comparison minimap2.xml @ 9:e738fb9d4a22 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/minimap2 commit ba952bea405513c0d81a33019a4c2fbcdcf8e783

8:6090793a47e8

<?xml version="1.0"?>
<tool id="minimap2" name="Map with minimap2" version="2.4" profile="17.01">
    <description>A fast pairwise aligner for genomic and spliced nucleotide sequences</description>
    <requirements>
        <requirement type="package" version="2.4">minimap2</requirement>
        <requirement type="package" version="1.6">samtools</requirement>
    </requirements>

    | samtools sort
    -@\${GALAXY_SLOTS:-2}
    -O $io_options.output_format
    #if $io_options.output_format == 'CRAM':
        --reference reference.fa
    #end if
    -o '$alignment_output'
]]>
    </command>
    <inputs>

9:e738fb9d4a22

<?xml version="1.0"?>
<tool id="minimap2" name="Map with minimap2" version="2.4.1" profile="17.01">
    <description>A fast pairwise aligner for genomic and spliced nucleotide sequences</description>
    <requirements>
        <requirement type="package" version="2.4">minimap2</requirement>
        <requirement type="package" version="1.6">samtools</requirement>
    </requirements>

    | samtools sort
    -@\${GALAXY_SLOTS:-2}
    -O $io_options.output_format
    #if $io_options.output_format == 'CRAM':
        --reference reference.fa
        --output-fmt-option no_ref
    #end if
    -o '$alignment_output'
]]>
    </command>
    <inputs>