comparison ribocount.xml @ 18:cff63cf0dea8

Update tool_dependencies to install package from pip

17:805b779d4013

<tool id="ribocount" name="ribocount" version="0.1.0">
    <description>Get read counts for all transcripts in an alignment (BAM)
    </description>
    <requirements>
        <requirement type="package" version="0.8.3">pysam</requirement>
    </requirements>
    <stdio>
        <exit_code range="1:"  level="fatal" description="Error" />
    </stdio>
    <command interpreter="python">riboplot/ribocount.py
    --ribo_file "${ribo_file}"
    --transcriptome_fasta "${transcriptome_fasta}"
    --read_length "${read_length}"
    --read_offset "${read_offset}"
    --html_file "${html_file}"

18:cff63cf0dea8

<tool id="ribocount" name="ribocount" version="0.1.0">
    <description>Get read counts for all transcripts in an alignment (BAM)
    </description>
    <requirements>
        <requirement type="package" version="0.1.0">riboplot</requirement>
    </requirements>
    <stdio>
        <exit_code range="1:"  level="fatal" description="Error" />
    </stdio>
    <command interpreter="python">ribocount
    --ribo_file "${ribo_file}"
    --transcriptome_fasta "${transcriptome_fasta}"
    --read_length "${read_length}"
    --read_offset "${read_offset}"
    --html_file "${html_file}"