Mercurial > repos > brasset_jensen > srnapipe

comparison sRNAPipe.xml @ 67:740884893563 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/GReD-Clermont/sRNAPipe/ commit fa75629bca78685de0106390758c0e85f1ca0836
author brasset_jensen
date Thu, 31 Jan 2019 16:10:58 -0500
parents ff36e76d696a
children fa794d2a5aaf
comparison
equal deleted inserted replaced
66:ff36e76d696a 67:740884893563
20 </when> 20 </when>
21 </conditional> 21 </conditional>
22 </xml> 22 </xml>
23 </macros> 23 </macros>
24 <requirements> 24 <requirements>
25 <requirement type="package" version="1.9">samtools</requirement> 25 <requirement type="package" version="1.1">srnapipe</requirement>
26 <requirement type="package">bwa</requirement>
27 <requirement type="package">bedtools</requirement>
28 <requirement type="package">perl</requirement>
29 <requirement type="package">perl-getopt-long</requirement>
30 <requirement type="package">perl-parallel-forkmanager</requirement>
31 <requirement type="package">perl-statistics-r</requirement>
32 <requirement type="package">perl-string-random</requirement>
33 <requirement type="package">perl-file-copy-recursive</requirement>
34 <requirement type="package">perl-math-cdf</requirement>
35 <requirement type="package">r-base</requirement>
36 <requirement type="package">r-plotrix</requirement>
37 <requirement type="package">r-rcolorbrewer</requirement>
38 <requirement type="package">r-ggplot2</requirement>
39 <requirement type="package" version="1.14.0">bioconductor-sushi</requirement>
40 </requirements> 26 </requirements>
41 <version_command>perl '$__tool_directory__/bin/sRNAPipe.pl' | grep 'version' | grep "version" | cut -d ' ' -f 3</version_command> 27 <version_command>srnapipe | grep 'version' | grep "version" | cut -d ' ' -f 3</version_command>
42 <command detect_errors="aggressive"><![CDATA[ 28 <command detect_errors="aggressive"><![CDATA[
43 perl '$__tool_directory__/bin/sRNAPipe.pl' 29 srnapipe
44 30
45 --fastq '${first_input}' 31 --fastq '${first_input}'
46 --fastq_n '${first_input.name}' 32 --fastq_n '${first_input.name}'
47 #for $input_file in $input_files: 33 #for $input_file in $input_files:
48 --fastq '${input_file.additional_input}' 34 --fastq '${input_file.additional_input}'