Mercurial > repos > iuc > bedtools

comparison fisherBed.xml @ 17:44867b59dbf2 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit cf7a3674bc833bbd5fdd2ad02e724935ffc7a174
author iuc
date Tue, 05 Sep 2017 15:40:14 -0400
parents 7308cc546a36
children a8eabd2838f6
comparison
equal deleted inserted replaced
16:e0cec48a4695 17:44867b59dbf2
1 <tool id="bedtools_fisher" name="FisherBed" version="@WRAPPER_VERSION@.0"> 1 <tool id="bedtools_fisher" name="FisherBed" version="@WRAPPER_VERSION@.1">
2 <description>calculate Fisher statistic between two feature files</description> 2 <description>calculate Fisher statistic between two feature files</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" />
11 $strand 11 $strand
12 $split 12 $split
13 -a '$inputA' 13 -a '$inputA'
14 -b '$inputB' 14 -b '$inputB'
15 -f $overlap 15 -f $overlap
16 -g $genome 16 -g @GENOME_FILE@
17 $reciprocal 17 $reciprocal
18 $m 18 $m
19 > '$output' 19 > '$output'
20 ]]> 20 ]]>
21 </command> 21 </command>
22 <inputs> 22 <inputs>
23 <param format="bed,vcf,gff,gff3" name="inputA" type="data" label="BED/VCF/GFF file"/> 23 <param format="bed,vcf,gff,gff3" name="inputA" type="data" label="BED/VCF/GFF file"/>
24 <param format="bed,gff,vcf,gff3" name="inputB" type="data" label="BED/VCF/GFF file"/> 24 <param format="bed,gff,vcf,gff3" name="inputB" type="data" label="BED/VCF/GFF file"/>
25 <expand macro="genome" /> 25 <expand macro="input_conditional_genome_file" />
26 <expand macro="strand2" /> 26 <expand macro="strand2" />
27 <expand macro="split" /> 27 <expand macro="split" />
28 <expand macro="overlap" /> 28 <expand macro="overlap" />
29 <expand macro="reciprocal" /> 29 <expand macro="reciprocal" />
30 <param name="m" type="boolean" checked="False" truevalue="-m" falsevalue="" 30 <param name="m" type="boolean" checked="False" truevalue="-m" falsevalue=""
35 </outputs> 35 </outputs>
36 <tests> 36 <tests>
37 <test> 37 <test>
38 <param name="inputA" value="fisherBed1.bed" ftype="bed" /> 38 <param name="inputA" value="fisherBed1.bed" ftype="bed" />
39 <param name="inputB" value="fisherBed2.bed" ftype="bed" /> 39 <param name="inputB" value="fisherBed2.bed" ftype="bed" />
40 <param name="genome_file_opts_selector" value="hist" />
40 <param name="genome" value="fisherBed.len" ftype="tabular" /> 41 <param name="genome" value="fisherBed.len" ftype="tabular" />
41 <output name="output" file="fisherBed_result1.bed" ftype="bed" /> 42 <output name="output" file="fisherBed_result1.bed" ftype="bed" />
42 </test> 43 </test>
43 </tests> 44 </tests>
44 <help> 45 <help>