Mercurial > repos > gga > tripal_expression_add_biomaterial
annotate expression_add_biomaterial.xml @ 2:dff7e67d3073 draft default tip
"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
| author | gga |
|---|---|
| date | Wed, 14 Aug 2019 09:54:23 -0400 |
| parents | 069b2039e193 |
| children |
| rev | line source |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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1 <?xml version="1.0"?> |
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2
dff7e67d3073
"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
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2 <tool id="expression_add_biomaterial" name="Create a biomaterial" version="@WRAPPER_VERSION@.1"> |
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0
0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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3 <description>in Tripal</description> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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4 <macros> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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5 <import>macros.xml</import> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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6 </macros> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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7 <expand macro="requirements"/> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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8 <code file="tripal.py"/> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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9 <command detect_errors="aggressive"><![CDATA[ |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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10 tmp_dir=`mktemp -d -p "@DATA_DIR@"` && chmod a+rx "\${tmp_dir}" |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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11 |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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12 && |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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13 |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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14 cp '${file_path}' "\${tmp_dir}/biomaterial_input" |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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15 |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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16 && |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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17 |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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18 @AUTH@ |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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19 |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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20 tripaille expression add_biomaterial |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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21 '$organism_id' |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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22 "\${tmp_dir}/biomaterial_input" |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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23 '$file_path.extension' |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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24 |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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25 && |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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26 |
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1
069b2039e193
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 35c5eff77b573a66f3611b4906417df9a440c857
gga
parents:
0
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27 echo "Data loaded" > '$results' |
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0
0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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28 ]]></command> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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29 <inputs> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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30 <!-- arguments --> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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31 <param argument="organism_id" type="select" dynamic_options="list_organisms()" label="Organism" /> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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32 <param name="file_path" label="Biomaterial description sheet" argument="file_path" type="data" format="xml,tsv,csv" help="A file describing the biomaterial" /> |
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dff7e67d3073
"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents:
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33 |
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dff7e67d3073
"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit ea279e5b47cf3d5767328d17b0e40e57b0238ea1"
gga
parents:
1
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34 <expand macro="wait_for"/> |
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0
0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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35 </inputs> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
changeset
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36 <outputs> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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37 <data format="txt" name="results"/> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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38 </outputs> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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39 <help> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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40 Add a new biomaterial to the database |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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41 |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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42 @HELP@ |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
diff
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43 </help> |
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0f6c9307d6f3
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/tripal commit 690532f4a8e36a334b2d4e15b832532fc1bb8d39
gga
parents:
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44 </tool> |