Mercurial > repos > iuc > snpeff

annotate snpEff_databases.xml @ 7:7adfd0589f49 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff commit 5c6d595ecbf2e4e39c25662a165c9e475e01ecd1
author iuc
date Tue, 18 Apr 2017 09:33:56 -0400
parents 698ef30638a8
children 68693743661e
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7adfd0589f49 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff commit 5c6d595ecbf2e4e39c25662a165c9e475e01ecd1
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1 <tool id="snpEff_databases" name="SnpEff available databases" version="@WRAPPER_VERSION@.0">
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2 <description></description>
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3 <macros>
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4 <import>snpEff_macros.xml</import>
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5 </macros>
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b24873564cf6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff commit 21b46ae2c90ba7e569b2b3a9eaf938f8dedb2c31
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6 <expand macro="requirements" />
b24873564cf6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff commit 21b46ae2c90ba7e569b2b3a9eaf938f8dedb2c31
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7 <expand macro="stdio" />
b24873564cf6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff commit 21b46ae2c90ba7e569b2b3a9eaf938f8dedb2c31
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8 <expand macro="version_command" />
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7adfd0589f49 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff commit 5c6d595ecbf2e4e39c25662a165c9e475e01ecd1
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9 <command><![CDATA[
7adfd0589f49 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff commit 5c6d595ecbf2e4e39c25662a165c9e475e01ecd1
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10 snpEff databases | grep -v '^---' | sed 's/^Genome/#Genome/' | sed 's/ *//g' > '$snpeff_dbs'
7adfd0589f49 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff commit 5c6d595ecbf2e4e39c25662a165c9e475e01ecd1
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11 ]]></command>
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12 <inputs>
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13 </inputs>
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14 <outputs>
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15 <data format="tabular" name="snpeff_dbs" label="${tool.name} @SNPEFF_VERSION@ available databases" />
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16 </outputs>
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b24873564cf6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff commit 21b46ae2c90ba7e569b2b3a9eaf938f8dedb2c31
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17 <tests>
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18 <test>
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19 <output name="snpeff_dbs">
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20 <assert_contents>
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21 <has_text text="ebola_zaire" />
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22 </assert_contents>
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23 </output>
b24873564cf6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpeff commit 21b46ae2c90ba7e569b2b3a9eaf938f8dedb2c31
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24 </test>
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25 </tests>
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26 <help><![CDATA[
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27 @EXTERNAL_DOCUMENTATION@
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28 ]]></help>
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29 <expand macro="citations" />
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30 </tool>
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