Mercurial > repos > gga > tripal_expression_get_biomaterials
annotate expression_get_biomaterials.xml @ 0:de7d91ce970b draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
| author | gga |
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| date | Mon, 25 Feb 2019 06:33:51 -0500 |
| parents | |
| children | 387ea73ea3cf |
| rev | line source |
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0
de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
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1 <?xml version="1.0"?> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
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2 <tool id="expression_get_biomaterials" name="Get biomaterials" version="@WRAPPER_VERSION@.0"> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
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3 <description>from Tripal</description> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
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4 <macros> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
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5 <import>macros.xml</import> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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6 </macros> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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7 <expand macro="requirements"> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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8 <requirement type="package" version="1.5">jq</requirement> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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9 </expand> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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10 <code file="tripal.py"/> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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11 <command detect_errors="aggressive"><![CDATA[ |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
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12 @AUTH@ |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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13 |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
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14 tripaille expression get_biomaterials |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
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15 |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
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16 #if $provider_id: |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
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17 --provider_id '$provider_id' |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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18 #end if |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
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19 #if $biomaterial_id: |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
changeset
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20 --biomaterial_id '$biomaterial_id' |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
changeset
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21 #end if |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
changeset
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22 #if $organism_id: |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
changeset
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23 --organism_id '$organism_id' |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
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24 #end if |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
changeset
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25 #if $dbxref_id: |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
changeset
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26 --dbxref_id '$dbxref_id' |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
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27 #end if |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
changeset
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28 |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
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29 | jq -S . > $results |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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30 ]]></command> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
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31 <inputs> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
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32 <!-- arguments --> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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33 |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
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34 <!-- options --> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
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35 <param argument="--organism_id" type="select" dynamic_options="list_organisms()" label="Organism" optional="true" /> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
changeset
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36 <param name="provider_id" label="Provider Id" argument="provider_id" type="text" help="Limit query to the selected provider" /> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
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37 <param name="biomaterial_id" label="Biomaterial Id" argument="biomaterial_id" type="text" help="Limit query to the selected biomaterial" /> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
diff
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38 <param name="dbxref_id" label="Dbxref Id" argument="dbxref_id" type="text" help="Limit query to the selected ref" /> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
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39 |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
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40 </inputs> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
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41 <outputs> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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42 <data format="json" name="results"/> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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43 </outputs> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
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44 <help> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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45 List biomaterials in the database |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
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46 |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
parents:
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47 @HELP@ |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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48 </help> |
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de7d91ce970b
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 869e5fd8535deca8325777efcd31c70a514b582a
gga
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49 </tool> |