nanoplot: nanoplot.xml annotate

annotate nanoplot.xml @ 4:edbb6c5028f5 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6692949aa694102abb64c67d46196a822fcb61bf"

author	iuc
date	Sun, 19 Jan 2020 19:03:02 -0500
parents	645159bcee2d
children	a3c4fe6f49ab

rev	line source
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	1 <tool id="nanoplot" name="NanoPlot" version="@TOOL_VERSION@+galaxy1">
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	2 <description>Plotting suite for Oxford Nanopore sequencing data and alignments</description>
2 acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	3 <macros>
4 edbb6c5028f5 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6692949aa694102abb64c67d46196a822fcb61bf" iuc parents: 3 diff changeset	4 <token name="@TOOL_VERSION@">1.28.2</token>
2 acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	5 </macros>
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	6 <requirements>
2 acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	7 <requirement type="package" version="@TOOL_VERSION@">nanoplot</requirement>
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	8 </requirements>
2 acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	9 <version_command>NanoPlot --version</version_command>
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	10 <command detect_errors="exit_code"><![CDATA[
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	11 #set $myfiles = $mode.reads.files
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	12
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	13 #set reads_temp = []
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	14 #if $mode.choice == 'combined':
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	15 #for $i, $f in enumerate($myfiles)
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	16 #if $f.ext == "fastqsanger":
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	17 #set $extension = 'fastq'
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	18 #else
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	19 #set $extension = $f.ext
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	20 #end if
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	21 ln -s '$f' './read_${i}.$extension' &&
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	22 $reads_temp.append("read_" + str($i) + "." + str($extension))
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	23 #end for
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	24 #else
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	25 #if $myfiles.ext == "fastqsanger":
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	26 #set $extension = 'fastq'
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	27 #else
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	28 #set $extension = $myfiles.ext
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	29 #end if
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	30 ln -s '$mode.reads.files' './read.$extension' &&
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	31 $reads_temp.append("read." + str($extension))
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	32 #end if
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	33
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	34 NanoPlot
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	35 --threads \${GALAXY_SLOTS:-4}
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	36 --$mode.reads.type ${' '.join($reads_temp)}
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	37 #if $filter.maxlength
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	38 --maxlength $filter.maxlength
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	39 #end if
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	40 #if $filter.minlength
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	41 --minlength $filter.minlength
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	42 #end if
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	43 #if $filter.downsample
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	44 --downsample $filter.downsample
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	45 #end if
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	46 #if $filter.minqual
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	47 --minqual $filter.minqual
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	48 #end if
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	49 #if $filter.readtype
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	50 --readtype $filter.readtype
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	51 #end if
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	52 #if $customization.color
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	53 --color $customization.color
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	54 #end if
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	55 #if $customization.format
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	56 --format $customization.format
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	57 #end if
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	58 #if $customization.plots
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	59 --plots ${str($customization.plots).replace(',', ' ')}
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	60 #end if
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	61 $filter.drop_outliers
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	62 $filter.loglength
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	63 $filter.percentqual
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	64 $filter.alength
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	65 $filter.barcoded
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	66 $customization.N50
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	67 -o '.'
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	68 ]]></command>
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	69 <inputs>
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	70 <conditional name="mode">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	71 <param name="choice" type="select" label="Select multifile mode" help="When supplying multiple files, batch mode will run NanoPlot on each file separately, while combined mode will run NanoPlot once on all the reads together. When only supplying a single input file, this setting does not matter.">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	72 <option value="batch" selected="true">batch</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	73 <option value="combined">combined</option>
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	74 </param>
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	75 <when value="batch">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	76 <conditional name="reads">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	77 <param name="type" type="select" label="Type of the file(s) to work on">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	78 <option value="fastq" selected="true">fastq</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	79 <option value="fasta">fasta</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	80 <option value="fastq_rich">fastq_rich</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	81 <option value="fastq_minimal">fastq_minimal</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	82 <option value="summary">summary</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	83 <option value="bam">bam</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	84 <option value="cram">cram</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	85 </param>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	86 <when value="fastq">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	87 <param type="data" argument="--fastq" name="files" format="fastq,fastq.gz,fastq.bz2,vcf_bgzip"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	88 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	89 <when value="fasta">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	90 <param type="data" argument="--fasta" name="files" format="fasta,fasta.gz,vcf_bgzip"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	91 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	92 <when value="fastq_rich">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	93 <param type="data" argument="--fastq_rich" name="files" format="fastq,fastq.gz,fastq.bz2,vcf_bgzip"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	94 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	95 <when value="fastq_minimal">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	96 <param type="data" argument="--fastq_minimal" name="files" format="fastq,fastq.gz,fastq.bz2,vcf_bgzip"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	97 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	98 <when value="summary">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	99 <param type="data" argument="--summary" name="files" format="txt,zip"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	100 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	101 <when value="bam">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	102 <param type="data" argument="--bam" name="files" format="bam"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	103 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	104 <when value="cram">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	105 <param type="data" argument="--cram" name="files" format="cram"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	106 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	107 </conditional>
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	108 </when>
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	109 <when value="combined">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	110 <conditional name="reads">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	111 <param name="type" type="select" label="Type of the file(s) to work on">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	112 <option value="fastq" selected="true">fastq</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	113 <option value="fasta">fasta</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	114 <option value="fastq_rich">fastq_rich</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	115 <option value="fastq_minimal">fastq_minimal</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	116 <option value="summary">summary</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	117 <option value="bam">bam</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	118 <option value="cram">cram</option>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	119 </param>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	120 <when value="fastq">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	121 <param type="data" argument="--fastq" name="files" format="fastq,fastq.gz,fastq.bz2,vcf_bgzip" multiple="true"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	122 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	123 <when value="fasta">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	124 <param type="data" argument="--fasta" name="files" format="fasta,fasta.gz,vcf_bgzip" multiple="true"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	125 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	126 <when value="fastq_rich">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	127 <param type="data" argument="--fastq_rich" name="files" format="fastq,fastq.gz,fastq.bz2,vcf_bgzip" multiple="true"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	128 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	129 <when value="fastq_minimal">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	130 <param type="data" argument="--fastq_minimal" name="files" format="fastq,fastq.gz,fastq.bz2,vcf_bgzip" multiple="true"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	131 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	132 <when value="summary">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	133 <param type="data" argument="--summary" name="files" format="txt,zip" multiple="true"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	134 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	135 <when value="bam">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	136 <param type="data" argument="--bam" name="files" format="bam" multiple="true"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	137 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	138 <when value="cram">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	139 <param type="data" argument="--cram" name="files" format="cram" multiple="true"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	140 </when>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	141 </conditional>
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	142 </when>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	143 </conditional>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	144 <section
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	145 name="filter"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	146 title="Options for filtering or transforming input prior to plotting"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	147 expanded="false">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	148 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	149 type="integer"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	150 argument="--maxlength"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	151 optional="true"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	152 label="Drop reads longer than length specified."/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	153 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	154 type="integer"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	155 argument="--minlength"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	156 optional="true"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	157 label="Drop reads shorter than length specified."/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	158 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	159 type="boolean"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	160 argument="--drop_outliers"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	161 truevalue="--drop_outliers"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	162 falsevalue=""
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	163 label="Drop outlier reads with extreme long length."/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	164 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	165 type="integer"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	166 argument="--downsample"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	167 optional="true"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	168 label="Reduce dataset to N reads by random sampling."/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	169 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	170 type="boolean"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	171 argument="--loglength"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	172 truevalue="--loglength"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	173 falsevalue=""
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	174 label="Logarithmic scaling of lengths in plots."/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	175 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	176 type="boolean"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	177 argument="--percentqual"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	178 truevalue="--percentqual"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	179 falsevalue=""
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	180 label="Use qualities as theoretical percent identities."/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	181 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	182 type="boolean"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	183 argument="--alength"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	184 truevalue="--alength"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	185 falsevalue=""
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	186 label="Use aligned read lengths rather than sequenced length (bam mode)."/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	187 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	188 type="integer"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	189 argument="--minqual"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	190 optional="true"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	191 label="Drop reads with an average quality lower than specified."/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	192 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	193 type="select"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	194 argument="--readtype"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	195 optional="true"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	196 label="Which read type to extract information about from summary.">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	197 <option value="1D">1D</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	198 <option value="2D">2D</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	199 <option value="1D2">1D2</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	200 </param>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	201 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	202 type="boolean"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	203 argument="--barcoded"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	204 truevalue="--barcoded"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	205 falsevalue=""
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	206 label="Use if you want to split the summary file by barcode."/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	207 </section>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	208 <section
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	209 name="customization"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	210 title="Options for customizing the plots created"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	211 expanded="false">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	212 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	213 type="select"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	214 argument="--color"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	215 optional="true"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	216 label="Specify a color for the plots.">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	217 <option value="aliceblue">aliceblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	218 <option value="antiquewhite">antiquewhite</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	219 <option value="aqua">aqua</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	220 <option value="aquamarine">aquamarine</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	221 <option value="azure">azure</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	222 <option value="beige">beige</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	223 <option value="bisque">bisque</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	224 <option value="black">black</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	225 <option value="blanchedalmond">blanchedalmond</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	226 <option value="blue">blue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	227 <option value="blueviolet">blueviolet</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	228 <option value="brown">brown</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	229 <option value="burlywood">burlywood</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	230 <option value="cadetblue">cadetblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	231 <option value="chartreuse">chartreuse</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	232 <option value="chocolate">chocolate</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	233 <option value="coral">coral</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	234 <option value="cornflowerblue">cornflowerblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	235 <option value="cornsilk">cornsilk</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	236 <option value="crimson">crimson</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	237 <option value="cyan">cyan</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	238 <option value="darkblue">darkblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	239 <option value="darkcyan">darkcyan</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	240 <option value="darkgoldenrod">darkgoldenrod</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	241 <option value="darkgray">darkgray</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	242 <option value="darkgreen">darkgreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	243 <option value="darkgrey">darkgrey</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	244 <option value="darkkhaki">darkkhaki</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	245 <option value="darkmagenta">darkmagenta</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	246 <option value="darkolivegreen">darkolivegreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	247 <option value="darkorange">darkorange</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	248 <option value="darkorchid">darkorchid</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	249 <option value="darkred">darkred</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	250 <option value="darksalmon">darksalmon</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	251 <option value="darkseagreen">darkseagreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	252 <option value="darkslateblue">darkslateblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	253 <option value="darkslategray">darkslategray</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	254 <option value="darkslategrey">darkslategrey</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	255 <option value="darkturquoise">darkturquoise</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	256 <option value="darkviolet">darkviolet</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	257 <option value="deeppink">deeppink</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	258 <option value="deepskyblue">deepskyblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	259 <option value="dimgray">dimgray</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	260 <option value="dimgrey">dimgrey</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	261 <option value="dodgerblue">dodgerblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	262 <option value="firebrick">firebrick</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	263 <option value="floralwhite">floralwhite</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	264 <option value="forestgreen">forestgreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	265 <option value="fuchsia">fuchsia</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	266 <option value="gainsboro">gainsboro</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	267 <option value="ghostwhite">ghostwhite</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	268 <option value="goldenrod">goldenrod</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	269 <option value="gold">gold</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	270 <option value="gray">gray</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	271 <option value="green">green</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	272 <option value="greenyellow">greenyellow</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	273 <option value="grey">grey</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	274 <option value="honeydew">honeydew</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	275 <option value="hotpink">hotpink</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	276 <option value="indianred">indianred</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	277 <option value="indigo">indigo</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	278 <option value="ivory">ivory</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	279 <option value="khaki">khaki</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	280 <option value="lavenderblush">lavenderblush</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	281 <option value="lavender">lavender</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	282 <option value="lawngreen">lawngreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	283 <option value="lemonchiffon">lemonchiffon</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	284 <option value="lightblue">lightblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	285 <option value="lightcoral">lightcoral</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	286 <option value="lightcyan">lightcyan</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	287 <option value="lightgoldenrodyellow">lightgoldenrodyellow</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	288 <option value="lightgray">lightgray</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	289 <option value="lightgreen">lightgreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	290 <option value="lightgrey">lightgrey</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	291 <option value="lightpink">lightpink</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	292 <option value="lightsalmon">lightsalmon</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	293 <option value="lightseagreen">lightseagreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	294 <option value="lightskyblue">lightskyblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	295 <option value="lightslategray">lightslategray</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	296 <option value="lightslategrey">lightslategrey</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	297 <option value="lightsteelblue">lightsteelblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	298 <option value="lightyellow">lightyellow</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	299 <option value="limegreen">limegreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	300 <option value="lime">lime</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	301 <option value="linen">linen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	302 <option value="magenta">magenta</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	303 <option value="maroon">maroon</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	304 <option value="mediumaquamarine">mediumaquamarine</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	305 <option value="mediumblue">mediumblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	306 <option value="mediumorchid">mediumorchid</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	307 <option value="mediumpurple">mediumpurple</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	308 <option value="mediumseagreen">mediumseagreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	309 <option value="mediumslateblue">mediumslateblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	310 <option value="mediumspringgreen">mediumspringgreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	311 <option value="mediumturquoise">mediumturquoise</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	312 <option value="mediumvioletred">mediumvioletred</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	313 <option value="midnightblue">midnightblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	314 <option value="mintcream">mintcream</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	315 <option value="mistyrose">mistyrose</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	316 <option value="moccasin">moccasin</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	317 <option value="navajowhite">navajowhite</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	318 <option value="navy">navy</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	319 <option value="oldlace">oldlace</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	320 <option value="olivedrab">olivedrab</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	321 <option value="olive">olive</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	322 <option value="orange">orange</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	323 <option value="orangered">orangered</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	324 <option value="orchid">orchid</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	325 <option value="palegoldenrod">palegoldenrod</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	326 <option value="palegreen">palegreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	327 <option value="paleturquoise">paleturquoise</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	328 <option value="palevioletred">palevioletred</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	329 <option value="papayawhip">papayawhip</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	330 <option value="peachpuff">peachpuff</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	331 <option value="peru">peru</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	332 <option value="pink">pink</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	333 <option value="plum">plum</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	334 <option value="powderblue">powderblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	335 <option value="purple">purple</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	336 <option value="rebeccapurple">rebeccapurple</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	337 <option value="red">red</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	338 <option value="rosybrown">rosybrown</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	339 <option value="royalblue">royalblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	340 <option value="saddlebrown">saddlebrown</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	341 <option value="salmon">salmon</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	342 <option value="sandybrown">sandybrown</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	343 <option value="seagreen">seagreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	344 <option value="seashell">seashell</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	345 <option value="sienna">sienna</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	346 <option value="silver">silver</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	347 <option value="skyblue">skyblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	348 <option value="slateblue">slateblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	349 <option value="slategray">slategray</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	350 <option value="slategrey">slategrey</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	351 <option value="snow">snow</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	352 <option value="springgreen">springgreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	353 <option value="steelblue">steelblue</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	354 <option value="tan">tan</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	355 <option value="teal">teal</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	356 <option value="thistle">thistle</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	357 <option value="tomato">tomato</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	358 <option value="turquoise">turquoise</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	359 <option value="violet">violet</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	360 <option value="wheat">wheat</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	361 <option value="whitesmoke">whitesmoke</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	362 <option value="white">white</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	363 <option value="yellowgreen">yellowgreen</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	364 <option value="yellow">yellow</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	365 </param>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	366 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	367 type="select"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	368 argument="--format"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	369 optional="true"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	370 label="Specify the output format of the plots.">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	371 <option selected="True" value="png">png</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	372 <option value="svg">svg</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	373 </param>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	374 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	375 type="select"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	376 argument="--plots"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	377 optional="true"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	378 multiple="true"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	379 display="checkboxes"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	380 label="Specify the bivariate format of the plots.">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	381 <option value="kde">kde</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	382 <option value="hex">hex</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	383 <option value="dot">dot</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	384 <option value="pauvre">pauvre</option>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	385 </param>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	386 <param
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	387 type="boolean"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	388 argument="--N50"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	389 truevalue="--N50"
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	390 falsevalue=""
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	391 label="Show the N50 mark in the read length histogram."/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	392 </section>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	393 </inputs>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	394 <outputs>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	395 <data name="output_html" format="html" from_work_dir="NanoPlot-report.html" label="${tool.name} on ${on_string}: HTML report"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	396 <data name="nanostats" format="txt" from_work_dir="NanoStats.txt" label="${tool.name} on ${on_string}: NanoStats"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	397 <data name="nanostats_post_filtering" format="txt" from_work_dir="NanoStats_post_filtering.txt" label="${tool.name} on ${on_string}: NanoStats post filtering"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	398 <data name="read_length" format="png" from_work_dir="HistogramReadlength.*" label="${tool.name} on ${on_string}: Histogram Read Length ">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	399 <change_format>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	400 <when input="customization.format" value="svg" format="svg"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	401 </change_format>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	402 </data>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	403 <data name="log_read_length" format="png" from_work_dir="LogTransformed_HistogramReadlength.*" label="${tool.name} on ${on_string}: Log Transformed Histogram Read Length ">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	404 <change_format>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	405 <when input="customization.format" value="svg" format="svg"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	406 </change_format>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	407 </data>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	408 </outputs>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	409 <tests>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	410 <test>
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	411 <conditional name="mode">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	412 <param name="choice" value="batch"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	413 <conditional name="reads">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	414 <param name="type" value="fastq_rich"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	415 <param name="files" value="reads.fastq.gz" ftype="fastq.gz"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	416 </conditional>
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	417 </conditional>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	418 <section name="filter">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	419 <param name="downsample" value="800"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	420 </section>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	421 <section name="customization">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	422 <param name="plots" value="hex,kde"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	423 </section>
4 edbb6c5028f5 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6692949aa694102abb64c67d46196a822fcb61bf" iuc parents: 3 diff changeset	424 <output name="output_html" file="NanoPlot-report.html" ftype="html" lines_diff="8" />
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	425 <output name="nanostats_post_filtering" file="NanoStats_post_filtering.txt" ftype="txt"/>
2 acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	426 <output name="read_length" file="HistogramReadlength.png" ftype="png" compare="sim_size" delta="3000"/>
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	427 </test>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	428 <test>
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	429 <conditional name="mode">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	430 <param name="choice" value="combined"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	431 <conditional name="reads">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	432 <param name="type" value="bam"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	433 <param name="files" value="alignment.bam" ftype="bam"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	434 </conditional>
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	435 </conditional>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	436 <section name="filter">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	437 <param name="maxlength" value="2000"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	438 <param name="minlenght" value="1000"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	439 </section>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	440 <section name="customization">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	441 <param name="color" value="yellow"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	442 <param name="format" value="svg"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	443 </section>
4 edbb6c5028f5 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6692949aa694102abb64c67d46196a822fcb61bf" iuc parents: 3 diff changeset	444 <output name="output_html" file="bam-report.html" ftype="html" lines_diff="16">
2 acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	445 <assert_contents>
acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	446 <has_text text="html"/>
acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	447 <has_text text="Aligned read length vs Percent identity plot using dots"/> <!-- bam report specific -->
acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	448 </assert_contents>
acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	449 </output>
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	450 <output name="read_length" file="bam-LogTransformed_HistogramReadlength.svg" ftype="svg" compare="sim_size"/>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	451 </test>
2 acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	452 <test><!-- test with multiple input files -->
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	453 <conditional name="mode">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	454 <param name="choice" value="combined"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	455 <conditional name="reads">
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	456 <param name="type" value="fasta"/>
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	457 <param name="files" ftype="fasta" value="reads1.fasta,reads2.fasta" />
645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	458 </conditional>
2 acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	459 </conditional>
acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	460 <output name="output_html" ftype="html">
acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	461 <assert_contents>
acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	462 <has_text text="html"/>
acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	463 <not_has_text text="Aligned read length vs Percent identity plot using dots"/> <!-- bam report specific -->
3 645159bcee2d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit 6afb87d2f226ac2fb61255b89dd9c36940b482c9 iuc parents: 2 diff changeset	464 <has_text text="<td>9.0</td>"/> <!--check both files were used 4+5 reads -->
2 acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	465 </assert_contents>
acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	466 </output>
acd337269171 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit fae386db359dd61fd5e4e2e808413ae478b279ee iuc parents: 1 diff changeset	467 </test>
0 db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	468 </tests>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	469 <help>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	470 <![CDATA[
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	471 What it does
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	472
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	473 NanoPlot_ is a plotting tool for long read sequencing data and alignments written by `Wouter De Coster`_
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	474
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	475 .. _NanoPlot: https://github.com/wdecoster/NanoPlot
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	476 .. _`Wouter De Coster`: https://github.com/wdecoster
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	477
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	478 Input
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	479
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	480 NanoPlot requires 1 or more files as input. They can either be fastq (can be generated
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	481 by albacore, guppy or MinKNOW containing additional information), fasta, sorted bam,
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	482 sorted cram or sequencing summary.
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	483
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	484 Output
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	485
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	486 NanoPlot produces different number of plots depending on the data and customizations.
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	487 A detailed view can be seen on here_. Additionally a file showing the statistics
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	488 is generated.
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	489
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	490 .. _here: https://github.com/wdecoster/NanoPlot#plots-generated
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	491 ]]>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	492 </help>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	493 <citations>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	494 <citation type="bibtex">
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	495 @misc{githubnanoplot, author = {De Coster, Wouter}, year = {2018}, title =
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	496 {NanoPlot}, publisher = {GitHub}, journal = {GitHub repository}, url =
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	497 {https://github.com/wdecoster/NanoPlot}, }</citation>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	498 <citation type="doi">10.1093/bioinformatics/bty149</citation>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	499 </citations>
db1eeffba23e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanoplot/ commit ad3c2e459ae53ab61df3d967d755fd0b42149328 iuc parents: diff changeset	500 </tool>

Mercurial > repos > iuc > nanoplot

annotate nanoplot.xml @ 4:edbb6c5028f5 draft