comparison correct_barcodes.xml @ 3:00dde366870a draft

planemo upload for repository https://github.com/galaxyproject/dunovo commit b'a3ad9fbb3f010253808fc0c7329897a741ec9feb\n'

2:a9cb6fb9ea94

<?xml version="1.0"?>
<tool id="correct_barcodes" name="Du Novo: Correct barcodes" version="0.7.6">
  <description>of duplex sequencing reads</description>
  <requirements>
    <requirement type="package" version="2.2.5">bowtie2</requirement>
    <requirement type="package" version="0.1.18">samtools</requirement>
    <requirement type="package" version="1.9">networkx</requirement>
    <requirement type="package" version="0.7.6">dunovo</requirement>
    <!-- TODO: require Python 2.7 -->
  </requirements>
  <command detect_errors="exit_code"><![CDATA[
    baralign.sh '$input' refdir barcodes.bam
    && samtools view -f 256 barcodes.bam
    | correct.py --galaxy $phone -d $dist -m $mapq -p $pos '$input' refdir/barcodes.fa
    | sort
    > '$output'
  ]]>
  </command>
  <inputs>

3:00dde366870a

<?xml version="1.0"?>
<tool id="correct_barcodes" name="Du Novo: Correct barcodes" version="0.8.1">
  <description>of duplex sequencing reads</description>
  <requirements>
    <requirement type="package" version="2.2.5">bowtie2</requirement>
    <requirement type="package" version="0.1.18">samtools</requirement>
    <requirement type="package" version="1.9">networkx</requirement>
    <requirement type="package" version="0.8.1">dunovo</requirement>
    <!-- TODO: require Python 2.7 -->
  </requirements>
  <command detect_errors="exit_code"><![CDATA[
    baralign.sh '$input' refdir barcodes.bam
    && samtools view -f 256 barcodes.bam
    | correct.py --galaxy $phone --dist $dist --mapq $mapq --pos $pos '$input' refdir/barcodes.fa
    | sort
    > '$output'
  ]]>
  </command>
  <inputs>