comparison tools/seq_select_by_id/seq_select_by_id.xml @ 9:3b0a14722175 draft default tip

v0.0.14 - Script works on Python 2 and 3 (fixed output file mode)

8:8e1a90917fa7

<tool id="seq_select_by_id" name="Select sequences by ID" version="0.0.13">
    <description>from a tabular file</description>
    <requirements>
        <requirement type="package" version="1.67">biopython</requirement>
    </requirements>
    <version_command>

python $__tool_directory__/seq_select_by_id.py '$input_tabular' '$column' '$input_file' '$input_file.ext' '$output_file'
    </command>
    <inputs>
        <param name="input_file" type="data" format="fasta,qual,fastq,sff" label="Sequence file to select from" help="FASTA, QUAL, FASTQ, or SFF format." />
        <param name="input_tabular" type="data" format="tabular" label="Tabular file containing sequence identifiers"/>
        <param name="column" type="data_column" data_ref="input_tabular" multiple="False" numerical="False" label="Column containing sequence identifiers"/>
    </inputs>
    <outputs>
        <data name="output_file" format_source="input_file" metadata_source="input_file" label="Selected sequences from $input_file.name"/>
    </outputs>
    <tests>

9:3b0a14722175

<tool id="seq_select_by_id" name="Select sequences by ID" version="0.0.14">
    <description>from a tabular file</description>
    <requirements>
        <requirement type="package" version="1.67">biopython</requirement>
    </requirements>
    <version_command>

python $__tool_directory__/seq_select_by_id.py '$input_tabular' '$column' '$input_file' '$input_file.ext' '$output_file'
    </command>
    <inputs>
        <param name="input_file" type="data" format="fasta,qual,fastq,sff" label="Sequence file to select from" help="FASTA, QUAL, FASTQ, or SFF format." />
        <param name="input_tabular" type="data" format="tabular" label="Tabular file containing sequence identifiers"/>
        <param name="column" type="data_column" data_ref="input_tabular" multiple="false" numerical="false" label="Column containing sequence identifiers"/>
    </inputs>
    <outputs>
        <data name="output_file" format_source="input_file" metadata_source="input_file" label="Selected sequences from $input_file.name"/>
    </outputs>
    <tests>