Mercurial > repos > thanhlv > biotradis
view biotradis_filter_tags.xml @ 0:afe9a515d145 draft
planemo upload for repository https://github.com/quadram-institute-bioscience/galaxy-tools/tree/master/tools/biotradis commit 2e1b1f737f3a3d7cfc6350c6936fbb0bd84a5dad-dirty
author | thanhlv |
---|---|
date | Thu, 25 Jul 2019 06:03:12 -0400 |
parents | |
children | 09c1f97a5bcc |
line wrap: on
line source
<tool id="filter_tradis_tags" name="filter tradis tags" version="@VERSION@"> <description>Filters a BAM file and outputs reads with tag matching -t option.</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements" /> <command detect_errors="exit_code"><![CDATA[ filter_tradis_tags -b $input_bam -t $tag -m $mismatches -o filtered ]]></command> <inputs> <param name="input_bam" type="data" format="bam" label="BAM file" help="" /> <param name="tag" type="text" label="Tags to filter" help="" /> <param name="mismatches" type="integer" value ="0" label="Number of mismatches to allow when matching tag" help="(optional. default = 0)" /> <param argument="--verbose" type="boolean" truevalue="-v" falsevalue="" checked="false" label="verbose debugging output" help="(Default:No)" /> </inputs> <outputs> <data name="filtered_tags" format="fastq" label="${tool.name} on ${on_string}" from_work_dir="filtered.tag.fatsq" /> </outputs> <!-- <tests> </tests> --> <help><![CDATA[ Adds transposon sequence and quality tags to the read strings and outputs a BAM. Usage: add_tags -b file.bam [options] Options: -b : bam file with tradis tags -v : verbose debugging output ]]></help> </tool>