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annotate macros.xml @ 4:fe3fe68b09a7 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit ea4590f61d7764eb431986c16785e599191615a6
author iuc
date Fri, 24 May 2019 13:30:30 -0400
parents 57bf9a0d49a5
children 8b62f89924a7
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57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
iuc
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1 <?xml version="1.0"?>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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2 <macros>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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3 <token name="@TOOL_VERSION@">0.3.3</token>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
iuc
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4 <xml name="requirements">
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
iuc
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5 <requirements>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
iuc
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6 <requirement type="package" version="@TOOL_VERSION@">slamdunk</requirement>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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7 </requirements>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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8 </xml>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
iuc
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9 <xml name="reference_files">
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
iuc
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10 <conditional name="reference_source">
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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11 <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">
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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12 <option value="cached">Use a built-in FASTA</option>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
iuc
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13 <option value="history">Use a FASTA from history</option>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
iuc
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14 </param>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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15 <when value="cached">
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
iuc
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16 <param name="ref_file" type="select" label="Use built-in FASTA" help="Select genome from the list">
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
iuc
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17 <options from_data_table="all_fasta">
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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18 <filter type="sort_by" column="2" />
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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19 <validator type="no_options" message="No reference genomes are available" />
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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20 </options>
57bf9a0d49a5 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="A built-in reference genome is not available for the build associated with the selected input file"/>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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22 </param>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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23 </when>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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24 <when value="history">
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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25 <param name="ref_file" 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" />
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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26 </when>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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27 </conditional>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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28 <param name="Reference" type="data" format="bed" label="Reference 3'UTRs BED file" />
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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29 </xml>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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30 <xml name="citations">
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fe3fe68b09a7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit ea4590f61d7764eb431986c16785e599191615a6
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31 <citation type="doi">
fe3fe68b09a7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit ea4590f61d7764eb431986c16785e599191615a6
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32 10.1186/s12859-019-2849-7
1
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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33 </citation>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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34 </xml>
57bf9a0d49a5 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit dbd131d3a162e9d70c305148d305680acb549e93
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35 </macros>