Mercurial > repos > iuc > bedtools
comparison intersectBed.xml @ 28:6283d16e40ed draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 393e1fef41cfb7e28005a98fd5043a3f42347686
author | iuc |
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date | Sun, 24 Jun 2018 11:52:38 -0400 |
parents | 95a3b2c25bd1 |
children | 4f7a5ccd2ae9 |
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27:a33db97b220c | 28:6283d16e40ed |
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1 <tool id="bedtools_intersectbed" name="Intersect intervals" version="@WRAPPER_VERSION@.1"> | 1 <tool id="bedtools_intersectbed" name="Intersect intervals" version="@WRAPPER_VERSION@.2"> |
2 <description>find overlapping intervals in various ways</description> | 2 <description>find overlapping intervals in various ways</description> |
3 <macros> | 3 <macros> |
4 <import>macros.xml</import> | 4 <import>macros.xml</import> |
5 </macros> | 5 </macros> |
6 <expand macro="requirements" /> | 6 <expand macro="requirements" /> |
7 <expand macro="stdio" /> | 7 <expand macro="stdio" /> |
8 <command> | 8 <command> |
9 <![CDATA[ | 9 <![CDATA[ |
10 #set modes = ' '.join( str($overlap_mode).split(',') ) | 10 #set modes = ' '.join( str($overlap_mode).split(',') ) |
11 | |
12 #if $modes == "None": | |
13 #set modes = '' | |
14 #end if | |
11 | 15 |
12 bedtools intersect | 16 bedtools intersect |
13 #if $inputA.is_of_type('bam'): | 17 #if $inputA.is_of_type('bam'): |
14 -abam '${inputA}' | 18 -abam '${inputA}' |
15 #else: | 19 #else: |