Mercurial > repos > xuebing > sharplabtool
comparison bedclean.xml @ 12:2f4ea569f048
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| author | xuebing |
|---|---|
| date | Sat, 10 Mar 2012 08:10:44 -0500 |
| parents | b7f1d9f8f3bc |
| children |
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| 11:b7f1d9f8f3bc | 12:2f4ea569f048 |
|---|---|
| 1 <tool id="bedclean" name="clean interval"> | 1 <tool id="bedclean" name="clean interval"> |
| 2 <description>remove off-chromosome lines</description> | 2 <description>remove off-chromosome lines</description> |
| 3 <command interpreter="python">bedclean.py $input $genome $output > $log </command> | 3 <command interpreter="python">bedClean.py $input $genome $output > $log </command> |
| 4 <inputs> | 4 <inputs> |
| 5 <param name="input" type="data" format="interval" label="Original interval file"/> | 5 <param name="input" type="data" format="interval" label="Original interval file"/> |
| 6 <param name="genome" type="select" label="Select genome"> | 6 <param name="genome" type="select" label="Select genome"> |
| 7 <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/mouse.mm9.genome" selected="true">mm9</option> | 7 <option value="/media/data/Research/Project/galaxy/data/chrsize/mouse.mm9.genome" selected="true">mm9</option> |
| 8 <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/mouse.mm8.genome">mm8</option> | 8 <option value="/media/data/Research/Project/galaxy/data/chrsize/mouse.mm8.genome">mm8</option> |
| 9 <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/human.hg18.genome">hg18</option> | 9 <option value="/media/data/Research/Project/galaxy/data/chrsize/human.hg18.genome">hg18</option> |
| 10 <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/human.hg19.genome">hg19</option> | 10 <option value="/media/data/Research/Project/galaxy/data/chrsize/human.hg19.genome">hg19</option> |
| 11 </param> | 11 </param> |
| 12 </inputs> | 12 </inputs> |
| 13 <outputs> | 13 <outputs> |
| 14 <data format="input" name="output" label="${tool.name} on ${on_string} (interval)"/> | 14 <data format="input" name="output" label="${tool.name} on ${on_string} (interval)"/> |
| 15 <data format="txt" name="log" label="${tool.name} on ${on_string} (log)"/> | 15 <data format="txt" name="log" label="${tool.name} on ${on_string} (log)"/> |