comparison nanopolish_variants.xml @ 6:733fd70178bd draft

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/nanopolish commit 25c22b467760e4784e199125292927bd2274a189

5:899eb3db1699

<tool id="nanopolish_variants" name="Nanopolish variants" version="0.1.0">
    <description>- Find SNPs of basecalled merged Nanopore reads and polishes the consensus sequences</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements" />

    ]]></command>
    <inputs>
      <!-- index inputs -->
        <param type="data" name="input_merged" format="fasta,fastq" label="Basecalled merged reads.fa"/>
        <param type="data" name="input_reads_raw" format="h5,fast5.tar.gz,fast5.tar.bz2,fast5.tar" label="Flat archive file of raw fast5 files"/>

        <!-- variants consensus inputs -->
        <param type="data" argument="-b" format="bam" label="Reads aligned to the reference genome" />
        <conditional name="reference_source">
          <param name="reference_source_selector" type="select" label="Load reference genome from">

6:733fd70178bd

<tool id="nanopolish_variants" name="Nanopolish variants" version="0.11.1">
    <description>- Find SNPs of basecalled merged Nanopore reads and polishes the consensus sequences</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements" />

    ]]></command>
    <inputs>
      <!-- index inputs -->
        <param type="data" name="input_merged" format="fasta,fastq" label="Basecalled merged reads.fa"/>
        <param type="data" name="input_reads_raw" format="fast5.tar.gz,fast5.tar.bz2,fast5.tar" label="Flat archive file of raw fast5 files"/>

        <!-- variants consensus inputs -->
        <param type="data" argument="-b" format="bam" label="Reads aligned to the reference genome" />
        <conditional name="reference_source">
          <param name="reference_source_selector" type="select" label="Load reference genome from">