="--reference" type="data" format="fasta" label="Use the following dataset as the FASTA" help="You can upload a FASTA sequence to the history and use it as reference" />
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28 </when>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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29 </conditional>
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30 <param argument="--reference" type="data" format="bed" label="Reference 3'UTRs BED file" />
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31 </xml>
9dfecde9fa06 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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32 <xml name="citations">
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33 <citation type="doi">
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34 10.1186/s12859-019-2849-7
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35 </citation>
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36 </xml>
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37 </macros>