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"planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
author devteam
date Mon, 06 Jul 2020 18:13:37 +0000
parents 190735ce4c2b
children
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385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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1 <tool id="substitutions1" name="Fetch substitutions " version="1.0.1">
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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2 <description> from pairwise alignments</description>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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3 <requirements>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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4 <requirement type="package" version="0.8.8">bx-python</requirement>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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5 </requirements>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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6 <command>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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7 python '$__tool_directory__/substitutions.py'
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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8 '$input'
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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9 '$out_file1'
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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10 </command>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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11 <inputs>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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12 <param format="maf" name="input" type="data" label="Select pair-wise alignment data"/>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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13 </inputs>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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14 <outputs>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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15 <data format="tabular" name="out_file1" metadata_source="input"/>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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16 </outputs>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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17 <tests>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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18 <test>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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19 <param name="input" value="Interval2Maf_pairwise_out.maf"/>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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20 <output name="out_file1" file="subs.out"/>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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21 </test>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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22 </tests>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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23 <help>
0
190735ce4c2b Imported from capsule None
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24
190735ce4c2b Imported from capsule None
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25 .. class:: infomark
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26
190735ce4c2b Imported from capsule None
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27 **What it does**
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28
190735ce4c2b Imported from capsule None
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29 This tool takes a pairwise MAF file as input and fetches substitutions per alignment block.
190735ce4c2b Imported from capsule None
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30
190735ce4c2b Imported from capsule None
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31 -----
190735ce4c2b Imported from capsule None
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32
190735ce4c2b Imported from capsule None
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33 .. class:: warningmark
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34
190735ce4c2b Imported from capsule None
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35 **Note**
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36
190735ce4c2b Imported from capsule None
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37 Any block/s not containing exactly two sequences, will be omitted.
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38
1
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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39 </help>
385a5c3d7244 "planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"
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40 </tool>