Mercurial > repos > petr-novak > long_reads_sampling
view long2short.xml @ 2:ccaedca97e5e draft
planemo upload for repository https://github.com/kavonrtep/galaxy_tools commit 2b3bc2334397749509cdf6fc432d891a09763c4f-dirty
author | petr-novak |
---|---|
date | Fri, 08 Dec 2023 09:17:46 +0000 |
parents | 5596bafd2119 |
children | 9819570dc020 |
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<tool id="long2short" name="Get pseudo short paired end reads from long reads" version="0.1.0"> <requirements> <requirement type="package">biopython</requirement> <requirement type="package" version="3.6">python</requirement> </requirements> <command detect_errors="exit_code"><![CDATA[ python3 $__tool_directory__/long2short.py -i "$input1" -o "$output1" -cov ${coverage} -L ${insert_length} -l ${read_length} ]]></command> <inputs> <param type="data" name="input1" format="fasta" /> <param type="integer" name="insert_length" value="1000" /> <param type="integer" name="read_length" value="300" /> <param type="float" name="coverage" value="0.1" min="0.0001" max="10"/> </inputs> <outputs> <data name="output1" format="fasta" /> </outputs> <tests> <test> <param name="input1" value="read_10k_ALL_oxford_nanopore_sample" /> <param name="cov" value="0.1" /> <param name="insert_length" value="600" /> <param name="read_length" value="100" /> <output name="output1" file="pseudo_paired_end.fasta"/> </test> </tests> <help><![CDATA[ Create pseudo short paired-edn reads from long read with required read length, insert length and coverage. Original position on long reads is kept as part of the read name ]]></help> </tool>