Mercurial > repos > testtool > geo_data
comparison GRsetFromGEO/GRsetFromGEO.xml @ 39:925945cca45f draft
Uploaded
| author | testtool |
|---|---|
| date | Mon, 24 Apr 2017 09:29:38 -0400 |
| parents | baded0f1630d |
| children | 28416ed17e41 |
comparison
equal
deleted
inserted
replaced
| 38:baded0f1630d | 39:925945cca45f |
|---|---|
| 1 <tool id="GRset" name="GRsetFromGEO" version="1.16.2"> | 1 <tool id="GetGEO" name="GRsetFromGEO" version="1.16.2"> |
| 2 <description> | 2 <description> |
| 3 Reading Illumina methylation array data from GEO | 3 Reading Illumina methylation array data from GEO |
| 4 </description> | 4 </description> |
| 5 <requirements> | 5 <requirements> |
| 6 <requirement type="package" version="3.2.1">R</requirement> | 6 <requirement type="package" version="3.2.1">R</requirement> |
| 7 </requirements> | 7 </requirements> |
| 8 <stdio> | 8 <stdio> |
| 9 <exit_code range="1:" /> | 9 <exit_code range="1:" /> |
| 10 </stdio> | 10 </stdio> |
| 11 <command> Rscript $__tool_directory__/GRsetFromGEO.R "$GSE" "$output" </command> | 11 <command> Rscript $__tool_directory__/GRsetFromGEO.R "$GSE" "$output" </command> |
| 12 <inputs> | 12 <inputs> |
| 13 <param optional="false" format="txt" name="GSE" type="text" value="" label="Enter GSE ID." help="e.g. 'GSE51547'"> | 13 <param name="GSE" type="text" value="" label="Enter GSE ID." help="e.g. 'GSE51547'"/> |
| 14 <validator type="empty_field" message="This field is required."/> | |
| 15 </param> | |
| 16 </inputs> | 14 </inputs> |
| 17 <outputs> | 15 <outputs> |
| 18 <data format="rdata" name="output" label="GRsetFromGEO.rdata"/> | 16 <data format="rdata" name="output" label="GRsetFromGEO.rdata"/> |
| 19 </outputs> | 17 </outputs> |
| 20 <tests> | 18 <tests> |
| 21 <test> | 19 <test> |
| 22 <param name="test"> | 20 <param name="test"> |
| 23 <element name="test-data"/> | 21 <element name="test-data"> |
| 24 <collection type="data"> | 22 <collection type="data"> |
| 25 <element name="GSE" value="GSE51547"/> | 23 <element name="GSE" value="GSE51547"/> |
| 26 </collection> | 24 </collection> |
| 25 </element> | |
| 27 </param> | 26 </param> |
| 28 <output format="rdata" name="output" label="test-data/out.rdata"/> | 27 <output format="rdata" name="output" label="test-data/out.Rdata"/> |
| 29 </test> | 28 </test> |
| 30 </tests> | 29 </tests> |
| 31 <help> | 30 <help> |
| 32 **Reading Illumina methylation array data from GEO** | 31 **Description** |
| 33 </help> | 32 </help> |
| 34 <citations> | 33 <citations> |
| 35 DMR | 34 GEO |
| 36 </citations> | 35 </citations> |
| 37 </tool> | 36 </tool> |