Mercurial > repos > iuc > snpfreqplot

comparison snpfreqplot.xml @ 3:3d0adeee3f2b draft default tip

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit c062eb1cd00ce9d565f3e2f3b042b3dd90d78ce4"
author iuc
date Wed, 06 Jan 2021 10:55:53 +0000
parents dc51db22310c
children
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2:dc51db22310c 3:3d0adeee3f2b
1 <tool id="snpfreqplot" name="Variant Frequency Plot" version="@VERSION@+galaxy@GALAXY_VERSION@" profile="20.09" 1 <tool id="snpfreqplot" name="Variant Frequency Plot" version="@VERSION@+galaxy@GALAXY_VERSION@" profile="20.09"
2 license="GPL-3.0-or-later" > 2 license="GPL-3.0-or-later" >
3 <description>Generates a heatmap of allele frequencies grouped by variant type for SnpEff-annotated SARS-CoV-2 data</description> 3 <description>Generates a heatmap of allele frequencies grouped by variant type for SnpEff-annotated SARS-CoV-2 data</description>
4 <macros> 4 <macros>
5 <token name="@VERSION@">1.0</token> 5 <token name="@VERSION@">1.0</token>
6 <token name="@GALAXY_VERSION@">2</token> 6 <token name="@GALAXY_VERSION@">3</token>
7 </macros> 7 </macros>
8 <requirements> 8 <requirements>
9 <requirement type="package" version="4.0">r-base</requirement> 9 <requirement type="package" version="4.0">r-base</requirement>
10 <requirement type="package" version="1.0.12">r-pheatmap</requirement> 10 <requirement type="package" version="1.0.12">r-pheatmap</requirement>
11 <requirement type="package" version="1.3.0">r-tidyverse</requirement> 11 <requirement type="package" version="1.3.0">r-tidyverse</requirement>
207 <param name="ratio" value="0.8" /> 207 <param name="ratio" value="0.8" />
208 <param name="output_type" value="svg" /> 208 <param name="output_type" value="svg" />
209 </section> 209 </section>
210 <output name="outfile" ftype="svg"> 210 <output name="outfile" ftype="svg">
211 <assert_contents> 211 <assert_contents>
212 <has_text text="viewBox=&quot;0 0 1156 361&quot;" /> 212 <has_text text="viewBox=&quot;0 0 1156 380&quot;" />
213 </assert_contents> 213 </assert_contents>
214 </output> 214 </output>
215 </test> 215 </test>
216 <test expect_num_outputs="1"> 216 <test expect_num_outputs="1">
217 <!-- JPEG, clustering extras, mixed alphanumeric labels --> 217 <!-- JPEG, clustering extras, mixed alphanumeric labels -->
243 <section name="advanced" > 243 <section name="advanced" >
244 <param name="output_type" value="svg" /> 244 <param name="output_type" value="svg" />
245 </section> 245 </section>
246 <output name="outfile" ftype="svg"> 246 <output name="outfile" ftype="svg">
247 <assert_contents> 247 <assert_contents>
248 <has_text text="viewBox=&quot;0 0 754 292&quot;" /> 248 <has_text text="viewBox=&quot;0 0 754 293&quot;" />
249 </assert_contents> 249 </assert_contents>
250 </output> 250 </output>
251 </test> 251 </test>
252 <test expect_num_outputs="1"> 252 <test expect_num_outputs="1">
253 <!-- SVG, Vcf test with problematic splice+syn at snpeff789.vcf for threshold = 0.0222 253 <!-- SVG, Vcf test with problematic splice+syn at snpeff789.vcf for threshold = 0.0222