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comparison fastqe.xml @ 4:ecb38e2798cd draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqe commit 8a7ebdd86f360d3f1a0ab3eb95aed7603299ab8b"
author iuc
date Mon, 05 Jul 2021 13:00:36 +0000
parents 819b8c1657d5
children 89d299153577
comparison
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3:819b8c1657d5 4:ecb38e2798cd
1 <tool id="fastqe" name="FASTQE" version="0.2.6+galaxy1"> 1 <tool id="fastqe" name="FASTQE" version="0.2.6+galaxy2">
2 <description>visualize fastq files with emoji's 🧬😎</description> 2 <description>visualize fastq files with emoji's 🧬😎</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="0.2.6">fastqe</requirement> 4 <requirement type="package" version="0.2.6">fastqe</requirement>
5 <requirement type="package" version="4.7">sed</requirement> 5 <requirement type="package" version="4.7">sed</requirement>
6 </requirements> 6 </requirements>
12 #for $i in $input 12 #for $i in $input
13 #set identifier = re.sub('[^\w\-\s.]', '_', $i.element_identifier) 13 #set identifier = re.sub('[^\w\-\s.]', '_', $i.element_identifier)
14 #if $i.ext.endswith(".gz") and not $identifier.endswith(".gz") 14 #if $i.ext.endswith(".gz") and not $identifier.endswith(".gz")
15 #set identifier+=".gz" 15 #set identifier+=".gz"
16 #end if 16 #end if
17 ln -s $i inputs/$identifier && 17 ln -s $i 'inputs/$identifier' &&
18 #end for 18 #end for
19 19
20 echo "<html><head><title>FASTQE Report 🤔</title></head><body><h1>FASTQE Report 🤔</h1>" > '$output' && 20 echo "<html><head><title>FASTQE Report 🤔</title></head><body><h1>FASTQE Report 🤔</h1>" > '$output' &&
21 21
22 fastqe 22 fastqe
31 <inputs> 31 <inputs>
32 <param label="FastQ data" name="input" type="data" format="fastq,fastq.gz" multiple="true"/> 32 <param label="FastQ data" name="input" type="data" format="fastq,fastq.gz" multiple="true"/>
33 <param label="Bin scores" name="bin" type="boolean" truevalue="--bin" falsevalue="" /> 33 <param label="Bin scores" name="bin" type="boolean" truevalue="--bin" falsevalue="" />
34 <param label="Score types to show" name="tpe" type="select" multiple="true"> 34 <param label="Score types to show" name="tpe" type="select" multiple="true">
35 <option value="--min" selected="true">Minimum</option> 35 <option value="--min" selected="true">Minimum</option>
36 <option value="--mean" selected="true">Minimum</option> 36 <option value="--mean" selected="true">Mean</option>
37 <option value="--max" selected="true">Minimum</option> 37 <option value="--max" selected="true">Maximum</option>
38 </param> 38 </param>
39 <param label="Maximum read length" name="long" type="integer" help="Enable long reads up to this many bp long." min="1" value="500"/> 39 <param label="Maximum read length" name="long" type="integer" help="Enable long reads up to this many bp long." min="1" value="500"/>
40 </inputs> 40 </inputs>
41 <outputs> 41 <outputs>
42 <data format="html" name="output"/> 42 <data format="html" name="output"/>