Mercurial > repos > drosofff > msp_sr_readmap_and_size_histograms

comparison readmap.xml @ 24:bf7388df53cf draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/msp_sr_readmap_and_size_histograms commit 3effd45f45c37a6cdaf9b7b1da1ed4d10d3b0e38
author drosofff
date Sat, 08 Oct 2016 07:18:45 -0400
parents d6b93af0da55
children
comparison
equal deleted inserted replaced
23:d6b93af0da55 24:bf7388df53cf
2 <description>from sRbowtie aligment</description> 2 <description>from sRbowtie aligment</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.0.0">bowtie</requirement> 4 <requirement type="package" version="1.0.0">bowtie</requirement>
5 <requirement type="package" version="0.9.0">pysam</requirement> 5 <requirement type="package" version="0.9.0">pysam</requirement>
6 <requirement type="package" version="1.9.3">numpy</requirement> 6 <requirement type="package" version="1.9.3">numpy</requirement>
7 <requirement type="package" version="1.3.0">r-optparse</requirement> 7 <requirement type="package" version="1.3.0=r3.2.2_1">r-optparse</requirement>
8 <requirement type="package" version="0.6_26">r-latticeextra</requirement> 8 <requirement type="package" version="0.6_26=r3.2.2_2a">r-latticeextra</requirement>
9 <requirement type="package" version="2.0.0">r-gridextra</requirement> 9 <requirement type="package" version="2.0.0=r3.2.2_0a">r-gridextra</requirement>
10 </requirements> 10 </requirements>
11 <command><![CDATA[ 11 <command><![CDATA[
12 python2 $__tool_directory__/readmap.py 12 python2 $__tool_directory__/readmap.py
13 #if $refGenomeSource.genomeSource == "history": 13 #if $refGenomeSource.genomeSource == "history":
14 --reference_fasta 14 --reference_fasta
149 <param name="xlabel" value="Coordinates/read size" /> 149 <param name="xlabel" value="Coordinates/read size" />
150 <param name="ylabel" value="Number of reads" /> 150 <param name="ylabel" value="Number of reads" />
151 <param name="rows_per_page" value="8" /> 151 <param name="rows_per_page" value="8" />
152 <output name="readmap_dataframe" ftype="tabular" file="Readmap_dataframe.tab" /> 152 <output name="readmap_dataframe" ftype="tabular" file="Readmap_dataframe.tab" />
153 <output name="size_distribution_dataframe" ftype="tabular" file="Size_distribution_dataframe.tab" /> 153 <output name="size_distribution_dataframe" ftype="tabular" file="Size_distribution_dataframe.tab" />
154 <output name="readmap_PDF" ftype="pdf" file="Readmaps.pdf" />
155 <output name="size_PDF" ftype="pdf" file="Size_distribution.pdf" />
156 <output name="combi_PDF" ftype="pdf" file="Size_distribution_and_Readmaps.pdf" />
157 </test> 154 </test>
158 </tests> 155 </tests>
159 </tool> 156 </tool>