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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/mash commit ff9564c2e6924fab084b6e02a3a196650041636a
author iuc
date Thu, 16 Oct 2025 16:43:41 +0000
parents 8f32dcfde5d9
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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1 <tool id="mash_paste" name="mash paste" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@">
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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2 <description>Create a single sketch file from multiple sketch files.</description>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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3 <macros>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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4 <import>macros.xml</import>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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5 </macros>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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6 <expand macro="xref"/>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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7 <expand macro="requirements"/>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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8 <expand macro="version_command"/>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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9 <command detect_errors="exit_code"><![CDATA[
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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10 #set $list_inputs = []
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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11 #for $file in $msh_files
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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12 ln -s $file "${file.element_identifier}.${file.ext}" &&
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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13 $list_inputs.append("%s.%s" % ($file.element_identifier, $file.ext))
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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14 #end for
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
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15
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
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16 #set list_files=' '.join([ '\'%s\'' % $input for $input in $list_inputs])
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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17 mash paste result.msh $list_files &&
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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18 mv result.msh $output
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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19 ]]></command>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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20 <inputs>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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21 <param name="msh_files" type="data" format='msh' multiple="true" label="Sketch files to merge"/>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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22 </inputs>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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23 <outputs>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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24 <data name="output" format="msh" label="${tool.name} on ${on_string}: Output Sketch File"/>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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25 </outputs>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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26 <tests>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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27 <test expect_num_outputs="1">
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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28 <param name="msh_files" value="test_01_mash_sketch.msh,test_02_mash_sketch.msh"/>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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29 <output name="output" file="res_paste.msh" compare="sim_size" />
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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30 </test>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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31 </tests>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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32 <help><![CDATA[
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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33 Create a single sketch file from multiple sketch files.
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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34 ]]></help>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
iuc
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35 <expand macro="citations"/>
8f32dcfde5d9 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mash commit 344ee746d6e93c583331c0f74d234ab200a8ce43
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36 </tool>