Mercurial > repos > xuebing > sharplab_interval_analysis

comparison bedclean.xml @ 21:783157ce2817

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author xuebing
date Sat, 31 Mar 2012 11:49:22 -0400
parents 16ba480adf96
children 869c7664e584
comparison
equal deleted inserted replaced
20:16ba480adf96 21:783157ce2817
1 <tool id="bedclean" name="clean interval"> 1 <!DOCTYPE HTML PUBLIC "-//IETF//DTD HTML 2.0//EN">
2 <description>remove off-chromosome lines</description> 2 <html><head>
3 <command interpreter="python">bedclean.py $input $genome $output > $log </command> 3 <title>404 Not Found</title>
4 <inputs> 4 </head><body>
5 <param name="input" type="data" format="interval" label="Original interval file"/> 5 <h1>Not Found</h1>
6 <param name="genome" type="select" label="Select genome"> 6 <p>The requested URL /Xwuxbl/bedclean.xml was not found on this server.</p>
7 <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/mouse.mm9.genome" selected="true">mm9</option> 7 <hr>
8 <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/mouse.mm8.genome">mm8</option> 8 <address>Apache/2.2.14 (Ubuntu) Server at rous.mit.edu Port 80</address>
9 <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/human.hg18.genome">hg18</option> 9 </body></html>
10 <option value="/Users/xuebing/galaxy-dist/tool-data/genome/chrsize/human.hg19.genome">hg19</option>
11 </param>
12 </inputs>
13 <outputs>
14 <data format="input" name="output" label="${tool.name} on ${on_string} (interval)"/>
15 <data format="txt" name="log" label="${tool.name} on ${on_string} (log)"/>
16 </outputs>
17 <help>
18
19 **Description**
20
21 remove lines that are
22
23 1. comment or track name lines
24
25 2. on chr*_random
26
27 3. or have negative coordinates
28
29 4. or the end is larger than chromosome size
30
31
32 </help>
33 </tool>