Mercurial > repos > iuc > bedtools
comparison nucBed.xml @ 40:a68aa6c1204a draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 29bd1be4655cd26052095a49a8e188d2572b703b"
author | iuc |
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date | Thu, 09 Sep 2021 13:04:07 +0000 |
parents | 3e38c9b3214f |
children | 7ab85ac5f64b |
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39:3e38c9b3214f | 40:a68aa6c1204a |
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5 <import>macros.xml</import> | 5 <import>macros.xml</import> |
6 </macros> | 6 </macros> |
7 <expand macro="requirements" /> | 7 <expand macro="requirements" /> |
8 <expand macro="stdio" /> | 8 <expand macro="stdio" /> |
9 <command><![CDATA[ | 9 <command><![CDATA[ |
10 ln -s '$fasta' 'input.fasta' && | |
10 bedtools nuc | 11 bedtools nuc |
11 $s | 12 $s |
12 $seq | 13 $seq |
13 #if str($pattern): | 14 #if str($pattern): |
14 -pattern '$pattern' | 15 -pattern '$pattern' |
15 $C | 16 $C |
16 #end if | 17 #end if |
17 -fi '$fasta' | 18 -fi 'input.fasta' |
18 -bed '$input' | 19 -bed '$input' |
19 > '$output' | 20 > '$output' |
20 ]]></command> | 21 ]]></command> |
21 <inputs> | 22 <inputs> |
22 <param name="input" argument="-bed" type="data" format="@STD_BEDTOOLS_INPUTS@" label="@STD_BEDTOOLS_INPUT_LABEL@ file"/> | 23 <param name="input" argument="-bed" type="data" format="@STD_BEDTOOLS_INPUTS@" label="@STD_BEDTOOLS_INPUT_LABEL@ file"/> |