Mercurial > repos > thondeboer > neat_genreads
comparison computeFraglen.xml @ 6:5bcfac4f8116 draft
planemo upload commit e96b43f96afce6a7b7dfd4499933aad7d05c955e-dirty
author | thondeboer |
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date | Tue, 15 May 2018 17:12:43 -0400 |
parents | 110fc7a9a016 |
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5:98195057e06d | 6:5bcfac4f8116 |
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4 profile="16.04"> | 4 profile="16.04"> |
5 <description>computes empirical fragment length distribution from sample data in BAM format. Creates model file for use in NEAT-genReads</description> | 5 <description>computes empirical fragment length distribution from sample data in BAM format. Creates model file for use in NEAT-genReads</description> |
6 <requirements> | 6 <requirements> |
7 <requirement type="package" version="0.1.19">samtools</requirement> | 7 <requirement type="package" version="0.1.19">samtools</requirement> |
8 <requirement type="package">numpy</requirement> | 8 <requirement type="package">numpy</requirement> |
9 <requirement type="package">scipy</requirement> | |
10 </requirements> | 9 </requirements> |
11 <command detect_errors="exit_code"> | 10 <command detect_errors="exit_code"> |
12 <![CDATA[ | 11 <![CDATA[ |
13 samtools view -d $bam_file | 12 samtools view -d $bam_file |
14 | python2 $__tool_directory__/utilities/computeFraglen.py | 13 | python2 $__tool_directory__/utilities/computeFraglen.py |