Mercurial > repos > testtool > get_geo
changeset 3:0656483350d5 draft
Uploaded
| author | testtool |
|---|---|
| date | Wed, 18 Jan 2017 10:13:33 -0500 |
| parents | 556ebcea6989 |
| children | ca97c8cbab11 |
| files | getGEO.xml |
| diffstat | 1 files changed, 39 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/getGEO.xml Wed Jan 18 10:13:33 2017 -0500 @@ -0,0 +1,39 @@ +<tool id="GEO" name="getGEO" version="1.16.2"> + <requirements> + <requirement name="package_r_3_2_1" type="package" version="3.2.1">R</requirement> +</requirements> +<stdio> + <exit_code range="1:" /> +</stdio> + <command> Rscript $__tool_directory__/getGEO.R "$GSMTable" "$MetaTable" "$IlmnTable" "$gmTable"</command> + <inputs> + <param optional="false" format="csv" name="GSMTable" type="data" value="" help="GEO table of data." label="[required] GSMTable"> + <validator type="empty_field" message="This field is required."/> + </param> + </inputs> + <outputs> + <data format="csv" name="MetaTable" label="MetaData.csv"/> + <data format="csv" name="IlmnTable" label="IlmnData.csv"/> + <data format="csv" name="gmTable" label="gmSet.csv"/> + </outputs> + <tests> + <test> + <param name="test"> + <element name="test-data"> + <collection type="data"> + <element name="GSMTable" value="test-data/input.csv" /> + </collection> + </element> + </param> + <output format="csv" name="MetaTable" label="test-data/MetaTable.csv"/> + <output format="csv" name="IlmnTable" label="test-data/IlmnTable.csv"/> + <output format="csv" name="gmTable" label="test-data/gmTable.csv"/> + </test> + </tests> + <help> +**Description** +</help> +<citations> +GEO +</citations> +</tool>