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 |
|---|---|
| date | Thu, 09 Sep 2021 13:04:07 +0000 |
| parents | 3e38c9b3214f |
| children | 7ab85ac5f64b |
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| 39:3e38c9b3214f | 40:a68aa6c1204a |
|---|---|
| 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"/> |