Mercurial > repos > drosofff > msp_sr_readmap_and_size_histograms

comparison readmap.xml @ 15:ee1e4c892e9d draft

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/msp_sr_readmap_and_size_histograms commit 170951554bb5674a7b2b7a13a03a3422a91af38d
author drosofff
date Wed, 20 Dec 2017 18:41:56 -0500
parents acc5e710dc19
children 1b8108a02da3
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14:acc5e710dc19 15:ee1e4c892e9d
1 <tool id="Readmap" name="Generate readmap and histograms from alignment files" version="1.2.5"> 1 <tool id="Readmap" name="Generate readmap and histograms from alignment files" version="1.2.6">
2 <description>from sRbowtie aligment</description> 2 <description>from sRbowtie aligment</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.2.0=py27_0">bowtie</requirement> 4 <requirement type="package" version="1.11.2=py27_0">numpy</requirement>
5 <requirement type="package" version="0.11.2.1=py27_0">pysam</requirement> 5 <requirement type="package" version="0.11.2.1=py27_0">pysam</requirement>
6 <requirement type="package" version="1.11.2=py27_0">numpy</requirement>
7 <requirement type="package" version="1.3.2=r3.3.2_0">r-optparse</requirement> 6 <requirement type="package" version="1.3.2=r3.3.2_0">r-optparse</requirement>
8 <requirement type="package" version="0.6_28=r3.3.2_0">r-latticeextra</requirement> 7 <requirement type="package" version="0.6_28=r3.3.2_0">r-latticeextra</requirement>
9 <requirement type="package" version="2.2.1=r3.3.2_0">r-gridextra</requirement> 8 <requirement type="package" version="2.2.1=r3.3.2_0">r-gridextra</requirement>
10 9 <requirement type="package" version="1.4.2=r3.3.2_0">r-reshape2</requirement>
11 </requirements> 10 </requirements>
12 <command><![CDATA[ 11 <command><![CDATA[
13 python2 $__tool_directory__/readmap.py 12 python2 $__tool_directory__/readmap.py
14 #if $refGenomeSource.genomeSource == "history": 13 #if $refGenomeSource.genomeSource == "history":
15 --reference_fasta 14 --reference_fasta
16 $refGenomeSource.ownFile ## index source 15 $refGenomeSource.ownFile ## index source
17 #else: 16 #else: