Mercurial > repos > jjohnson > snpeff
annotate snpEff_databases.xml @ 22:bb0797deab78 draft
Uploaded
| author | jjohnson |
|---|---|
| date | Wed, 09 Dec 2015 10:20:13 -0500 |
| parents | 36f3c82323e6 |
| children | 924af057bbca |
| rev | line source |
|---|---|
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36f3c82323e6
Use tool_data_table with key and version columns added to allow for multiple versions in a .loc file
Jim Johnson <jj@umn.edu>
parents:
16
diff
changeset
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1 <tool id="snpEff_databases" name="SnpEff Available Databases" version="@WRAPPER_VERSION@.0"> |
| 16 | 2 <description></description> |
| 3 <macros> | |
| 4 <import>snpEff_macros.xml</import> | |
| 5 </macros> | |
| 22 | 6 <expand macro="requirements" /> |
| 7 <expand macro="stdio" /> | |
| 8 <expand macro="version_command" /> | |
| 16 | 9 <command> |
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36f3c82323e6
Use tool_data_table with key and version columns added to allow for multiple versions in a .loc file
Jim Johnson <jj@umn.edu>
parents:
16
diff
changeset
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10 <![CDATA[ |
| 22 | 11 java -jar \$SNPEFF_JAR_PATH/snpEff.jar databases | grep -v '^---' | sed 's/^Genome/#Genome/' | sed 's/ *//g' > $snpeff_dbs |
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18
36f3c82323e6
Use tool_data_table with key and version columns added to allow for multiple versions in a .loc file
Jim Johnson <jj@umn.edu>
parents:
16
diff
changeset
|
12 ]]> |
| 16 | 13 </command> |
| 14 <inputs> | |
| 15 </inputs> | |
| 16 <outputs> | |
| 22 | 17 <data format="tabular" name="snpeff_dbs" label="${tool.name} @SNPEFF_VERSION@ available databases" /> |
| 16 | 18 </outputs> |
| 22 | 19 <help><![CDATA[ |
| 16 | 20 |
| 21 @EXTERNAL_DOCUMENTATION@ | |
| 22 | |
| 23 @CITATION_SECTION@ | |
| 24 | |
| 22 | 25 ]]> |
| 16 | 26 </help> |
| 27 </tool> | |
| 28 |