Mercurial > repos > iuc > snpsift_genesets
annotate snpSift_macros.xml @ 1:0af41de4eda1 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpsift/snpsift commit 21b46ae2c90ba7e569b2b3a9eaf938f8dedb2c31
| author | iuc |
|---|---|
| date | Tue, 07 Jun 2016 10:05:20 -0400 |
| parents | 9e6fa49c1077 |
| children | 9ba6e2c298ab |
| rev | line source |
|---|---|
| 0 | 1 <macros> |
| 2 <xml name="requirements"> | |
| 3 <requirements> | |
|
1
0af41de4eda1
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpsift/snpsift commit 21b46ae2c90ba7e569b2b3a9eaf938f8dedb2c31
iuc
parents:
0
diff
changeset
|
4 <requirement type="package" version="4.1">snpEff</requirement> |
| 0 | 5 </requirements> |
| 6 </xml> | |
| 7 <xml name="stdio"> | |
| 8 <stdio> | |
| 9 <exit_code range=":-1" level="fatal" description="Error: Cannot open file" /> | |
| 10 <exit_code range="1:" level="fatal" description="Error" /> | |
| 11 </stdio> | |
| 12 </xml> | |
|
1
0af41de4eda1
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpsift/snpsift commit 21b46ae2c90ba7e569b2b3a9eaf938f8dedb2c31
iuc
parents:
0
diff
changeset
|
13 <xml name="version_command"> |
|
0af41de4eda1
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpsift/snpsift commit 21b46ae2c90ba7e569b2b3a9eaf938f8dedb2c31
iuc
parents:
0
diff
changeset
|
14 <version_command>java -jar "$SNPEFF_JAR_PATH/snpEff.jar" -version</version_command> |
|
0af41de4eda1
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpsift/snpsift commit 21b46ae2c90ba7e569b2b3a9eaf938f8dedb2c31
iuc
parents:
0
diff
changeset
|
15 </xml> |
|
0af41de4eda1
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpsift/snpsift commit 21b46ae2c90ba7e569b2b3a9eaf938f8dedb2c31
iuc
parents:
0
diff
changeset
|
16 <token name="@WRAPPER_VERSION@">4.1</token> |
| 0 | 17 <token name="@EXTERNAL_DOCUMENTATION@"> |
| 18 | |
| 19 For details about this tool, please go to: | |
| 20 http://snpeff.sourceforge.net/SnpEff_manual.html | |
| 21 | |
| 22 </token> | |
| 23 <token name="@CITATION_SECTION@">------ | |
| 24 | |
| 25 **Citation** | |
| 26 | |
| 27 For the underlying tool, please cite the following two publications: | |
| 28 | |
| 29 SnpSift citation: | |
| 30 "Using Drosophila melanogaster as a model for genotoxic chemical mutational studies with a new program, SnpSift", Cingolani, P., et. al., Frontiers in Genetics, 3:35, 2012. | |
| 31 | |
| 32 </token> | |
| 33 <xml name="citations"> | |
| 34 <citations> | |
| 35 <citation type="doi">10.3389/fgene.2012.00035</citation> | |
| 36 <yield /> | |
| 37 </citations> | |
| 38 </xml> | |
| 39 </macros> |