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comparison crispr_studio.xml @ 1:a227c05e0a55 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/crispr_studio/ commit 539468c8c39e3024f000110b16718c40a363f9e5
author iuc
date Wed, 13 Mar 2024 14:12:11 +0000
parents 7346619ad005
children
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0:7346619ad005 1:a227c05e0a55
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="crispr_studio" name="CRISPR Studio" version="1+galaxy0"> 2 <tool id="crispr_studio" name="CRISPR Studio" version="1+galaxy0">
3 <description> 3 <description>
4 facilitate and accelerate CRISPR array visualization from a GFF3 file generated with CRISPRDetect 4 facilitate and accelerate CRISPR array visualization from a GFF3 file generated with CRISPRDetect
5 </description> 5 </description>
6 <xrefs>
7 <xref type="bio.tools">crisprstudio</xref>
8 </xrefs>
6 <requirements> 9 <requirements>
7 <requirement type="package" version="1">crispr_studio</requirement> 10 <requirement type="package" version="1">crispr_studio</requirement>
8 </requirements> 11 </requirements>
9 <command detect_errors="exit_code"> 12 <command detect_errors="exit_code">
10 <![CDATA[ 13 <![CDATA[
49 </when> 52 </when>
50 <when value="File"> 53 <when value="File">
51 <param name="isolate_list" type="data" format="txt" optional="true" label="List of Isolates to show" help="Generate the figure with the subset of isolates listed in the file"/> 54 <param name="isolate_list" type="data" format="txt" optional="true" label="List of Isolates to show" help="Generate the figure with the subset of isolates listed in the file"/>
52 </when> 55 </when>
53 </conditional> 56 </conditional>
54 <param name="n" argument="-n" truevalue="-n" falsevalue="" type="boolean" label="Show the size of the spacers over the boxed diamonds?" help="We recommend to use this option only for experimental analysis of the data"/> 57 <param argument="-n" truevalue="-n" falsevalue="" type="boolean" label="Show the size of the spacers over the boxed diamonds?" help="We recommend to use this option only for experimental analysis of the data"/>
55 <param argument="-f" truevalue="-f" falsevalue="" type="boolean" label="Skip the verification of the fasta file generated from the GFF file?" help="The verification is mainly based on the length of the spacer sequences. If a spacer is 1.5 time shorter or longer than the average spacer size of the dataset, a warning is raised and the script stops (Verification is ran by default)."/> 58 <param argument="-f" truevalue="-f" falsevalue="" type="boolean" label="Skip the verification of the fasta file generated from the GFF file?" help="The verification is mainly based on the length of the spacer sequences. If a spacer is 1.5 time shorter or longer than the average spacer size of the dataset, a warning is raised and the script stops (Verification is ran by default)."/>
56 <param name="cut_off" type="integer" optional="true" label="Score cutoff for pairing of the spacers"/> 59 <param name="cut_off" type="integer" optional="true" label="Score cutoff for pairing of the spacers"/>
57 <param argument="-gU" truevalue="-gU" falsevalue="" type="boolean" label="Gray out unique?" help="The unique spacers will be grayed"/> 60 <param argument="-gU" truevalue="-gU" falsevalue="" type="boolean" label="Gray out unique?" help="The unique spacers will be grayed"/>
58 <param argument="-gS" truevalue="-gS" falsevalue="" type="boolean" label="Gray out similar?" help="The conserved spacers will be grayed"/> 61 <param argument="-gS" truevalue="-gS" falsevalue="" type="boolean" label="Gray out similar?" help="The conserved spacers will be grayed"/>
59 <conditional name="rerun"> 62 <conditional name="rerun">