Mercurial > repos > iuc > nanoplot

diff nanoplot.xml @ 4:edbb6c5028f5 draft

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"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
line wrap: on
line diff
--- a/nanoplot.xml	Fri Jun 21 19:13:55 2019 -0400
+++ b/nanoplot.xml	Sun Jan 19 19:03:02 2020 -0500
@@ -1,7 +1,7 @@
 <tool id="nanoplot" name="NanoPlot" version="@TOOL_VERSION@+galaxy1">
     <description>Plotting suite for Oxford Nanopore sequencing data and alignments</description>
     <macros>
-        <token name="@TOOL_VERSION@">1.25.0</token>
+        <token name="@TOOL_VERSION@">1.28.2</token>
     </macros>
     <requirements>
         <requirement type="package" version="@TOOL_VERSION@">nanoplot</requirement>
@@ -63,7 +63,6 @@
     $filter.percentqual
     $filter.alength
     $filter.barcoded
-    $customization.noN50
     $customization.N50
     -o '.'
     ]]></command>
@@ -386,12 +385,6 @@
             </param>
             <param
                 type="boolean"
-                name="noN50"
-                truevalue="--no-N50"
-                falsevalue=""
-                label="Hide the N50 mark in the read length histogram."/>
-            <param
-                type="boolean"
                 argument="--N50"
                 truevalue="--N50"
                 falsevalue=""
@@ -427,9 +420,8 @@
             </section>
             <section name="customization">
                 <param name="plots" value="hex,kde"/>
-                <param name="title" value="My Plot"/>
             </section>
-            <output name="output_html" file="NanoPlot-report.html" ftype="html"/>
+            <output name="output_html" file="NanoPlot-report.html" ftype="html" lines_diff="8" />
             <output name="nanostats_post_filtering" file="NanoStats_post_filtering.txt" ftype="txt"/>
             <output name="read_length" file="HistogramReadlength.png" ftype="png" compare="sim_size" delta="3000"/>
         </test>
@@ -448,9 +440,8 @@
             <section name="customization">
                 <param name="color" value="yellow"/>
                 <param name="format" value="svg"/>
-                <param name="noN50" value="True"/>
             </section>
-            <output name="output_html" file="bam-report.html" ftype="html">
+            <output name="output_html" file="bam-report.html" ftype="html" lines_diff="16">
                 <assert_contents>
                     <has_text text="html"/>
                     <has_text text="Aligned read length vs Percent identity plot using dots"/> <!-- bam report specific -->