Mercurial > repos > xuebing > bed_clean
changeset 3:4cab9f01eb6f
Deleted selected files
| author | xuebing |
|---|---|
| date | Sat, 31 Mar 2012 13:01:53 -0400 |
| parents | 3ef31e76adf3 |
| children | 5807ee1f8653 |
| files | bedclean.xml |
| diffstat | 1 files changed, 0 insertions(+), 33 deletions(-) [+] |
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--- a/bedclean.xml Sat Mar 31 13:01:25 2012 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,33 +0,0 @@ -<tool id="bedclean" name="clean interval"> - <description>remove off-chromosome lines</description> - <command interpreter="python">bedclean.py $input $genome $output > $log </command> - <inputs> - <param name="input" type="data" format="interval" label="Original interval file"/> - <param name="genome" type="select" label="Select genome"> - <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/mouse.mm9.genome" selected="true">mm9</option> - <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/mouse.mm8.genome">mm8</option> - <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/human.hg18.genome">hg18</option> - <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/human.hg19.genome">hg19</option> - </param> - </inputs> - <outputs> - <data format="input" name="output" label="${tool.name} on ${on_string} (interval)"/> - <data format="txt" name="log" label="${tool.name} on ${on_string} (log)"/> - </outputs> - <help> - -**Description** - -remove lines that are - -1. comment or track name lines - -2. on chr*_random - -3. or have negative coordinates - -4. or the end is larger than chromosome size - - - </help> -</tool>