Mercurial > repos > jjohnson > snpeff
annotate snpEff_databases.xml @ 20:7a46f9a72d3c
Fix version on SNPEFF_DATABASE_URL in snpEff_macros.xml
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Tue, 13 Jan 2015 16:01:31 -0600 |
| parents | 36f3c82323e6 |
| children | bb0797deab78 |
| rev | line source |
|---|---|
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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
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1 <tool id="snpEff_databases" name="SnpEff Available Databases" version="@WRAPPER_VERSION@.0"> |
| 16 | 2 <description></description> |
| 3 <expand macro="requirements" /> | |
| 4 <macros> | |
| 5 <import>snpEff_macros.xml</import> | |
| 6 </macros> | |
| 7 <command> | |
|
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
|
8 <![CDATA[ |
| 16 | 9 java -jar \$SNPEFF_JAR_PATH/snpEff.jar databases | grep -v '^---' | sed 's/^Genome/#Genome/' | sed 's/ *//g' > $snpeff_dbs |
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18
36f3c82323e6
Use tool_data_table with key and version columns added to allow for multiple versions in a .loc file
Jim Johnson <jj@umn.edu>
parents:
16
diff
changeset
|
10 ]]> |
| 16 | 11 </command> |
| 12 <inputs> | |
| 13 </inputs> | |
| 14 <outputs> | |
| 15 <data format="tabular" name="snpeff_dbs" label="${tool.name} available databases" /> | |
| 16 </outputs> | |
| 17 <expand macro="stdio" /> | |
| 18 <help> | |
| 19 | |
| 20 @EXTERNAL_DOCUMENTATION@ | |
| 21 | |
| 22 @CITATION_SECTION@ | |
| 23 | |
| 24 </help> | |
| 25 </tool> | |
| 26 |