Mercurial > repos > iuc > data_manager_mothur_toolsuite
annotate data_manager/data_manager_fetch_mothur_reference_data.xml @ 5:f21e77139fb5 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit 09b56ef3e09ad6c5923c88616fea5cbd77d87616
| author | iuc |
|---|---|
| date | Mon, 18 Dec 2023 09:36:45 +0000 |
| parents | 0db22932bc39 |
| children |
| rev | line source |
|---|---|
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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1 <?xml version="1.0"?> |
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5
f21e77139fb5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit 09b56ef3e09ad6c5923c88616fea5cbd77d87616
iuc
parents:
4
diff
changeset
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2 <tool id="data_manager_fetch_mothur_reference_data" name="Fetch Mothur toolsuite reference data" version="0.2.2" tool_type="manage_data" profile="19.05"> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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3 <description>Fetch and install reference data for Mothur</description> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
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changeset
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4 <requirements> |
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4
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
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5 <requirement type="package" version="3.8">python</requirement> |
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0
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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6 </requirements> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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7 <command><![CDATA[ |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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8 python '$__tool_directory__/fetch_mothur_reference_data.py' |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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9 --source=$data_source.data_source_selector |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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10 #if str( $data_source.data_source_selector ) == "mothur_website" |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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11 --datasets '${data_source.ref_data}' |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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12 #elif str( $data_source.data_source_selector ) == "filesystem_paths" |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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13 --description '${data_source.description}' |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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14 --paths '${data_source.paths}' |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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15 #if $data_source.create_symlink |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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16 --link |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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17 #end if |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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18 #end if |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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19 '${out_file}' |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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20 ]]></command> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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21 <inputs> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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22 <conditional name="data_source"> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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23 <param name="data_source_selector" type="select" |
|
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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24 label="Choose the source for the reference data"> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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25 <option value="mothur_website">Mothur website</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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26 <option value="filesystem_paths">Filesystem paths</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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27 </param> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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28 <when value="mothur_website"> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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29 <param name="ref_data" type="select" display="checkboxes" multiple="true" |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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30 label="Reference dataset to install"> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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31 <option value="lookup_titanium">GS FLX Titanium lookup files</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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32 <option value="lookup_gsflx">GSFLX lookup files</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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33 <option value="lookup_gs20">GS20 lookup files</option> |
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4
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
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34 <option value="RDP_v18">RDP reference files (training set version 18)</option> |
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0
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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35 <option value="RDP_v16">RDP reference files (training set version 16)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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36 <option value="RDP_v14">RDP reference files (training set version 14)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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37 <option value="RDP_v10">RDP reference files (training set version 10)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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38 <option value="RDP_v9">RDP reference files (training set version 9)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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39 <option value="RDP_v7">RDP reference files (training set version 7)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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40 <option value="RDP_v6">RDP reference files (training set version 6)</option> |
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4
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
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41 <option value="silva_release_138.1">SILVA reference files (release 138.1)</option> |
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0
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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42 <option value="silva_release_128">SILVA reference files (release 128)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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43 <option value="silva_release_123">SILVA reference files (release 123)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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44 <option value="silva_release_119">SILVA reference files (release 119)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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45 <option value="silva_release_102">SILVA reference files (release 102)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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46 <option value="greengenes_August2013">Greengenes reference taxonomy and alignment v13.8 (August 2013)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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47 <option value="greengenes_May2013">Greengenes reference taxonomy and alignment v13.5 (May 2013)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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48 <option value="greengenes_old">Greengenes reference taxonomy and alignment (pre-May 2013)</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
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49 <option value="greengenes_gold_alignment">Greengenes gold alignment</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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50 <option value="secondary_structure_maps_silva">SILVA secondary structure maps</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
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51 <option value="secondary_structure_maps_greengenes">Greengenes secondary structure maps</option> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
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52 </param> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
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53 </when> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
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54 <when value="filesystem_paths"> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
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55 <param name="description" type="text" value="" size="50" |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
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56 label="Description of the data" optional="False" /> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
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57 <param name="paths" type="text" value="" area="True" size="10x50" |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
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58 label="Paths to upload" optional="False" |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
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59 help="Upload all files pasted in the box. The (recursive) contents of any pasted directories will be added as well." /> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
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60 <param type="boolean" name="create_symlink" truevalue="create_symlink" |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
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61 falsevalue="copy_file" |
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5
f21e77139fb5
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit 09b56ef3e09ad6c5923c88616fea5cbd77d87616
iuc
parents:
4
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62 label="Create symlinks to data instead of copying into Galaxy" checked="true" /> |
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0
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
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63 </when> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
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64 </conditional> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
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65 </inputs> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
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66 <outputs> |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
|
67 <data name="out_file" format="data_manager_json" /> |
|
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
|
68 </outputs> |
|
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
|
69 <tests> |
|
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
|
70 <test> |
|
1
aec831b54a5b
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit 57f71aa633a43ab02bbf05acd0c6d7f406e01f1e"
iuc
parents:
0
diff
changeset
|
71 <param name="data_source|ref_data" value="lookup_titanium"/> |
|
0
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
|
72 <output name="out_file"> |
|
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
|
73 <assert_contents> |
|
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
|
74 <has_text text="GS FLX Titanium" /> |
|
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
|
75 <has_text text="LookUp_Titanium.pat" /> |
|
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
|
76 </assert_contents> |
|
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
|
77 </output> |
|
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
iuc
parents:
diff
changeset
|
78 </test> |
|
2
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
79 <test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
80 <param name="data_source|ref_data" value="lookup_gsflx"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
81 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
82 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
83 <has_text text="GSFLX" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
84 <has_text text="LookUp_GSFLX.pat" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
85 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
86 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
87 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
88 <test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
89 <param name="data_source|ref_data" value="lookup_gs20"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
90 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
91 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
92 <has_text text="GS20" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
93 <has_text text="LookUp_GS20.pat" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
94 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
95 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
96 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
97 <test> |
|
4
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
98 <param name="data_source|ref_data" value="RDP_v18"/> |
|
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
99 <output name="out_file"> |
|
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
100 <assert_contents> |
|
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
101 <has_text text="16S rRNA RDP training set 18" /> |
|
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
102 <has_text text="trainset18_062020.rdp.fasta" /> |
|
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
103 <has_text text="trainset18_062020.rdp.tax" /> |
|
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
104 <has_text text="trainset18_062020.pds.fasta" /> |
|
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
105 <has_text text="trainset18_062020.pds.tax" /> |
|
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
106 </assert_contents> |
|
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
107 </output> |
|
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
108 </test> |
|
0db22932bc39
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit f845716f6ac93500f143a30abef97eaba406344e"
iuc
parents:
2
diff
changeset
|
109 <test> |
|
2
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
110 <param name="data_source|ref_data" value="RDP_v16"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
111 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
112 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
113 <has_text text="16S rRNA RDP training set 16" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
114 <has_text text="trainset16_022016.rdp.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
115 <has_text text="trainset16_022016.rdp.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
116 <has_text text="trainset16_022016.pds.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
117 <has_text text="trainset16_022016.pds.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
118 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
119 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
120 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
121 <test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
122 <param name="data_source|ref_data" value="RDP_v14"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
123 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
124 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
125 <has_text text="16S rRNA RDP training set 14" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
126 <has_text text="trainset14_032015.rdp.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
127 <has_text text="trainset14_032015.rdp.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
128 <has_text text="trainset14_032015.pds.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
129 <has_text text="trainset14_032015.pds.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
130 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
131 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
132 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
133 <test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
134 <param name="data_source|ref_data" value="RDP_v10"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
135 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
136 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
137 <has_text text="16S rRNA RDP training set 10" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
138 <has_text text="trainset10_082014.rdp.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
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|
139 <has_text text="trainset10_082014.rdp.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
140 <has_text text="trainset10_082014.pds.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
141 <has_text text="trainset10_082014.pds.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
142 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
143 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
144 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
145 <test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
146 <param name="data_source|ref_data" value="RDP_v9"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
147 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
148 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
149 <has_text text="16S rRNA PDS training set 9" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
150 <has_text text="trainset9_032012.rdp.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
151 <has_text text="trainset9_032012.rdp.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
152 <has_text text="trainset9_032012.pds.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
153 <has_text text="trainset9_032012.pds.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
154 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
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|
155 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
156 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
157 <test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
158 <param name="data_source|ref_data" value="RDP_v7"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
159 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
160 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
161 <has_text text="16S rRNA RDP training set 7" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
162 <has_text text="FungiLSU_train_1400bp_8506_mod.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
163 <has_text text="FungiLSU_train_1400bp_8506_mod.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
164 <has_text text="trainset7_112011.rdp.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
165 <has_text text="trainset7_112011.rdp.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
166 <has_text text="trainset7_112011.pds.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
167 <has_text text="trainset7_112011.pds.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
168 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
169 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
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|
170 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
171 <test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
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|
172 <param name="data_source|ref_data" value="RDP_v6"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
173 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
174 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
175 <has_text text="RDP training set 6" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
176 <has_text text="trainset6_032010.rdp.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
177 <has_text text="trainset6_032010.rdp.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
178 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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179 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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180 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
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|
181 <!-- SILVA data is to large (>1GB each) for CI testing on github actions |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
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|
182 so we skip them --> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
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|
183 <!--<test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
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|
184 <param name="data_source|ref_data" value="silva_release_128"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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185 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
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186 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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187 <has_text text="SILVA release 128" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
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|
188 <has_text text="silva.nr_v128.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
189 <has_text text="silva.seed_v128.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
190 <has_text text="silva.nr_v128.align" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
191 <has_text text="silva.seed_v128.align" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
192 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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193 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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194 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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195 <test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
196 <param name="data_source|ref_data" value="silva_release_123"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
197 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
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198 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
199 <has_text text="SILVA release 123" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
200 <has_text text="silva.nr_v123.align" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
201 <has_text text="silva.seed_v123.align" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
202 <has_text text="silva.nr_v123.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
203 <has_text text="silva.seed_v123.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
204 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
205 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
206 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
207 <test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
208 <param name="data_source|ref_data" value="silva_release_119"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
209 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
210 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
211 <has_text text="SILVA release 119" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
212 <has_text text="silva.nr_v119.align" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
213 <has_text text="silva.seed_v119.align" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
214 <has_text text="silva.nr_v119.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
215 <has_text text="silva.seed_v119.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
216 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
217 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
218 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
219 <test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
220 <param name="data_source|ref_data" value="silva_release_102"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
221 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
222 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
223 <has_text text="SILVA release 102" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
224 <has_text text="silva.bacteria.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
225 <has_text text="silva.gold.ng.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
226 <has_text text="nogap.archaea.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
227 <has_text text="silva.archaea.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
228 <has_text text="nogap.eukarya.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
229 <has_text text="silva.eukarya.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
230 <has_text text="silva.bacteria.gg.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
231 <has_text text="silva.bacteria.ncbi.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
232 <has_text text="silva.bacteria.rdp.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
233 <has_text text="silva.bacteria.rdp6.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
234 <has_text text="silva.bacteria.silva.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
235 <has_text text="silva.archaea.gg.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
236 <has_text text="silva.archaea.ncbi.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
237 <has_text text="silva.archaea.rdp.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
238 <has_text text="silva.archaea.silva.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
239 <has_text text="silva.eukarya.ncbi.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
240 <has_text text="silva.eukarya.silva.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
241 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
242 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
243 </test>--> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
244 |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
245 <!-- also greengenes is large (400MB-1.5GB) so only tests for older |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
246 (smaller) releases are executed --> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
247 <!--<test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
248 <param name="data_source|ref_data" value="greengenes_August2013"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
249 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
250 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
251 <has_text text="Greengenes August 2013" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
252 <has_text text="gg_13_8_99.gg.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
253 <has_text text="gg_13_8_99.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
254 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
255 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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|
256 </test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
257 <test> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
258 <param name="data_source|ref_data" value="greengenes_May2013"/> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
259 <output name="out_file"> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
260 <assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
261 <has_text text="Greengenes May 2013" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
262 <has_text text="gg_13_5_99.pds.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
263 <has_text text="gg_13_5_99.gg.tax" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
264 <has_text text="gg_13_5_99.align" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
265 <has_text text="gg_13_5_99.fasta" /> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
diff
changeset
|
266 </assert_contents> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
iuc
parents:
1
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changeset
|
267 </output> |
|
0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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268 </test>--> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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269 <test> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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270 <param name="data_source|ref_data" value="greengenes_old"/> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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271 <output name="out_file"> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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272 <assert_contents> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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273 <has_text text="Greengenes pre-May 2013" /> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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274 <has_text text="gg_99.pds.tax" /> |
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0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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275 <has_text text="core_set_aligned.imputed.fasta" /> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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276 <has_text text="gg_99.pds.ng.fasta" /> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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277 </assert_contents> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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278 </output> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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279 </test> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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280 <test> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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281 <param name="data_source|ref_data" value="greengenes_gold_alignment"/> |
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0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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282 <output name="out_file"> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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283 <assert_contents> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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284 <has_text text="Greengenes gold alignment" /> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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285 <has_text text="rRNA16S.gold.NAST_ALIGNED.fasta" /> |
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0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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286 </assert_contents> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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287 </output> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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288 </test> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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289 |
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290 <test> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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291 <param name="data_source|ref_data" value="secondary_structure_maps_silva"/> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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292 <output name="out_file"> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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293 <assert_contents> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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294 <has_text text="SILVA" /> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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295 <has_text text="silva.ss.map" /> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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296 </assert_contents> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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297 </output> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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298 </test> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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299 <test> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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300 <param name="data_source|ref_data" value="secondary_structure_maps_greengenes"/> |
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0e532fc0a0a6
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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301 <output name="out_file"> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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302 <assert_contents> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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303 <has_text text="Greengenes" /> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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304 <has_text text="gg.ss.map" /> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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305 </assert_contents> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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306 </output> |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit b824ec6d0faa5353c5893b5a2a540b8251cae309"
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307 </test> |
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0
ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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308 </tests> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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309 <help> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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310 .. class:: infomark |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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311 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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312 **What it does** |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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313 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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314 This tool fetches reference data used by the mothur_toolsuite set of Galaxy tools, |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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315 and populates the appropriate data tables. |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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316 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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317 The reference data can be imported directly from the Mothur website, or from files |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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318 in a server directory. |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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319 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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320 Files are added to the following data tables based on file extension: |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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321 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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322 * **mothur_lookup**: for .pat files |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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323 * **mothur_aligndb**: for .fasta files |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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324 * **mothur_map**: for .map files |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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325 * **mothur_taxonomy**: for .tax files |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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326 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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327 ------ |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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328 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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329 **Importing from Mothur website** |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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330 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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331 Reference data sets provided by the Mothur developers can be downloaded from the |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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332 Mothur website. See the following pages to get more information about each dataset: |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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333 |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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334 * Lookup data: http://www.mothur.org/wiki/Lookup_files |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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335 * RDP reference data: http://www.mothur.org/wiki/RDP_reference_files |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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336 * Silva data: http://www.mothur.org/wiki/Silva_reference_files |
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ab7a7e798c34
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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337 * Greengenes data: http://www.mothur.org/wiki/Greengenes-formatted_databases |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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338 * Secondary structure maps: http://www.mothur.org/wiki/Secondary_structure_map |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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339 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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340 **Importing from file system paths** |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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341 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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342 If reference data is already on the server filesystem then use this option to |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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343 import it into the Mothur data tables. The appropriate data tables are determined |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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344 based on the file extensions. |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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345 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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346 Optionally a description can be added which will appear next to the base of the |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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347 reference file name in the data table entry. |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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348 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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349 ------ |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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350 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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351 .. class:: warningmark |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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352 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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353 **A note on Lane masks** |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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354 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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355 Lane mask data is also available via the Mothur website (files ending in ".filter"): |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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356 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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357 * http://www.mothur.org/wiki/Lane_mask |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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358 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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359 but as these data are not currently used in the toolsuite, they cannot be imported |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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360 using this data manager. |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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361 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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362 </help> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_mothur_toolsuite/ commit c1b936b54b7133106b3181df1e104986613a5bea
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363 </tool> |